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October 18, 2019 10:07
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| $ sudo fmriprep-docker -i poldracklab/fmriprep:latest -u 12218:12218 -w /louis/temp-151rc1-run2 /louis/raw_bids /louis/derivatives-151rc1-run2 participant --fs-license-file=/usr/local/freesurfer/license.txt --ignore slicetiming --output-spaces MNI152NLin2009cAsym:res-2 T1w fsaverage5 --participant-label 12345 | |
| [sudo] password for louis: | |
| RUNNING: docker run --rm -it -e DOCKER_VERSION_8395080871=18.09.7 -u 12218:12218 -v /usr/local/freesurfer/license.txt:/opt/freesurfer/license.txt:ro -v /louis/raw_bids:/data:ro -v /louis/derivatives-151rc1-run2:/out -v /louis/temp-151rc1-run2:/scratch poldracklab/fmriprep:latest /data /out participant --ignore slicetiming --output-spaces MNI152NLin2009cAsym:res-2 T1w fsaverage5 --participant-label 12345 -w /scratch | |
| Making sure the input data is BIDS compliant (warnings can be ignored in most cases). | |
| 1: [WARN] The recommended file /README is missing. See Section 03 (Modality agnostic files) of the BIDS specification. (code: 101 - README_FILE_MISSING) | |
| Please visit https://neurostars.org/search?q=README_FILE_MISSING for existing conversations about this issue. | |
| Summary: Available Tasks: Available Modalities: | |
| 24 Files, 1.48GB pass T1w | |
| 1 - Subject reapp bold | |
| 1 - Session rest fieldmap | |
| If you have any questions, please post on https://neurostars.org/tags/bids. | |
| 191018-03:05:20,350 nipype.workflow IMPORTANT: | |
| Running fMRIPREP version 1.5.1rc1: | |
| * BIDS dataset path: /data. | |
| * Participant list: ['ochsAging2337']. | |
| * Run identifier: 20191018-030519_9ac90838-b36a-4b04-adc6-de7e8d949413. | |
| 191018-03:05:20,781 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:05:26,654 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-pass_run-01_bold.nii.gz" (0.15 GB / 176 TRs). Memory resampled/largemem=0.60/0.86 GB. | |
| 191018-03:05:26,668 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-pass_run-01_bold.nii.gz | |
| 191018-03:05:28,191 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-pass_run-01_bold.nii.gz found. | |
| 191018-03:05:29,721 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:05:33,595 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-pass_run-02_bold.nii.gz" (0.15 GB / 176 TRs). Memory resampled/largemem=0.59/0.86 GB. | |
| 191018-03:05:33,608 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-pass_run-02_bold.nii.gz | |
| 191018-03:05:34,903 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-pass_run-02_bold.nii.gz found. | |
| 191018-03:05:36,438 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:05:40,267 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-01_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/1.00 GB. | |
| 191018-03:05:40,281 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-01_bold.nii.gz | |
| 191018-03:05:41,717 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-01_bold.nii.gz found. | |
| 191018-03:05:43,204 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:05:46,931 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-02_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/1.00 GB. | |
| 191018-03:05:46,944 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-02_bold.nii.gz | |
| 191018-03:05:48,411 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-02_bold.nii.gz found. | |
| 191018-03:05:49,894 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:05:53,653 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-03_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/1.00 GB. | |
| 191018-03:05:53,666 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-03_bold.nii.gz | |
| 191018-03:05:54,961 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-03_bold.nii.gz found. | |
| 191018-03:05:56,660 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:06:00,453 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-04_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/0.99 GB. | |
| 191018-03:06:00,467 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-04_bold.nii.gz | |
| 191018-03:06:01,789 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-04_bold.nii.gz found. | |
| 191018-03:06:03,271 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:06:07,123 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-05_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.67/0.99 GB. | |
| 191018-03:06:07,137 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-05_bold.nii.gz | |
| 191018-03:06:08,427 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-05_bold.nii.gz found. | |
| 191018-03:06:10,177 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:06:14,23 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-reapp_run-06_bold.nii.gz" (0.17 GB / 196 TRs). Memory resampled/largemem=0.66/0.99 GB. | |
| 191018-03:06:14,37 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-reapp_run-06_bold.nii.gz | |
| 191018-03:06:15,346 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-reapp_run-06_bold.nii.gz found. | |
| 191018-03:06:16,841 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:06:20,720 nipype.workflow IMPORTANT: | |
| Creating bold processing workflow for "/data/12345/func/12345_task-rest_run-01_bold.nii.gz" (0.16 GB / 285 TRs). Memory resampled/largemem=0.64/1.09 GB. | |
| 191018-03:06:20,733 nipype.workflow IMPORTANT: | |
| No single-band-reference found for 12345_task-rest_run-01_bold.nii.gz | |
| 191018-03:06:22,38 nipype.workflow IMPORTANT: | |
| SDC: fieldmap estimation of type "epi" intended for /data/12345/func/12345_task-rest_run-01_bold.nii.gz found. | |
| 191018-03:06:23,521 nipype.workflow IMPORTANT: | |
| Creating BOLD surface-sampling workflow. | |
| 191018-03:06:34,881 nipype.workflow IMPORTANT: | |
| Works derived from this fMRIPrep execution should include the following boilerplate: | |
| Results included in this manuscript come from preprocessing | |
| performed using *fMRIPrep* 1.5.1rc1 | |
| (@fmriprep1; @fmriprep2; RRID:SCR_016216), | |
| which is based on *Nipype* 1.3.0-rc1 | |
| (@nipype1; @nipype2; RRID:SCR_002502). | |
| Anatomical data preprocessing | |
| : The T1-weighted (T1w) image was corrected for intensity non-uniformity (INU) | |
| with `N4BiasFieldCorrection` [@n4], distributed with ANTs 2.2.0 [@ants, RRID:SCR_004757], and used as T1w-reference throughout the workflow. | |
| The T1w-reference was then skull-stripped with a *Nipype* implementation of | |
| the `antsBrainExtraction.sh` workflow (from ANTs), using OASIS30ANTs | |
| as target template. | |
| Brain tissue segmentation of cerebrospinal fluid (CSF), | |
| white-matter (WM) and gray-matter (GM) was performed on | |
| the brain-extracted T1w using `fast` [FSL 5.0.9, RRID:SCR_002823, | |
| @fsl_fast]. | |
| Brain surfaces were reconstructed using `recon-all` [FreeSurfer 6.0.1, | |
| RRID:SCR_001847, @fs_reconall], and the brain mask estimated | |
| previously was refined with a custom variation of the method to reconcile | |
| ANTs-derived and FreeSurfer-derived segmentations of the cortical | |
| gray-matter of Mindboggle [RRID:SCR_002438, @mindboggle]. | |
| Volume-based spatial normalization to one standard space (MNI152NLin2009cAsym) was performed through | |
| nonlinear registration with `antsRegistration` (ANTs 2.2.0), | |
| using brain-extracted versions of both T1w reference and the T1w template. | |
| The following template was selected for spatial normalization: | |
| *ICBM 152 Nonlinear Asymmetrical template version 2009c* [@mni152nlin2009casym, RRID:SCR_008796; TemplateFlow ID: MNI152NLin2009cAsym]. | |
| Functional data preprocessing | |
| : For each of the 9 BOLD runs found per subject (across all | |
| tasks and sessions), the following preprocessing was performed. | |
| First, a reference volume and its skull-stripped version were generated | |
| using a custom methodology of *fMRIPrep*. | |
| A deformation field to correct for susceptibility distortions was estimated | |
| based on two echo-planar imaging (EPI) references with opposing phase-encoding | |
| directions, using `3dQwarp` @afni (AFNI 20160207). | |
| Based on the estimated susceptibility distortion, an | |
| unwarped BOLD reference was calculated for a more accurate | |
| co-registration with the anatomical reference. | |
| The BOLD reference was then co-registered to the T1w reference using | |
| `bbregister` (FreeSurfer) which implements boundary-based registration [@bbr]. | |
| Co-registration was configured with six degrees of freedom. | |
| Head-motion parameters with respect to the BOLD reference | |
| (transformation matrices, and six corresponding rotation and translation | |
| parameters) are estimated before any spatiotemporal filtering using | |
| `mcflirt` [FSL 5.0.9, @mcflirt]. | |
| The BOLD time-series, were resampled to surfaces on the following | |
| spaces: *fsaverage5*. | |
| The BOLD time-series (including slice-timing correction when applied) | |
| were resampled onto their original, native space by applying | |
| a single, composite transform to correct for head-motion and | |
| susceptibility distortions. | |
| These resampled BOLD time-series will be referred to as *preprocessed | |
| BOLD in original space*, or just *preprocessed BOLD*. | |
| The BOLD time-series were resampled into standard space, | |
| generating a *preprocessed BOLD run in ['MNI152NLin2009cAsym'] space*. | |
| First, a reference volume and its skull-stripped version were generated | |
| using a custom methodology of *fMRIPrep*. | |
| Several confounding time-series were calculated based on the | |
| *preprocessed BOLD*: framewise displacement (FD), DVARS and | |
| three region-wise global signals. | |
| FD and DVARS are calculated for each functional run, both using their | |
| implementations in *Nipype* [following the definitions by @power_fd_dvars]. | |
| The three global signals are extracted within the CSF, the WM, and | |
| the whole-brain masks. | |
| Additionally, a set of physiological regressors were extracted to | |
| allow for component-based noise correction [*CompCor*, @compcor]. | |
| Principal components are estimated after high-pass filtering the | |
| *preprocessed BOLD* time-series (using a discrete cosine filter with | |
| 128s cut-off) for the two *CompCor* variants: temporal (tCompCor) | |
| and anatomical (aCompCor). | |
| tCompCor components are then calculated from the top 5% variable | |
| voxels within a mask covering the subcortical regions. | |
| This subcortical mask is obtained by heavily eroding the brain mask, | |
| which ensures it does not include cortical GM regions. | |
| For aCompCor, components are calculated within the intersection of | |
| the aforementioned mask and the union of CSF and WM masks calculated | |
| in T1w space, after their projection to the native space of each | |
| functional run (using the inverse BOLD-to-T1w transformation). Components | |
| are also calculated separately within the WM and CSF masks. | |
| For each CompCor decomposition, the *k* components with the largest singular | |
| values are retained, such that the retained components' time series are | |
| sufficient to explain 50 percent of variance across the nuisance mask (CSF, | |
| WM, combined, or temporal). The remaining components are dropped from | |
| consideration. | |
| The head-motion estimates calculated in the correction step were also | |
| placed within the corresponding confounds file. | |
| The confound time series derived from head motion estimates and global | |
| signals were expanded with the inclusion of temporal derivatives and | |
| quadratic terms for each [@confounds_satterthwaite_2013]. | |
| Frames that exceeded a threshold of 0.5 mm FD or 1.5 standardised DVARS | |
| were annotated as motion outliers. | |
| All resamplings can be performed with *a single interpolation | |
| step* by composing all the pertinent transformations (i.e. head-motion | |
| transform matrices, susceptibility distortion correction when available, | |
| and co-registrations to anatomical and output spaces). | |
| Gridded (volumetric) resamplings were performed using `antsApplyTransforms` (ANTs), | |
| configured with Lanczos interpolation to minimize the smoothing | |
| effects of other kernels [@lanczos]. | |
| Non-gridded (surface) resamplings were performed using `mri_vol2surf` | |
| (FreeSurfer). | |
| Many internal operations of *fMRIPrep* use | |
| *Nilearn* 0.5.2 [@nilearn, RRID:SCR_001362], | |
| mostly within the functional processing workflow. | |
| For more details of the pipeline, see [the section corresponding | |
| to workflows in *fMRIPrep*'s documentation](https://fmriprep.readthedocs.io/en/latest/workflows.html "FMRIPrep's documentation"). | |
| ### Copyright Waiver | |
| The above boilerplate text was automatically generated by fMRIPrep | |
| with the express intention that users should copy and paste this | |
| text into their manuscripts *unchanged*. | |
| It is released under the [CC0](https://creativecommons.org/publicdomain/zero/1.0/) license. | |
| ### References | |
| 191018-03:08:09,469 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,470 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,473 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,474 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,481 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,482 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,510 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,514 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,523 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,526 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,530 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,530 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,534 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,534 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,537 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,539 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,542 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,545 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,594 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,598 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,606 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,608 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,613 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,622 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,623 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.func_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/func_derivatives_wf/raw_sources". | |
| 191018-03:08:09,627 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:09,636 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.func_derivatives_wf.raw_sources". | |
| 191018-03:08:09,667 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,672 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,675 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,676 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,681 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,682 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,684 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,685 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,686 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,687 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,688 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,689 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,692 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,700 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,701 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,705 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,706 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,708 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,709 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,710 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,713 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,713 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,725 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,732 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,733 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,734 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,735 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,738 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,739 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,741 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,742 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,745 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,745 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,749 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,767 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,775 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,779 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,800 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,808 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,809 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split". | |
| 191018-03:08:09,812 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,817 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0". | |
| 191018-03:08:09,821 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-AP_epi.nii.gz -t | |
| 191018-03:08:09,841 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,849 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,853 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,872 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,878 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,881 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:09,883 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split". | |
| 191018-03:08:09,891 nipype.workflow INFO: | |
| [Node] Setting-up "_split0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0". | |
| 191018-03:08:09,895 nipype.workflow INFO: | |
| [Node] Running "_split0" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/fmap/12345_dir-PA_epi.nii.gz -t | |
| 191018-03:08:11,664 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:11,667 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:11,703 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:11,703 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:11,705 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:11,705 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:11,823 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:11,825 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,45 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,47 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:12,77 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,79 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,157 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,159 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,282 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,285 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:12,289 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,291 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,306 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,309 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:12,317 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,318 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,320 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:12,320 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,329 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,331 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,349 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,350 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:12,375 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,378 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,422 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,424 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,468 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,471 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.split". | |
| 191018-03:08:12,499 nipype.workflow INFO: | |
| [Node] Finished "_split0". | |
| 191018-03:08:12,500 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.split". | |
| 191018-03:08:13,87 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,90 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,215 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl". | |
| 191018-03:08:13,219 nipype.workflow INFO: | |
| [Node] Running "res_tmpl" ("niworkflows.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command: | |
| ResampleImageBySpacing 3 /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz tpl-OASIS30ANTs_res-01_T1w_resampled.nii.gz 4 4 4 1 | |
| 191018-03:08:13,362 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,362 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,366 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,366 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,414 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,417 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,418 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,420 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,435 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:13,477 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,480 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,509 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,512 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,585 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.validate". | |
| 191018-03:08:13,596 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,599 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,629 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl". | |
| 191018-03:08:13,632 nipype.workflow INFO: | |
| [Node] Running "lap_tmpl" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: | |
| ImageMath 3 tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz Laplacian /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz 1.5 1 | |
| 191018-03:08:13,787 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/validate". | |
| 191018-03:08:13,791 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:08:13,854 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:14,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.bidssrc" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/bidssrc". | |
| 191018-03:08:14,676 nipype.workflow INFO: | |
| [Node] Running "bidssrc" ("niworkflows.interfaces.bids.BIDSDataGrabber") | |
| 191018-03:08:14,679 nipype.interface WARNING: | |
| No "t2w" images found for sub-<undefined> | |
| 191018-03:08:14,679 nipype.interface WARNING: | |
| No "flair" images found for sub-<undefined> | |
| 191018-03:08:14,680 nipype.interface WARNING: | |
| No "sbref" images found for sub-<undefined> | |
| 191018-03:08:14,680 nipype.interface WARNING: | |
| No "roi" images found for sub-<undefined> | |
| 191018-03:08:14,688 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.bidssrc". | |
| 191018-03:08:16,66 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_tmpl". | |
| 191018-03:08:16,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_split". | |
| 191018-03:08:17,697 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:17,698 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:17,703 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:17,707 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:17,711 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:17,711 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:17,713 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:17,721 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:17,725 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:17,732 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,211 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:18,216 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,235 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:18,243 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,566 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:18,574 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,697 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:18,703 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,716 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:18,722 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:18,723 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:18,724 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,731 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,731 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,732 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:18,739 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,920 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:18,926 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:18,941 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:18,950 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:19,118 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:19,123 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:19,147 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge". | |
| 191018-03:08:19,155 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:19,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge". | |
| 191018-03:08:19,465 nipype.workflow INFO: | |
| [Node] Running "merge" ("niworkflows.interfaces.freesurfer.StructuralReference"), a CommandLine Interface with command: | |
| mri_robust_template --satit --fixtp --mov /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0000.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0001.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0002.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/split/mapflow/_split0/vol0003.nii.gz --inittp 1 --iscale --noit --template template.nii.gz --subsample 200 | |
| 191018-03:08:19,961 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /data/12345/func/12345_task-rest_run-01_bold.nii.gz -t | |
| 191018-03:08:20,713 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/t1_template_dimensions". | |
| 191018-03:08:20,912 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref". | |
| 191018-03:08:20,932 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:21,210 nipype.workflow INFO: | |
| [Node] Running "t1_template_dimensions" ("niworkflows.interfaces.images.TemplateDimensions") | |
| 191018-03:08:21,648 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_template_dimensions". | |
| 191018-03:08:21,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.bids_info" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/bids_info". | |
| 191018-03:08:21,673 nipype.workflow INFO: | |
| [Node] Running "bids_info" ("niworkflows.interfaces.bids.BIDSInfo") | |
| 191018-03:08:22,157 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.gen_ref". | |
| 191018-03:08:22,185 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.bids_info". | |
| 191018-03:08:24,471 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:08:26,90 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.validate". | |
| 191018-03:08:26,736 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_derivatives_wf/raw_sources". | |
| 191018-03:08:26,736 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.t1_name" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_derivatives_wf/t1_name". | |
| 191018-03:08:27,157 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_tmpl". | |
| 191018-03:08:27,405 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.validate". | |
| 191018-03:08:27,608 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_split". | |
| 191018-03:08:27,704 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.validate". | |
| 191018-03:08:27,976 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.validate". | |
| 191018-03:08:28,391 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.validate". | |
| 191018-03:08:28,536 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.validate". | |
| 191018-03:08:28,796 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.validate". | |
| 191018-03:08:28,815 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.validate". | |
| 191018-03:08:28,929 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /data/12345/func/12345_task-rest_run-01_bold.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/mcflirt/12345_task-rest_run-01_bold_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:08:29,162 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:08:29,174 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:08:29,946 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:30,464 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref". | |
| 191018-03:08:30,465 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_split". | |
| 191018-03:08:30,470 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:30,491 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/validate/12345_task-pass_run-02_bold_valid.nii.gz -t | |
| 191018-03:08:30,805 nipype.workflow INFO: | |
| [Node] Running "raw_sources" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:30,809 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.raw_sources". | |
| 191018-03:08:31,74 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref". | |
| 191018-03:08:31,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_split". | |
| 191018-03:08:31,84 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/validate/12345_task-reapp_run-01_bold_valid.nii.gz -t | |
| 191018-03:08:31,94 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:31,398 nipype.workflow INFO: | |
| [Node] Running "t1_name" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:08:31,406 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_derivatives_wf.t1_name". | |
| 191018-03:08:31,455 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_conform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/t1_conform". | |
| 191018-03:08:31,460 nipype.workflow INFO: | |
| [Node] Setting-up "_t1_conform0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/t1_conform/mapflow/_t1_conform0". | |
| 191018-03:08:31,463 nipype.workflow INFO: | |
| [Node] Running "_t1_conform0" ("niworkflows.interfaces.images.Conform") | |
| 191018-03:08:31,666 nipype.workflow INFO: | |
| [Node] Finished "_t1_conform0". | |
| 191018-03:08:31,669 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.t1_conform". | |
| 191018-03:08:31,720 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref". | |
| 191018-03:08:31,720 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_split". | |
| 191018-03:08:31,727 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:31,741 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/validate/12345_task-reapp_run-02_bold_valid.nii.gz -t | |
| 191018-03:08:32,380 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref".191018-03:08:32,381 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_split". | |
| 191018-03:08:32,392 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:32,401 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/validate/12345_task-reapp_run-03_bold_valid.nii.gz -t | |
| 191018-03:08:32,840 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/validate/12345_task-pass_run-01_bold_valid.nii.gz -t | |
| 191018-03:08:33,742 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref". | |
| 191018-03:08:33,743 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_split". | |
| 191018-03:08:33,747 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:33,749 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/validate/12345_task-reapp_run-04_bold_valid.nii.gz -t | |
| 191018-03:08:34,92 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:34,186 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.185995:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:08:34,188 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.185995:++ Authored by: RW Cox | |
| 191018-03:08:34,190 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:08:34,191 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:08:34,193 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:08:34,193 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046: you should consider running: | |
| 191018-03:08:34,194 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046: 3dWarp -deoblique | |
| 191018-03:08:34,195 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046: on this and other oblique datasets in the same session. | |
| 191018-03:08:34,196 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046: See 3dWarp -help for details. | |
| 191018-03:08:34,196 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:08:34,196 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.190046:++ Coarse del was 10, replaced with 7 | |
| 191018-03:08:34,272 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.gen_ref". | |
| 191018-03:08:34,420 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref". | |
| 191018-03:08:34,428 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:08:34,510 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.510376:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:08:34,511 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.510376:++ Authored by: RW Cox | |
| 191018-03:08:34,512 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:08:34,513 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:08:34,515 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:08:34,515 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078: you should consider running: | |
| 191018-03:08:34,516 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078: 3dWarp -deoblique | |
| 191018-03:08:34,517 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078: on this and other oblique datasets in the same session. | |
| 191018-03:08:34,517 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078: See 3dWarp -help for details. | |
| 191018-03:08:34,517 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:08:34,517 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:34.512078:++ Coarse del was 10, replaced with 7 | |
| 191018-03:08:35,153 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:08:35,167 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/validate/12345_task-reapp_run-02_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-02_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:08:35,564 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:35,660 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.660273:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.660273:++ Authored by: RW Cox | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434: you should consider running: | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434: 3dWarp -deoblique | |
| 191018-03:08:35,661 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434: on this and other oblique datasets in the same session. | |
| 191018-03:08:35,662 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434: See 3dWarp -help for details. | |
| 191018-03:08:35,662 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.661434:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:08:35,662 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:35.662294:++ Coarse del was 10, replaced with 7 | |
| 191018-03:08:37,358 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:37,449 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.448824:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:08:37,449 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.448824:++ Authored by: RW Cox | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979: you should consider running: | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979: 3dWarp -deoblique | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979: on this and other oblique datasets in the same session. | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.449979: See 3dWarp -help for details. | |
| 191018-03:08:37,450 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.450760:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:08:37,451 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:37.450991:++ Coarse del was 10, replaced with 7 | |
| 191018-03:08:38,268 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:38,351 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.351655:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:08:38,353 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.351655:++ Authored by: RW Cox | |
| 191018-03:08:38,353 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:08:38,353 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635: you should consider running: | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635: 3dWarp -deoblique | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635: on this and other oblique datasets in the same session. | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635: See 3dWarp -help for details. | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:08:38,354 nipype.interface INFO: | |
| stderr 2019-10-18T03:08:38.353635:++ Coarse del was 10, replaced with 7 | |
| 191018-03:08:38,967 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:08:41,61 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:08:41,70 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:08:41,398 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:51,737 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:08:53,181 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:08:53,212 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:08:53,581 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:08:58,479 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:09:00,799 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_split". | |
| 191018-03:09:02,555 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref". | |
| 191018-03:09:02,556 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:09:02,556 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_split". | |
| 191018-03:09:02,557 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_split" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_split". | |
| 191018-03:09:02,560 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:09:02,567 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/validate/12345_task-reapp_run-06_bold_valid.nii.gz -t | |
| 191018-03:09:02,568 nipype.workflow INFO: | |
| [Node] Running "bold_split" ("nipype.interfaces.fsl.utils.Split"), a CommandLine Interface with command: | |
| fslsplit /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/validate/12345_task-reapp_run-05_bold_valid.nii.gz -t | |
| 191018-03:09:02,571 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:09:02,945 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:03,277 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref". | |
| 191018-03:09:03,278 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/mrg_tmpl". | |
| 191018-03:09:03,280 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.get1st" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/anat_template_wf/get1st". | |
| 191018-03:09:03,283 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:09:03,284 nipype.workflow INFO: | |
| [Node] Running "mrg_tmpl" ("nipype.interfaces.utility.base.Merge") | |
| 191018-03:09:03,286 nipype.workflow INFO: | |
| [Node] Running "get1st" ("nipype.interfaces.utility.base.Select") | |
| 191018-03:09:03,290 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_tmpl". | |
| 191018-03:09:03,292 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.anat_template_wf.get1st". | |
| 191018-03:09:06,409 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:06,522 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.521773:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:09:06,522 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.522567:++ Authored by: RW Cox | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205: you should consider running: | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205: 3dWarp -deoblique | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205: on this and other oblique datasets in the same session. | |
| 191018-03:09:06,524 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.524205: See 3dWarp -help for details. | |
| 191018-03:09:06,525 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.525350:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:09:06,525 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:06.525716:++ Coarse del was 10, replaced with 7 | |
| 191018-03:09:07,307 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:07,411 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.411030:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:09:07,411 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.411030:++ Authored by: RW Cox | |
| 191018-03:09:07,412 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:09:07,412 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:09:07,413 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:09:07,413 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410: you should consider running: | |
| 191018-03:09:07,414 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410: 3dWarp -deoblique | |
| 191018-03:09:07,414 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410: on this and other oblique datasets in the same session. | |
| 191018-03:09:07,415 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410: See 3dWarp -help for details. | |
| 191018-03:09:07,415 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:09:07,415 nipype.interface INFO: | |
| stderr 2019-10-18T03:09:07.412410:++ Coarse del was 10, replaced with 7 | |
| 191018-03:09:07,526 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.fov_check" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/surface_recon_wf/fov_check". | |
| 191018-03:09:07,529 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.truncate_images" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/truncate_images". | |
| 191018-03:09:07,532 nipype.workflow INFO: | |
| [Node] Running "fov_check" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:09:07,537 nipype.workflow INFO: | |
| [Node] Setting-up "_truncate_images0" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0". | |
| 191018-03:09:07,541 nipype.workflow INFO: | |
| [Node] Running "_truncate_images0" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: | |
| ImageMath 3 12345_T1w_maths.nii.gz TruncateImageIntensity /data/12345/anat/12345_T1w.nii.gz 0.01 0.999 256 | |
| 191018-03:09:07,827 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.recon_config" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/surface_recon_wf/recon_config". | |
| 191018-03:09:08,185 nipype.workflow INFO: | |
| [Node] Running "recon_config" ("niworkflows.interfaces.freesurfer.FSDetectInputs") | |
| 191018-03:09:08,220 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.recon_config". | |
| 191018-03:09:08,401 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_split". | |
| 191018-03:09:08,448 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.fov_check". | |
| 191018-03:09:10,910 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_split". | |
| 191018-03:09:12,757 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_split". | |
| 191018-03:09:13,37 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_split". | |
| 191018-03:09:13,326 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_split". | |
| 191018-03:09:15,542 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:09:15,558 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:09:15,730 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_split". | |
| 191018-03:09:18,795 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:09:19,550 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:09:19,558 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:09:21,199 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:21,863 nipype.workflow INFO: | |
| [Node] Finished "_truncate_images0". | |
| 191018-03:09:21,865 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.truncate_images". | |
| 191018-03:09:22,47 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:09:22,78 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:23,736 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:24,903 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:24,906 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:24,933 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:25,311 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:25,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:09:25,671 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:09:25,922 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:26,622 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:27,496 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:09:27,596 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:09:27,691 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:09:28,929 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.merge". | |
| 191018-03:09:29,459 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:09:29,469 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:09:29,475 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:09:29,596 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:09:29,717 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:29,893 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:34,652 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:09:35,462 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:09:35,694 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:09:35,944 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:37,334 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:09:38,607 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:09:39,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:09:39,457 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:09:39,464 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:09:39,718 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:09:40,850 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:09:41,365 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_split". | |
| 191018-03:09:41,545 nipype.interface WARNING: | |
| q-forms of reference and mask are substantially different | |
| 191018-03:09:41,701 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_split". | |
| 191018-03:09:41,706 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:09:43,342 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:09:43,463 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:09:43,463 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:09:43,471 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:09:43,540 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:09:43,786 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:45,524 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:09:45,778 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:09:46,508 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:09:47,455 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:09:47,461 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:09:48,62 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:09:49,515 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:09:49,519 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:09:49,526 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:09:49,545 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:09:49,817 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:49,829 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:50,567 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:09:51,447 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:09:51,456 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:09:51,461 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:09:51,469 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:09:51,733 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:51,744 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:52,441 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:09:53,548 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:09:53,558 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:09:53,562 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:09:53,583 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:09:53,835 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:53,906 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:09:54,570 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:09:55,487 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:09:55,494 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:09:56,39 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:09:57,474 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:09:57,482 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:09:57,837 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:09:58,303 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:09:58,981 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:09:59,441 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:09:59,443 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:09:59,447 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:09:59,450 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:10:00,361 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:01,165 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:01,399 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:01,410 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:02,892 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:03,361 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:03,443 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:03,513 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:10:03,530 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:04,428 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:05,279 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:05,508 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:05,508 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:10:05,517 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:05,517 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:10:05,609 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:05,630 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:05,735 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:05,745 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:10:05,859 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:05,887 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:05,913 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:06,135 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:06,270 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:06,896 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:07,62 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:10:07,398 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:07,477 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:07,478 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:07,484 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:07,484 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:09,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate".191018-03:10:09,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:10:09,458 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:10:09,463 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:10:09,464 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:09,465 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:10:09,513 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.merge". | |
| 191018-03:10:09,624 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:09,626 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:10:09,929 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:10,320 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:11,957 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:12,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:12,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:10:12,33 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:10:12,34 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:12,38 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:12,43 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:12,545 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:10:12,648 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:13,154 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:13.153817:++ Max displacement in automask = 1.01 (mm) at sub-brick 4 | |
| 191018-03:10:13,154 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:13.153817:++ Max delta displ in automask = 0.69 (mm) at sub-brick 5 | |
| 191018-03:10:13,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:13,656 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:13,914 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:13,954 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:10:14,66 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:10:14,67 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:14,71 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:10:14,93 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:14,125 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:10:14,365 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:14,508 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:15,26 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:15.026499:++ Max displacement in automask = 1.51 (mm) at sub-brick 16 | |
| 191018-03:10:15,26 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:15.026499:++ Max delta displ in automask = 0.64 (mm) at sub-brick 5 | |
| 191018-03:10:15,435 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:15,436 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:15,458 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:15,555 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:15,719 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:16,70 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:10:16,70 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:10:16,76 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:10:16,78 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:10:16,196 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:10:16,298 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:10:16,843 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:17,450 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:17,451 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:17,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:17,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:10:17,459 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:10:17,459 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:17,463 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:10:17,466 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:10:17,483 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:17,560 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:17,733 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:10:17,824 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:17,919 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:10:18,53 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:18,252 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:18,413 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:19,24 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:19,483 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:19,484 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:10:19,495 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:19,495 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:19,501 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/validate/12345_task-pass_run-01_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/mcflirt/12345_task-pass_run-01_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:19,501 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:19,606 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:19,729 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:19,781 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:19,782 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:19,974 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:10:19,975 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:19,980 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:10:19,995 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:20,29 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:10:20,125 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:20.125729:++ Max displacement in automask = 1.54 (mm) at sub-brick 19 | |
| 191018-03:10:20,126 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:20.125729:++ Max delta displ in automask = 0.65 (mm) at sub-brick 19 | |
| 191018-03:10:20,213 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:20,791 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:20.791570:++ Max displacement in automask = 1.07 (mm) at sub-brick 3 | |
| 191018-03:10:20,792 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:20.791570:++ Max delta displ in automask = 1.26 (mm) at sub-brick 13 | |
| 191018-03:10:21,449 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:21,450 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:21,455 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:21,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/mcflirt".191018-03:10:21,456 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:21,461 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:21,476 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/validate/12345_task-reapp_run-04_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-04_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:21,478 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:21,479 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:21.479746:++ Max displacement in automask = 1.17 (mm) at sub-brick 19 | |
| 191018-03:10:21,480 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:21.479746:++ Max delta displ in automask = 0.49 (mm) at sub-brick 19 | |
| 191018-03:10:21,715 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:23,645 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:10:23,936 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:24,528 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:25,118 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:25,461 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:10:25,469 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/validate/12345_task-reapp_run-01_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-01_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:25,981 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:26,610 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:10:26,646 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:26,650 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:10:26,668 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:10:27,145 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:10:27,154 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:10:27,336 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:10:27,693 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:27,694 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:10:27,703 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/validate/12345_task-pass_run-02_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/mcflirt/12345_task-pass_run-02_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:27,715 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:27,974 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:28,290 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:28,388 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:28,604 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:10:28,880 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_confounds_wf/fdisp". | |
| 191018-03:10:28,886 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:10:28,901 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.fdisp". | |
| 191018-03:10:29,715 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:10:29,715 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:10:29,720 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:10:29,734 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/validate/12345_task-reapp_run-03_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-03_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:29,961 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:30,260 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:10:30,268 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:10:30,508 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:10:30,808 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:31,151 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:10:31,153 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:31,796 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:31,797 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:10:31,798 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:31,811 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:31,819 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:10:31,821 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:31,822 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:31,822 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:32,53 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:32,85 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:32,142 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:10:32,183 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:32,471 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:10:33,201 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:33,766 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate".191018-03:10:33,766 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:10:33,768 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:33,771 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:33,772 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:10:33,775 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:10:33,778 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:33,781 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:33,782 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:33,788 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:34,449 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:34,556 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:10:35,668 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:35,760 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:35,761 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:10:35,766 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:10:35,767 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:36,472 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:10:36,658 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:10:37,667 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:37,668 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:10:37,668 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:37,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:10:37,691 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:10:37,691 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:37,729 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:10:37,747 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:10:37,897 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:38,152 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:38,593 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:38,641 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:39,389 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:39.388963:++ Max displacement in automask = 1.22 (mm) at sub-brick 15 | |
| 191018-03:10:39,389 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:39.388963:++ Max delta displ in automask = 0.86 (mm) at sub-brick 1 | |
| 191018-03:10:39,977 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:40,258 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:40,397 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:40,400 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:10:40,413 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:40,477 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:10:41,718 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:41,723 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:41,741 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:41,902 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:42,392 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:10:43,221 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:43,295 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:10:43,612 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:43,671 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:10:43,680 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:10:43,793 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:44,327 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:44.327623:++ Max displacement in automask = 2.11 (mm) at sub-brick 12 | |
| 191018-03:10:44,327 nipype.interface INFO: | |
| stderr 2019-10-18T03:10:44.327623:++ Max delta displ in automask = 1.35 (mm) at sub-brick 15 | |
| 191018-03:10:44,799 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:44,986 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:10:45,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:10:45,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:45,696 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:10:45,697 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:45,698 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:45,700 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:45,703 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:10:45,705 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:45,706 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:10:45,707 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:45,954 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:10:46,11 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:10:46,24 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:10:46,339 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:46,339 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:10:46,346 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:46,357 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/validate/12345_task-reapp_run-05_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-05_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:46,494 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:10:47,129 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:47,426 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:47,433 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_confounds_wf/fdisp". | |
| 191018-03:10:47,438 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:10:47,451 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_confounds_wf.fdisp". | |
| 191018-03:10:47,707 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:48,74 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:10:48,76 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:10:48,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:10:48,78 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:48,79 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:10:48,79 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:48,82 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:10:48,82 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:10:48,82 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:10:48,85 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:10:48,85 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:10:48,87 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:48,88 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:10:48,185 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:48,351 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:10:48,367 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.gen_ref". | |
| 191018-03:10:50,345 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:50,679 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:10:50,680 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.mcflirt" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/mcflirt". | |
| 191018-03:10:50,685 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:10:50,686 nipype.workflow INFO: | |
| [Node] Running "mcflirt" ("nipype.interfaces.fsl.preprocess.MCFLIRT"), a CommandLine Interface with command: | |
| mcflirt -in /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/validate/12345_task-reapp_run-06_bold_valid.nii.gz -out /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/mcflirt/12345_task-reapp_run-06_bold_valid_mcf.nii.gz -reffile /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz -mats -plots | |
| 191018-03:10:50,962 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:10:51,976 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:52,177 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:10:52,186 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:10:53,71 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:10:53,965 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:10:53,966 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:53,966 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:10:53,968 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:10:53,972 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:10:54,83 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:10:54,91 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:54,135 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:10:55,502 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:10:56,27 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:10:56,67 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:10:56,533 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:10:56,559 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:10:57,437 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:10:58,89 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:10:58,90 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:10:58,90 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:10:58,90 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:10:58,91 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:10:58,92 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:10:58,95 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:10:58,98 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:10:58,100 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:10:58,104 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:10:58,176 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:10:58,199 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:10:58,308 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:10:58,329 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:10:58,342 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:10:58,435 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:10:58,492 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:10:58,716 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:11:00,27 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:00,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:00,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:00,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:00,29 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:00,29 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:00,34 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:00,36 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz191018-03:11:00,36 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:00,36 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:00,37 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:00,38 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:00,187 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:00,335 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:00,537 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:00,673 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:00,776 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:02,106 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:02,106 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:02,107 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:02,107 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:02,108 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:02,112 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:02,114 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:02,115 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:02,115 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:02,174 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:02,194 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:02,202 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:02,246 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:02,444 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:02,736 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:02,747 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:04,58 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:04,59 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:04,64 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:04,69 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:04,287 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:04,308 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:04,551 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:11:04,645 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:04,653 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:04,703 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:05,248 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:05,254 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:05,842 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:05,994 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:05,994 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:05,995 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:11:05,996 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:05,996 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:11:05,998 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:11:05,999 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:06,3 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:06,5 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:06,23 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:11:06,84 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:11:06,92 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:11:06,221 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:06,258 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:06,299 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:06,514 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:11:07,418 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:07,851 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:07,870 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:08,91 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:08,92 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:08,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:08,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:11:08,97 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:08,99 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:08,99 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:08,100 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:11:08,345 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:08,759 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:11:08,762 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:09,264 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:10,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:10,29 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:10,29 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:10,32 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:10,34 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:10,35 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm")191018-03:11:10,35 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m191018-03:11:10,35 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:11:10,40 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:11:10,41 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:10,46 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:11:10,47 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:11:10,205 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:10,310 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:10,323 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:11,495 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:11:11,950 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:12,42 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:12,43 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:12,43 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:12,49 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:12,51 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:12,58 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:12,651 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:12,815 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:12,876 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:14,33 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:14,34 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:14,34 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:14,34 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:14,35 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:14,40 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:14,47 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:14,48 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:14,48 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:14,49 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:14,112 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:14,345 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:14,480 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:11:16,4 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:16,5 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:16,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:11:16,11 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:16,12 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:16,33 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:11:16,210 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:16,427 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:11:16,533 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:17,38 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:17,341 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:11:18,72 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:18,73 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:18,81 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:18,82 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:18,364 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:18,393 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:18,637 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:11:18,643 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:11:18,646 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:11:18,654 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:11:18,654 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:11:18,659 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:11:18,720 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:20,32 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:20,38 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:20,38 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:20,39 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:11:20,45 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:20,131 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:20,137 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:11:20,193 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:11:20,267 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:20,439 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:21,943 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:22,28 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:22,31 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:22,32 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:22,34 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:22,34 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:11:22,35 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:11:22,37 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:22,40 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:22,45 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:11:22,48 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:11:22,600 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:22,713 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:23,318 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:23,325 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:24,25 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:24,26 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:24,26 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:24,26 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:24,26 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:24,32 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:24,32 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:24,32 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:11:24,33 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:24,52 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:11:24,137 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:24,158 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:24,198 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:24,326 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:24,330 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:24,347 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:24,508 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:24,820 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:11:25,60 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:26,2 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:26,3 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:26,3 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:26,6 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:26,7 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:26,8 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:26,9 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:11:26,10 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:26,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:26,11 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:26,11 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:26,12 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:26,14 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:26,16 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:26,16 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:11:26,17 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:26,17 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:26,32 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:11:26,239 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:26,726 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:27,488 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:28,38 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:28,39 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:28,45 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:28,46 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:28,107 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:28,257 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:11:28,318 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:28,409 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:30,97 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize".191018-03:11:30,97 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:30,104 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:30,105 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:30,240 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:30,341 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:30,689 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:11:30,700 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:11:30,704 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:11:30,706 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:11:31,609 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:11:32,43 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:32,43 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:32,43 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:11:32,47 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:32,51 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:32,130 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:11:32,348 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:32,631 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:33,109 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:33,834 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:33,998 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:34,6 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:34,6 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:34,7 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:34,10 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:34,11 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:34,13 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:34,55 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:34,152 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:34,239 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:34,992 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:11:36,46 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:36,47 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:36,47 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:36,47 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:36,48 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:36,48 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:36,53 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:36,53 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:36,53 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:36,54 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:36,54 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:36,56 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:36,203 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:36,206 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:36,289 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:36,391 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:36,429 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:36,722 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:36,731 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:37,279 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:11:38,44 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:38,46 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:38,46 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:38,49 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:38,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:38,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:38,51 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:38,53 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:38,54 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:11:38,57 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:11:38,57 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:38,60 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:38,111 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:38,308 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:11:38,330 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:38,338 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:38,346 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:38,433 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:38,449 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:38,509 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:38,533 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:38,624 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:11:38,636 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:11:40,52 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:11:40,53 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:40,54 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:40,54 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:40,55 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:11:40,55 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:40,56 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:11:40,57 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:11:40,57 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:11:40,59 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:40,61 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:40,62 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:40,62 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:11:40,63 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:11:40,63 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:11:40,86 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:11:40,101 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:11:40,113 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:40,119 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:40,132 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:11:40,142 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:11:40,288 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:41,279 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:11:42,481 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_confounds_wf/fdisp". | |
| 191018-03:11:42,481 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:42,482 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:42,484 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:11:42,484 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:42,485 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:11:42,489 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:42,490 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:42,491 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:42,495 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.fdisp". | |
| 191018-03:11:42,497 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:11:42,696 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:42,705 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:42,769 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:43,868 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:11:44,65 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:44,65 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:11:44,71 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:44,72 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:11:44,315 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:44,335 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:11:44,695 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:11:44,705 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:11:45,763 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:11:46,54 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:11:46,54 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:11:46,60 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:11:46,152 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:11:47,197 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:47,635 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:47,772 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:11:48,61 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:11:48,62 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:11:48,69 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:11:48,88 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:11:48,98 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:11:48,830 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:11:49,563 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:11:50,324 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:11:50,678 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_confounds_wf/fdisp". | |
| 191018-03:11:50,679 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:50,679 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:11:50,684 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:11:50,694 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm")191018-03:11:50,694 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:50,697 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.fdisp". | |
| 191018-03:11:50,843 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:50,859 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:11:51,624 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:11:52,87 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:11:52,99 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:11:53,229 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:11:54,97 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/normalize_motion".191018-03:11:54,97 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:54,156 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:54,185 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:11:54,200 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:11:54,777 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:55,40 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:11:56,124 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:56,129 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:56,191 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:56,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_confounds_wf/fdisp". | |
| 191018-03:11:56,673 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:11:56,676 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:11:56,681 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:11:56,691 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.fdisp". | |
| 191018-03:11:57,320 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:11:58,101 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:11:58,102 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:11:58,103 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:11:58,107 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:11:58,108 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:11:58,109 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:11:58,155 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:11:58,335 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:11:58,382 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:11:58,917 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:12:00,84 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:12:00,85 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:12:00,85 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:12:00,86 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:12:00,90 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:12:00,92 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:12:00,93 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:12:00,93 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:00,338 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:12:00,403 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:12:01,408 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:12:02,128 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:12:02,129 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:12:02,129 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:12:02,133 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:12:02,135 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:12:02,136 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:12:02,410 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:12:04,71 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:12:04,111 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:12:04,128 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:12:04,724 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:12:04,801 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:12:04,907 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:12:04,939 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:12:06,89 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:12:06,89 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:12:06,90 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:12:06,91 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:12:06,96 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:12:06,97 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:12:06,104 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:12:06,124 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:12:06,141 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:12:06,657 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_confounds_wf/fdisp". | |
| 191018-03:12:06,663 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:12:06,677 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_confounds_wf.fdisp". | |
| 191018-03:12:07,565 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:12:08,650 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_confounds_wf/fdisp". | |
| 191018-03:12:08,653 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:12:08,663 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:12:08,685 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.fdisp". | |
| 191018-03:12:08,737 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:12:09,635 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:12:10,76 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize".191018-03:12:10,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:12:10,83 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:10,83 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:12:10,234 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:12:12,87 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:12:12,88 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:12:12,93 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:12:12,94 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:12:12,380 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:12:12,597 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:12:12,646 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:12:14,114 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:12:14,115 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:12:14,120 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:14,122 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:12:14,188 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:12:16,45 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:12:16,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:12:16,95 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:12:16,100 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:12:16,227 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:12:16,280 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:12:16,352 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:12:16,531 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:12:18,96 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:12:18,98 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:12:18,100 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:12:18,100 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:12:18,103 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:12:18,108 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:18,110 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:18,131 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:12:18,142 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:12:18,410 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:12:18,412 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:12:18,432 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:12:20,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:12:20,94 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:12:20,99 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:20,101 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:20,647 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_confounds_wf/fdisp". | |
| 191018-03:12:20,652 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:12:20,803 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_confounds_wf.fdisp". | |
| 191018-03:12:21,946 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:12:23,418 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.mcflirt". | |
| 191018-03:12:24,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:12:24,93 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.normalize_motion" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/normalize_motion". | |
| 191018-03:12:24,99 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:24,115 nipype.workflow INFO: | |
| [Node] Running "normalize_motion" ("niworkflows.interfaces.utils.NormalizeMotionParams") | |
| 191018-03:12:24,126 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.normalize_motion". | |
| 191018-03:12:24,169 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:12:24,243 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:12:26,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:12:26,78 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:12:26,83 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:12:26,85 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:12:26,665 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:12:26,666 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_confounds_wf.fdisp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_confounds_wf/fdisp". | |
| 191018-03:12:26,670 nipype.workflow INFO: | |
| [Node] Running "fdisp" ("nipype.algorithms.confounds.FramewiseDisplacement") | |
| 191018-03:12:26,680 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_confounds_wf.fdisp". | |
| 191018-03:12:27,706 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:12:27,755 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:12:28,115 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:12:28,120 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:28,180 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:12:28,716 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:12:30,75 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:12:30,76 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:12:30,76 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:12:30,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:12:30,81 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:30,82 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:12:30,82 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:30,83 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:12:30,212 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:12:30,219 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:12:30,267 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:12:31,332 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:12:32,69 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:12:32,70 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:12:32,75 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:12:32,76 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:12:32,76 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:12:32,77 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:12:32,82 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:12:32,84 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:12:32,351 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:12:32,720 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:12:32,754 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:12:34,88 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:12:34,88 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:12:34,93 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:34,96 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:34,148 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:12:34,152 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:12:34,701 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:12:36,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:12:36,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:12:36,51 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:12:36,56 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:12:36,57 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:12:36,57 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:12:36,281 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:12:36,294 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:12:38,74 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask".191018-03:12:38,74 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:12:38,79 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:12:38,80 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:12:38,346 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:12:38,367 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:12:39,764 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:12:42,88 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:12:42,95 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:12:42,391 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:12:44,115 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:12:44,121 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:12:45,725 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:12:48,74 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:12:48,82 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:48,402 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:12:50,119 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:12:50,126 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:12:51,604 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:12:54,90 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:12:54,97 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:54,258 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:12:56,123 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:12:56,128 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:12:56,748 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:12:57,768 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:12:58,106 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:12:58,113 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:12:58,175 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:12:59,814 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:13:00,31 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:13:00,109 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:13:02,60 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:13:02,74 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:13:17,34 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:13:18,114 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:13:18,129 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:13:25,557 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:13:28,181 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:13:28,279 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:13:50,213 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:13:52,87 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:13:52,101 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:13:56,293 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:13:58,183 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:13:58,198 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:14:04,722 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:14:06,179 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:14:06,202 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:15:00,514 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:15:02,170 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:15:02,186 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:15:15,749 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:15:18,243 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:15:18,253 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:15:45,746 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:15:48,182 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:15:48,266 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:15:51,448 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:15:52,215 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:15:52,228 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:16:16,705 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:16:18,207 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:16:18,220 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:18:11,342 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:18:12,398 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:18:12,412 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:18:12,668 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:19:33,70 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:19:34,476 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:19:34,487 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:21:33,204 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:21:34,602 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:21:34,603 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:21:34,603 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:21:34,607 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:21:34,609 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:21:34,609 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:21:34,740 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:21:34,849 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:21:34,902 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:21:36,526 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:21:36,527 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:21:36,527 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:21:36,531 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:21:36,532 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:21:36,533 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:21:36,827 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:21:36,829 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:21:37,58 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:21:39,51 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:21:39,51 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:21:39,57 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:21:39,59 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:21:39,108 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:21:40,594 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:21:40,600 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:21:40,835 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:21:42,591 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:21:42,595 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:21:42,859 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:21:45,725 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:21:46,611 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:21:46,706 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:22:18,903 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:22:20,574 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:22:20,580 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:22:24,503 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:22:26,565 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp".191018-03:22:26,565 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:22:26,571 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:22:26,582 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:22:26,957 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:22:27,17 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:22:27,554 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:22:28,617 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:22:28,617 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:22:28,618 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:22:28,692 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function")191018-03:22:28,692 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:22:28,697 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:22:28,953 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:22:28,977 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:22:31,64 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:22:31,75 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:22:31,84 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:22:31,542 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:22:31,550 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:22:32,613 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:22:32,617 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:22:32,622 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:22:32,719 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:22:39,203 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:22:39,558 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:22:47,773 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:22:48,653 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:22:48,659 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:22:50,842 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:22:53,304 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:22:53,311 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:23:01,72 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:23:01,982 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:23:02,566 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:23:02,570 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:23:02,571 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:23:02,575 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:23:02,584 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:23:02,874 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:23:02,900 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:23:04,451 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:23:04,648 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:23:04,651 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:23:04,879 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:23:06,654 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:23:06,667 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:23:07,199 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:23:07,203 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:23:07,207 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:23:07,313 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:23:14,700 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:23:17,466 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:23:18,589 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:23:18,596 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:23:20,311 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:23:20,650 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:23:22,669 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:23:22,670 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:23:22,675 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191018-03:23:22,676 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:23:25,34 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:23:28,618 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:23:28,903 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:23:32,441 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:23:34,656 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:23:34,662 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:23:34,951 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:23:36,653 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:23:36,659 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:23:43,832 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:23:44,438 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:23:44,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:23:44,682 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:23:46,712 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:23:46,716 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:23:46,832 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:23:47,244 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:23:48,683 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:23:48,683 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:23:48,688 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:23:48,689 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191018-03:23:49,280 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:23:50,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:23:50,681 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:23:50,722 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:23:52,677 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:23:52,683 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191018-03:23:52,913 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:23:54,678 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:23:54,683 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:23:54,986 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:23:59,125 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:24:00,681 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:24:00,687 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:24:00,983 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:24:02,688 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:24:02,694 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:24:10,579 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:24:12,689 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:24:12,695 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:24:12,835 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:24:14,689 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:24:14,695 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:24:15,465 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:24:16,691 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:24:16,697 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:24:16,752 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:24:18,701 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:24:18,709 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191018-03:24:18,980 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:24:20,691 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:24:20,697 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:24:20,963 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:24:22,701 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:24:22,790 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:24:39,163 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_transform". | |
| 191018-03:24:40,963 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/merge". | |
| 191018-03:24:41,26 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191018-03:25:20,379 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_transform". | |
| 191018-03:25:20,514 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.merge". | |
| 191018-03:25:22,752 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191018-03:25:22,758 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:25:22,765 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:25:22,778 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:25:22,787 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/merge". | |
| 191018-03:25:22,802 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191018-03:25:22,864 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191018-03:25:24,711 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191018-03:25:24,715 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:25:29,39 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.039669:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:25:29,40 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.039669:++ Authored by: RW Cox | |
| 191018-03:25:29,40 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040427:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191018-03:25:29,40 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040427: Warnings of this type will be muted for this session. | |
| 191018-03:25:29,40 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040427: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191018-03:25:29,40 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:25:29,40 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814: you should consider running: | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814: 3dWarp -deoblique | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814: on this and other oblique datasets in the same session. | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814: See 3dWarp -help for details. | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.040814:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:25:29,41 nipype.interface INFO: | |
| stderr 2019-10-18T03:25:29.041597:++ Coarse del was 10, replaced with 7 | |
| 191018-03:25:29,182 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:25:30,745 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:25:30,760 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:25:33,664 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:25:34,723 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:25:34,725 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:25:34,732 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:25:34,733 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:25:41,781 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:25:42,720 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:25:42,731 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:25:46,2 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:25:46,765 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:25:46,765 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:25:46,775 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:25:46,858 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:25:47,989 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:25:48,782 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:25:48,788 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:25:51,506 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:25:54,799 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:25:55,107 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:26:00,23 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:26:00,791 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:26:00,797 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:26:01,229 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.merge". | |
| 191018-03:26:02,789 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191018-03:26:02,912 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:26:03,129 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:26:03,160 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191018-03:26:04,787 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191018-03:26:04,804 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:26:06,787 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:26:07,70 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:26:08,596 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.596498:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:26:08,597 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.596498:++ Authored by: RW Cox | |
| 191018-03:26:08,597 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: Warnings of this type will be muted for this session. | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: you should consider running: | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: 3dWarp -deoblique | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: on this and other oblique datasets in the same session. | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808: See 3dWarp -help for details. | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:26:08,598 nipype.interface INFO: | |
| stderr 2019-10-18T03:26:08.597808:++ Coarse del was 10, replaced with 7 | |
| 191018-03:26:09,346 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:26:10,796 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:26:10,803 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:26:12,872 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:26:13,469 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_transform". | |
| 191018-03:26:14,717 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:26:14,722 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg".191018-03:26:14,722 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191018-03:26:14,737 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:26:14,753 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:26:15,123 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/merge". | |
| 191018-03:26:15,198 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191018-03:26:16,744 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:26:16,770 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:26:20,948 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:26:21,737 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:26:22,789 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:26:22,789 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:26:22,795 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:26:22,802 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:26:22,802 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:26:22,809 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:26:23,149 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:26:24,85 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:26:24,828 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:26:24,831 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:26:24,834 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:26:24,835 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:26:25,107 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:26:25,129 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:26:25,514 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:26:26,831 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:26:26,831 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:26:26,838 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191018-03:26:26,838 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:26:27,411 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:26:27,421 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:26:27,675 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:26:29,731 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:26:30,819 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:26:30,932 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:26:35,229 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:26:35,896 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:26:36,812 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:26:36,816 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:26:36,958 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:26:37,338 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:26:38,763 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:26:38,764 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:26:38,768 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:26:38,771 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:26:39,59 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:26:39,319 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:26:40,820 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:26:40,820 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:26:40,824 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:26:40,828 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:26:40,879 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:26:42,838 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:26:42,845 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191018-03:26:43,55 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:26:44,803 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:26:44,809 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:26:45,159 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:26:48,393 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:26:50,892 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:26:50,898 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:26:51,59 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:26:52,773 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:26:52,779 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:26:53,376 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:26:54,774 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:26:54,778 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:26:54,821 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:26:56,780 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:26:56,788 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191018-03:26:57,43 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:26:58,777 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:26:58,784 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:26:59,65 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:27:00,755 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.merge". | |
| 191018-03:27:00,802 nipype.interface INFO: | |
| stderr 2019-10-18T03:27:00.801850:++ Max displacement in automask = 0.36 (mm) at sub-brick 4 | |
| 191018-03:27:00,804 nipype.interface INFO: | |
| stderr 2019-10-18T03:27:00.801850:++ Max delta displ in automask = 0.36 (mm) at sub-brick 4 | |
| 191018-03:27:02,774 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191018-03:27:03,137 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:27:03,168 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191018-03:27:04,806 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191018-03:27:04,810 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:27:06,383 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191018-03:27:06,957 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191018-03:27:24,714 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_transform". | |
| 191018-03:27:26,745 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/merge". | |
| 191018-03:27:26,753 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:27:26,758 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:27:26,808 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191018-03:27:33,620 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:27:34,756 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:27:34,771 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:27:39,599 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:27:40,621 nipype.interface INFO: | |
| stderr 2019-10-18T03:27:40.620945:++ Max displacement in automask = 0.25 (mm) at sub-brick 1 | |
| 191018-03:27:40,621 nipype.interface INFO: | |
| stderr 2019-10-18T03:27:40.620945:++ Max delta displ in automask = 0.29 (mm) at sub-brick 2 | |
| 191018-03:27:40,750 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:27:40,753 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:27:40,758 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:27:40,760 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:27:46,558 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191018-03:27:47,274 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:27:48,758 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:27:48,766 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:27:55,82 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:27:55,372 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:27:56,803 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:27:56,808 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:27:56,810 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:27:56,820 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:27:59,570 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:28:02,792 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:28:02,981 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:28:06,722 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:08,324 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:28:08,755 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:08,759 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:28:08,767 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:08,774 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:28:10,758 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:28:10,781 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:28:10,787 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:28:12,36 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.merge". | |
| 191018-03:28:12,805 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:28:12,817 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191018-03:28:12,818 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:28:13,142 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:28:13,173 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191018-03:28:13,261 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:14,852 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191018-03:28:14,855 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:14,861 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:28:14,877 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:28:14,881 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:14,886 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:28:17,206 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:28:17,231 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:17,319 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:28:18,651 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.651735:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:28:18,652 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.651735:++ Authored by: RW Cox | |
| 191018-03:28:18,652 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652495:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191018-03:28:18,652 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652495: Warnings of this type will be muted for this session. | |
| 191018-03:28:18,652 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652495: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191018-03:28:18,652 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926: you should consider running: | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926: 3dWarp -deoblique | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926: on this and other oblique datasets in the same session. | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926: See 3dWarp -help for details. | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.652926:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:28:18,653 nipype.interface INFO: | |
| stderr 2019-10-18T03:28:18.653805:++ Coarse del was 10, replaced with 7 | |
| 191018-03:28:18,755 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:28:18,758 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:28:18,761 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:18,763 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:28:18,766 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:28:18,770 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:18,771 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:28:18,857 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:28:19,151 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,170 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,174 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,192 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,196 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,197 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,209 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:19,212 nipype.utils INFO: | |
| Running nipype version 1.3.0-rc1 (latest: 1.2.3) | |
| 191018-03:28:20,690 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:21,295 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:28:21,540 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:28:22,796 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:28:22,797 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:28:22,801 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:22,802 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:28:22,802 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:28:22,803 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:28:22,808 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:28:22,812 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:25,153 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:28:27,772 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:28:28,803 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:28:28,809 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:28:28,810 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:28:29,15 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:28:29,133 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:28:30,867 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:28:30,882 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:28:30,938 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:28:31,712 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:28:31,865 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:28:32,856 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:28:32,862 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:28:33,32 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:33,104 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:28:33,368 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:28:33,374 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:28:34,808 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:28:34,809 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:34,809 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:28:34,809 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:28:34,814 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:28:34,817 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:28:34,820 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:34,986 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:28:35,561 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:28:35,849 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:28:36,872 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:28:36,880 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:28:38,840 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:28:38,969 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:28:39,504 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:28:41,202 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:28:42,228 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:28:42,819 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:28:42,820 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:28:42,825 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:28:42,827 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:28:42,857 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:28:42,966 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:28:43,110 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:28:43,735 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:28:44,242 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:44,851 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:28:44,852 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:28:44,854 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:44,856 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:28:44,857 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:28:44,860 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:28:44,864 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:28:44,866 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:45,424 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:28:45,521 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:28:46,852 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:28:46,855 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:28:46,857 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:28:46,919 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:28:46,947 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:28:47,556 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:28:47,883 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:28:48,878 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:28:48,878 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:28:48,878 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:28:48,883 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:28:48,885 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:28:48,885 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:28:49,79 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:28:49,252 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:28:50,836 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_confounds_wf/dvars". | |
| 191018-03:28:50,836 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:28:50,843 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:28:51,142 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:28:51,169 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:28:51,178 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191018-03:28:51,552 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:28:52,815 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:28:52,821 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:28:53,336 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:28:53,349 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:28:53,912 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:28:54,807 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:28:54,808 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:28:54,814 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:28:54,884 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:28:55,222 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:28:55,294 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:28:56,824 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:28:56,827 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:28:56,830 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:28:56,869 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:28:56,926 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:28:57,236 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:28:57,421 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:28:58,185 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:28:58,883 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:28:58,885 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:28:58,888 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:28:58,889 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:28:58,891 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:28:58,891 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:28:58,894 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:28:58,894 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:28:59,152 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191018-03:29:00,834 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:00,839 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:29:01,71 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:29:01,625 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:29:02,859 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:29:02,863 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191018-03:29:03,438 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:29:03,448 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:29:05,91 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:29:06,828 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:29:06,836 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:29:07,128 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:29:07,843 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:29:08,102 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:29:08,577 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:29:08,845 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:29:08,846 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:08,850 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:29:08,851 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:08,853 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:29:08,858 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:29:09,14 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:29:09,165 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:29:09,501 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:29:09,684 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:29:10,882 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:29:10,886 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:10,891 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:29:10,893 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:29:10,893 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:29:10,894 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:29:10,895 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:29:10,898 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:29:10,898 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:29:10,983 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:29:11,362 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:29:12,842 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:29:12,852 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:12,899 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:29:12,919 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:29:13,85 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:29:13,169 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:29:13,655 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:29:14,888 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:29:14,889 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:29:14,892 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:29:14,895 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:29:14,896 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:29:14,897 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:29:15,106 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:29:15,175 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:29:15,471 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:29:15,480 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:29:15,484 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:29:15,486 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:29:16,571 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:29:16,872 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_confounds_wf/dvars". | |
| 191018-03:29:16,872 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:29:16,879 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_pass_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:29:17,168 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:29:17,448 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191018-03:29:17,542 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:29:17,996 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:29:18,855 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:29:18,855 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:18,855 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:29:18,857 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:29:18,858 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:29:18,862 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:18,863 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:18,864 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:29:18,868 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:29:18,942 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:29:19,32 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:29:19,55 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:29:20,823 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:29:20,823 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:29:20,858 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:29:20,858 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:29:21,508 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:29:21,511 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:29:22,113 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:29:22,884 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:29:22,885 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:29:22,889 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm")191018-03:29:22,889 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:22,891 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:29:22,905 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:29:22,933 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:29:22,954 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:29:23,482 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:29:24,888 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:29:24,888 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:29:24,888 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:29:24,894 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:29:24,895 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:29:24,895 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:29:25,92 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:29:25,120 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:29:25,193 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:29:25,204 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:29:26,258 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:29:26,484 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191018-03:29:26,816 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_confounds_wf/dvars". | |
| 191018-03:29:26,816 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:29:26,817 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:29:26,818 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:26,821 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:29:26,822 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:29:26,822 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191018-03:29:26,823 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_02_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:29:26,823 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:29:26,824 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:29:26,828 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:29:26,830 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:29:26,831 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:29:26,832 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:29:27,118 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:29:27,151 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:29:28,881 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:29:28,887 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:29,38 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:29:29,166 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:29:30,877 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:29:30,878 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:29:30,883 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:29:30,884 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:29:31,560 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:29:32,325 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:29:32,565 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:29:32,844 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:29:32,844 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:29:32,850 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:29:32,851 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:32,901 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:29:33,368 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:29:33,778 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:29:34,930 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:29:34,930 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:29:34,931 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:29:34,937 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:29:34,937 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:34,937 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191018-03:29:34,938 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:29:34,957 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:29:35,112 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:29:35,145 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:29:35,295 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191018-03:29:36,868 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:29:36,869 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:29:36,874 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:29:36,876 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:29:36,999 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:29:37,143 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:29:37,430 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:29:37,551 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:29:38,841 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:29:38,885 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:29:38,909 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:29:38,910 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:29:38,911 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:29:38,911 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:29:38,918 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:29:38,919 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.fsl2itk" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_hmc_wf/fsl2itk". | |
| 191018-03:29:38,919 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:38,920 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:29:38,986 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:29:38,996 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:29:39,82 nipype.workflow INFO: | |
| [Node] Running "fsl2itk" ("niworkflows.interfaces.itk.MCFLIRT2ITK") | |
| 191018-03:29:39,934 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_transform". | |
| 191018-03:29:40,860 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/merge". | |
| 191018-03:29:40,861 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:29:40,862 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:29:40,863 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:29:40,864 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.inu_n4" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4". | |
| 191018-03:29:40,867 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:29:40,870 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:29:40,872 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:29:40,876 nipype.workflow INFO: | |
| [Node] Setting-up "_inu_n40" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40". | |
| 191018-03:29:40,881 nipype.workflow INFO: | |
| [Node] Running "_inu_n40" ("nipype.interfaces.ants.segmentation.N4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/truncate_images/mapflow/_truncate_images0/12345_T1w_maths.nii.gz --convergence [ 50x50x50x50, 1e-07 ] --output 12345_T1w_maths_corrected.nii.gz --shrink-factor 4 | |
| 191018-03:29:40,951 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191018-03:29:41,71 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:29:41,257 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:29:42,875 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:29:42,875 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:42,881 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:29:42,881 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:29:43,158 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:29:43,417 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:29:43,960 nipype.interface INFO: | |
| stderr 2019-10-18T03:29:43.959981:++ Max displacement in automask = 0.42 (mm) at sub-brick 3 | |
| 191018-03:29:43,960 nipype.interface INFO: | |
| stderr 2019-10-18T03:29:43.959981:++ Max delta displ in automask = 0.28 (mm) at sub-brick 3 | |
| 191018-03:29:46,775 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:29:46,866 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:29:46,979 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:29:48,547 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191018-03:29:48,815 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:29:48,822 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:29:49,93 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:29:49,904 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:29:50,616 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:29:50,835 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:29:50,842 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:29:51,293 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:29:51,298 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:51,431 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:29:52,125 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:29:52,876 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:29:52,876 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:29:52,877 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:29:52,881 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:29:52,883 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:29:52,884 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:29:53,519 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:29:54,859 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:29:54,864 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:29:54,913 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:29:55,452 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:29:56,913 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:29:56,915 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:29:56,920 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:29:56,923 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:29:57,120 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:29:57,329 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:29:58,884 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:29:58,884 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:29:58,892 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:29:58,899 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:29:59,204 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:30:00,595 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:30:00,734 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:30:00,841 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:30:00,917 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:30:00,923 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:30:02,848 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:30:02,849 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:30:02,849 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:30:02,858 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:02,860 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:30:02,862 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:30:03,18 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:30:03,291 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:30:04,931 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:30:04,932 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:30:04,937 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:30:04,938 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:30:05,498 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:30:05,539 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:30:06,993 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:30:07,51 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:30:07,234 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:07,236 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:30:07,287 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:30:07,534 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:30:07,605 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:30:08,901 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:30:08,902 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:30:08,902 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:30:08,907 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:30:08,907 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:30:08,909 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:30:09,94 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:30:10,918 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:30:10,926 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:30:11,223 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:30:14,911 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:30:15,12 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/merge/template.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output template_corrected.nii.gz -r | |
| 191018-03:30:16,603 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:30:17,368 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:30:17,745 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.bold_hmc_wf.fsl2itk". | |
| 191018-03:30:18,76 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:30:18,915 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:30:18,915 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:30:18,916 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:30:18,916 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:30:18,920 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:18,923 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:30:18,924 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:30:18,931 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:30:19,52 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:30:19,188 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:30:20,938 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:30:20,938 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:30:20,943 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:30:20,945 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:30:21,525 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:30:21,665 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:30:22,906 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_01_wf.bold_confounds_wf.dvars". | |
| 191018-03:30:23,859 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:30:23,866 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:23,926 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:30:25,520 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.merge". | |
| 191018-03:30:25,939 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:30:25,941 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:30:25,945 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:30:26,111 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:30:26,141 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:30:26,913 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191018-03:30:26,914 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:30:26,918 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:30:26,920 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:30:26,946 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191018-03:30:27,214 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:30:28,894 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:30:28,913 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191018-03:30:28,918 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:30:30,35 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:30:30,899 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:30:30,900 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:30:30,905 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:30,907 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/n4_correct/template_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:30:31,70 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:30:32,760 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.760361:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.760361:++ Authored by: RW Cox | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761162:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761162: Warnings of this type will be muted for this session. | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761162: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527: you should consider running: | |
| 191018-03:30:32,761 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527: 3dWarp -deoblique | |
| 191018-03:30:32,762 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527: on this and other oblique datasets in the same session. | |
| 191018-03:30:32,762 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527: See 3dWarp -help for details. | |
| 191018-03:30:32,762 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:30:32,762 nipype.interface INFO: | |
| stderr 2019-10-18T03:30:32.761527:++ Coarse del was 10, replaced with 7 | |
| 191018-03:30:32,918 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:30:32,927 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:30:33,519 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:30:33,559 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:30:34,893 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:30:34,894 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:30:34,901 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz | |
| 191018-03:30:34,904 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:34,957 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:30:36,929 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:30:36,937 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:30:37,195 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:30:38,908 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:30:38,915 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:30:39,227 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:30:41,694 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:30:42,943 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:30:42,949 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:30:44,939 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:30:45,650 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:30:46,984 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:30:46,985 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:30:46,991 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/template_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/template_corrected_brain_masked.nii.gz | |
| 191018-03:30:46,991 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:30:47,262 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:30:47,739 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_pass_run_02_wf.bold_confounds_wf.dvars". | |
| 191018-03:30:50,103 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:30:50,192 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/unifize/template_corrected_brain_masked.nii.gz | |
| 191018-03:30:56,62 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:30:56,909 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:30:56,913 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:30:57,212 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:30:57,641 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:30:58,943 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize".191018-03:30:58,943 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:30:58,948 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:30:58,949 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:30:59,94 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:31:00,897 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:31:00,901 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:31:00,957 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_02_wf.bold_confounds_wf.dvars". | |
| 191018-03:31:01,510 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:31:03,963 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:31:03,969 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:31:04,49 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:31:04,953 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:31:04,960 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/template_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz | |
| 191018-03:31:05,164 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:31:06,753 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:31:06,908 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:31:06,914 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/combine_masks/template_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:31:07,160 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:31:08,933 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:31:08,940 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:31:09,111 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:31:10,923 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:31:10,928 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:31:11,614 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:31:12,911 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:31:12,917 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:31:12,966 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:31:14,944 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:31:14,949 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:31:15,149 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:31:16,930 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_confounds_wf/dvars". | |
| 191018-03:31:16,931 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:31:16,938 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_01_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:31:17,206 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:31:17,250 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| 191018-03:31:24,385 nipype.workflow INFO: | |
| [Node] Finished "_inu_n40". | |
| 191018-03:31:24,388 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.inu_n4". | |
| 191018-03:31:24,963 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_target" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_target". | |
| 191018-03:31:24,966 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_target" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_target". | |
| 191018-03:31:24,968 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:31:24,971 nipype.workflow INFO: | |
| [Node] Running "lap_target" ("niworkflows.interfaces.ants.ImageMath"), a CommandLine Interface with command: | |
| ImageMath 3 12345_T1w_maths_corrected_maths.nii.gz Laplacian /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz 1.5 1 | |
| 191018-03:31:24,976 nipype.workflow INFO: | |
| [Node] Running "res_target" ("niworkflows.interfaces.ants.ResampleImageBySpacing"), a CommandLine Interface with command: | |
| ResampleImageBySpacing 3 /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz 12345_T1w_maths_corrected_resampled.nii.gz 4 4 4 1 | |
| 191018-03:31:24,983 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:31:27,416 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.res_target". | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191018-03:31:38,672 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.lap_target". | |
| 191018-03:31:41,12 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_target" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/mrg_target". | |
| 191018-03:31:41,18 nipype.workflow INFO: | |
| [Node] Running "mrg_target" ("nipype.interfaces.utility.base.Merge") | |
| 191018-03:31:41,22 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.mrg_target". | |
| 191018-03:31:57,560 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:31:58,988 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:31:58,998 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:31:59,522 nipype.interface INFO: | |
| stderr 2019-10-18T03:31:59.522868:++ Max displacement in automask = 0.52 (mm) at sub-brick 3 | |
| 191018-03:31:59,523 nipype.interface INFO: | |
| stderr 2019-10-18T03:31:59.522868:++ Max delta displ in automask = 0.62 (mm) at sub-brick 3 | |
| 191018-03:32:05,130 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191018-03:32:15,91 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:32:16,970 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:32:16,975 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:32:23,528 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:32:24,957 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:32:24,969 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:32:27,310 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:32:28,999 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:32:29,1 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:32:29,6 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:32:29,13 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:32:43,80 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:32:45,37 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:32:45,42 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:32:47,573 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:32:51,18 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:32:51,203 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:32:54,640 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_01_wf.bold_confounds_wf.dvars". | |
| 191018-03:33:05,769 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:33:06,79 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:33:07,14 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:33:07,15 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/fmap2ref_reg". | |
| 191018-03:33:07,19 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:33:07,26 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_matching_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:33:09,567 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:33:11,50 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:33:11,56 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz | |
| 191018-03:33:14,500 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:33:17,5 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:33:17,18 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:33:20,387 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:33:21,14 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:33:21,36 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:33:21,357 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:33:23,6 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:33:23,12 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_brain_masked.nii.gz | |
| 191018-03:33:31,156 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:33:33,84 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:33:33,90 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:33:33,254 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:33:35,73 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:33:35,79 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:33:35,797 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:33:37,47 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:33:37,55 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:33:37,108 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:33:39,78 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:33:39,84 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz | |
| 191018-03:33:39,329 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:33:41,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.dvars" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_confounds_wf/dvars". | |
| 191018-03:33:41,10 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:33:41,17 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_03_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:33:41,318 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:33:41,378 nipype.workflow INFO: | |
| [Node] Running "dvars" ("nipype.algorithms.confounds.ComputeDVARS") | |
| /usr/local/miniconda/lib/python3.7/site-packages/scipy/fftpack/basic.py:160: FutureWarning: Using a non-tuple sequence for multidimensional indexing is deprecated; use `arr[tuple(seq)]` instead of `arr[seq]`. In the future this will be interpreted as an array index, `arr[np.array(seq)]`, which will result either in an error or a different result. | |
| z[index] = x | |
| 191018-03:34:08,616 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_matching_wf.fmap2ref_reg". | |
| 191018-03:34:11,63 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/fmap2ref_reg". | |
| 191018-03:34:11,78 nipype.workflow INFO: | |
| [Node] Running "fmap2ref_reg" ("nipype.interfaces.ants.registration.Registration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ transform, transform_Warped.nii.gz ] --transform Translation[ 0.05 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 500, 1e-07, 200 ] --smoothing-sigmas 8.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/prepare_epi_opposite_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz, 1, 64, Random, 0.5 ] --convergence [ 200, 1e-08, 100 ] --smoothing-sigmas 2.0mm --shrink-factors 1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.998 ] --write-composite-transform 1 | |
| 191018-03:34:56,206 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:34:57,113 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:34:57,114 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/init_aff". | |
| 191018-03:34:57,118 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:34:57,121 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz -m Mattes[/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_tmpl/tpl-OASIS30ANTs_res-01_T1w_resampled.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/res_target/12345_T1w_maths_corrected_resampled.nii.gz,32,Regular,0.250000] -o initialization.mat -p 0 -s [15.000000,0.100000] -t Affine[0.100000] -v 1 | |
| 191018-03:34:57,420 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:34:59,101 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:34:59,106 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:34:59,398 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:35:00,712 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.prepare_epi_opposite_wf.fmap2ref_reg". | |
| 191018-03:35:01,75 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.init_aff". | |
| 191018-03:35:01,496 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:35:01,506 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:35:03,40 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:35:03,42 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp". | |
| 191018-03:35:03,53 nipype.workflow INFO: | |
| [Node] Running "qwarp" ("nipype.interfaces.afni.preprocess.QwarpPlusMinus"), a CommandLine Interface with command: | |
| 3dQwarp -prefix Qwarp.nii.gz -plusminus -noXdis -noZdis -base /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped.nii.gz -blur -1.0 -1.0 -source /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/qwarp/transform_Warped_c0000.nii.gz -minpatch 9 -nopadWARP -noweight -pblur 0.05 0.05 | |
| 191018-03:35:03,139 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:35:07,193 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:35:11,328 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_03_wf.bold_confounds_wf.dvars". | |
| 191018-03:35:14,106 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:35:14,113 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:35:21,680 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:35:23,116 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:35:23,143 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:35:25,456 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:35:27,135 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:35:27,145 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:35:42,83 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:35:43,137 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:35:43,142 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:35:45,404 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:35:47,745 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.brain_extraction_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/norm". | |
| 191018-03:35:47,813 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ anat_to_template, anat_to_template_Warped.nii.gz ] --transform Rigid[ 0.1 ] --metric MI[ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --masks [ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform Affine[ 0.1 ] --metric MI[ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz, 1, 32, Regular, 0.25 ] --convergence [ 1000x500x250x100, 1e-08, 10 ] --smoothing-sigmas 4.0x2.0x1.0x0.0vox --shrink-factors 8x4x2x1 --use-histogram-matching 1 --masks [ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_T1w.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/inu_n4/mapflow/_inu_n40/12345_T1w_maths_corrected.nii.gz, 0.5, 4, None, 1 ] --metric CC[ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_tmpl/tpl-OASIS30ANTs_res-01_T1w_maths.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/brain_extraction_wf/lap_target/12345_T1w_maths_corrected_maths.nii.gz, 0.5, 4, None, 1 ] --convergence [ 50x10x0, 1e-09, 15 ] --smoothing-sigmas 2.0x1.0x0.0vox --shrink-factors 4x2x1 --use-histogram-matching 1 --masks [ /home/fmriprep/.cache/templateflow/tpl-OASIS30ANTs/tpl-OASIS30ANTs_res-01_desc-BrainCerebellumExtraction_mask.nii.gz, NULL ] -v --winsorize-image-intensities [ 0.025, 0.975 ] --write-composite-transform 0 | |
| 191018-03:38:18,742 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_transform". | |
| 191018-03:38:19,502 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.merge" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/merge". | |
| 191018-03:38:19,502 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:38:19,583 nipype.workflow INFO: | |
| [Node] Running "merge" ("fmriprep.interfaces.nilearn.Merge") | |
| 191018-03:38:19,811 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:38:35,8 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:38:37,344 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:38:37,350 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:38:40,13 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:38:41,317 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:38:41,323 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -kernel sphere 6.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz | |
| 191018-03:38:49,731 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate". | |
| 191018-03:38:51,325 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask". | |
| 191018-03:38:51,330 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate/ref_bold_corrected_trans_corrected_brain_mask_dil.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_mask/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:38:51,560 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_mask". | |
| 191018-03:38:53,325 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize". | |
| 191018-03:38:53,332 nipype.workflow INFO: | |
| [Node] Running "unifize" ("nipype.interfaces.afni.utils.Unifize"), a CommandLine Interface with command: | |
| 3dUnifize -clfrac 0.2 -rbt 18.3 65.0 90.0 -prefix uni.nii.gz -T2 -input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/unifize/ref_bold_corrected_trans_corrected_brain_masked.nii.gz | |
| 191018-03:39:01,231 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.unifize". | |
| 191018-03:39:03,37 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.merge". | |
| 191018-03:39:03,297 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize". | |
| 191018-03:39:03,303 nipype.workflow INFO: | |
| [Node] Running "fixhdr_unifize" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:39:03,457 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_unifize". | |
| 191018-03:39:05,301 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.validate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/validate". | |
| 191018-03:39:05,302 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass". | |
| 191018-03:39:05,305 nipype.workflow INFO: | |
| [Node] Running "validate" ("niworkflows.interfaces.images.ValidateImage") | |
| 191018-03:39:05,307 nipype.workflow INFO: | |
| [Node] Running "skullstrip_second_pass" ("nipype.interfaces.afni.preprocess.Automask"), a CommandLine Interface with command: | |
| 3dAutomask -apply_prefix uni_xform_masked.nii.gz -dilate 1 -prefix uni_xform_mask.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_second_pass/uni_xform.nii.gz | |
| 191018-03:39:05,334 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.validate". | |
| 191018-03:39:06,50 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_second_pass". | |
| 191018-03:39:07,307 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref". | |
| 191018-03:39:07,308 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2". | |
| 191018-03:39:07,312 nipype.workflow INFO: | |
| [Node] Running "gen_ref" ("niworkflows.interfaces.registration.EstimateReferenceImage") | |
| 191018-03:39:07,312 nipype.workflow INFO: | |
| [Node] Running "fixhdr_skullstrip2" ("niworkflows.interfaces.utils.CopyXForm") | |
| 191018-03:39:07,359 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.fixhdr_skullstrip2". | |
| 191018-03:39:09,308 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks". | |
| 191018-03:39:09,314 nipype.workflow INFO: | |
| [Node] Running "combine_masks" ("nipype.interfaces.fsl.maths.BinaryMaths"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain_mask.nii.gz -mul /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_skullstrip2/uni_xform_mask_xform.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz | |
| 191018-03:39:09,523 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.combine_masks". | |
| 191018-03:39:11,277 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask". | |
| 191018-03:39:11,277 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.276917:++ 3dvolreg: AFNI version=Debian-16.2.07~dfsg.1-5~nd16.04+1 (Jun 12 2017) [64-bit] | |
| 191018-03:39:11,277 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.276917:++ Authored by: RW Cox | |
| 191018-03:39:11,277 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.277883:** AFNI converts NIFTI_datatype=4 (INT16) in file /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz to FLOAT32 | |
| 191018-03:39:11,278 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.277883: Warnings of this type will be muted for this session. | |
| 191018-03:39:11,278 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.277883: Set AFNI_NIFTI_TYPE_WARN to YES to see them all, NO to see none. | |
| 191018-03:39:11,278 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556:*+ WARNING: If you are performing spatial transformations on an oblique dset, | |
| 191018-03:39:11,278 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556: such as /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz, | |
| 191018-03:39:11,278 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556: or viewing/combining it with volumes of differing obliquity, | |
| 191018-03:39:11,279 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556: you should consider running: | |
| 191018-03:39:11,279 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556: 3dWarp -deoblique | |
| 191018-03:39:11,279 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556: on this and other oblique datasets in the same session. | |
| 191018-03:39:11,279 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556: See 3dWarp -help for details. | |
| 191018-03:39:11,279 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.278556:++ Oblique dataset:/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/slice.nii.gz is 24.322760 degrees from plumb. | |
| 191018-03:39:11,279 nipype.interface INFO: | |
| stderr 2019-10-18T03:39:11.279616:++ Coarse del was 10, replaced with 7 | |
| 191018-03:39:11,282 nipype.workflow INFO: | |
| [Node] Running "apply_mask" ("nipype.interfaces.fsl.maths.ApplyMask"), a CommandLine Interface with command: | |
| fslmaths /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/fixhdr_unifize/uni_xform.nii.gz -mas /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/combine_masks/ref_bold_corrected_trans_corrected_brain_mask_maths.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/apply_mask/uni_xform_masked.nii.gz | |
| 191018-03:39:11,530 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.apply_mask". | |
| 191018-03:39:26,716 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:39:27,256 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:39:27,257 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.anat_preproc_wf.surface_recon_wf.autorecon1" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/anat_preproc_wf/surface_recon_wf/autorecon1". | |
| 191018-03:39:27,260 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:39:27,272 nipype.workflow INFO: | |
| [Node] Running "autorecon1" ("nipype.interfaces.freesurfer.preprocess.ReconAll"), a CommandLine Interface with command: | |
| recon-all -autorecon1 -i /data/12345/anat/12345_T1w.nii.gz -noskullstrip -openmp 8 -subjid 12345 -sd /out/freesurfer | |
| 191018-03:39:27,555 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:39:29,264 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:39:29,269 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:39:29,549 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:39:31,818 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:39:31,826 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:39:38,330 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:39:57,803 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:39:59,443 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:39:59,443 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:39:59,448 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:39:59,547 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:39:59,737 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:40:01,346 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:40:01,351 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:40:01,680 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:40:03,816 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:40:03,824 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:40:10,684 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:40:27,633 nipype.interface INFO: | |
| stderr 2019-10-18T03:40:27.633742:++ Max displacement in automask = 0.43 (mm) at sub-brick 9 | |
| 191018-03:40:27,634 nipype.interface INFO: | |
| stderr 2019-10-18T03:40:27.633742:++ Max delta displ in automask = 0.31 (mm) at sub-brick 12 | |
| 191018-03:40:32,432 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.gen_ref". | |
| 191018-03:40:33,307 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:40:33,315 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:40:33,615 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.qwarp". | |
| 191018-03:40:35,825 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:40:35,832 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:40:39,662 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:40:41,379 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:40:41,394 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:40:42,401 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:40:43,125 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:40:43,333 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm". | |
| 191018-03:40:43,350 nipype.workflow INFO: | |
| [Node] Running "norm" ("niworkflows.interfaces.fixes.FixHeaderRegistration"), a CommandLine Interface with command: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 1 --initial-moving-transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff/initialization.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation Linear --output transform --transform Affine[ 0.1 ] --metric Mattes[ /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz, 1, 64, Random, 0.2 ] --convergence [ 200, 1e-09, 10 ] --smoothing-sigmas 2.0mm --shrink-factors 2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.05, 0.98 ] --write-composite-transform 0 | |
| 191018-03:40:45,368 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:40:45,369 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp". | |
| 191018-03:40:45,376 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/gen_ref/ref_bold.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:40:45,377 nipype.workflow INFO: | |
| [Node] Running "cphdr_warp" ("niworkflows.interfaces.utils.CopyHeader") | |
| 191018-03:40:45,645 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.cphdr_warp". | |
| 191018-03:40:45,830 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.norm". | |
| 191018-03:40:47,363 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask". | |
| 191018-03:40:47,364 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.bold_bold_trans_wf.bold_transform" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/bold_bold_trans_wf/bold_transform". | |
| 191018-03:40:47,364 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/to_ants". | |
| 191018-03:40:47,370 nipype.workflow INFO: | |
| [Node] Running "to_ants" ("nipype.interfaces.utility.wrappers.Function") | |
| 191018-03:40:47,372 nipype.workflow INFO: | |
| [Node] Running "map_brainmask" ("niworkflows.interfaces.fixes.FixHeaderApplyTransforms"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --float 1 --input /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz --interpolation MultiLabel --output tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz --transform [ /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/norm/transform0GenericAffine.mat, 1 ] | |
| 191018-03:40:47,452 nipype.workflow INFO: | |
| [Node] Running "bold_transform" ("niworkflows.interfaces.itk.MultiApplyTransforms") | |
| 191018-03:40:47,584 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.to_ants". | |
| 191018-03:40:49,824 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference". | |
| 191018-03:40:49,836 nipype.workflow INFO: | |
| [Node] Running "unwarp_reference" ("niworkflows.interfaces.registration.ANTSApplyTransformsRPT"), a CommandLine Interface with command: | |
| antsApplyTransforms --default-value 0 --dimensionality 3 --float 1 --input /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --interpolation LanczosWindowedSinc --output ref_bold_corrected_trans.nii.gz --reference-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz --transform /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_rest_run_01_wf/sdc_wf/pepolar_unwarp_wf/cphdr_warp/_warpfieldQwarp_PLUS_WARP_fixhdr.nii.gz | |
| 191018-03:40:54,165 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_rest_run_01_wf.sdc_wf.pepolar_unwarp_wf.unwarp_reference". | |
| 191018-03:40:59,95 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:40:59,873 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.map_brainmask". | |
| 191018-03:41:01,335 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:41:01,336 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate". | |
| 191018-03:41:01,340 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:41:01,342 nipype.workflow INFO: | |
| [Node] Running "pre_mask_dilate" ("nipype.interfaces.fsl.maths.DilateImage"), a CommandLine Interface with command: | |
| fslmaths -dt char /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/map_brainmask/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans.nii.gz -kernel sphere 3.0000 -dilF /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/pre_mask_dilate/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil.nii.gz | |
| 191018-03:41:03,353 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:41:03,833 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.pre_mask_dilate". | |
| 191018-03:41:06,494 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/init_aff". | |
| 191018-03:41:06,499 nipype.workflow INFO: | |
| [Node] Running "init_aff" ("niworkflows.interfaces.ants.AI"), a CommandLine Interface with command: | |
| antsAI -c [10,0.000001,10] -d 3 -x /home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz -m Mattes[/home/fmriprep/.cache/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz,/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_06_wf/sdc_wf/pepolar_unwarp_wf/unwarp_reference/ref_bold_corrected_trans.nii.gz,32,Regular,0.200000] -o initialization.mat -p 0 -s [20.000000,0.120000] -t Affine[0.100000] -v 1 | |
| 191018-03:41:13,423 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_06_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.init_aff". | |
| 191018-03:41:15,397 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:41:15,398 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct". | |
| 191018-03:41:15,572 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected.nii.gz -r | |
| 191018-03:41:15,797 nipype.workflow INFO: | |
| [Node] Running "n4_correct" ("niworkflows.interfaces.fixes.FixN4BiasFieldCorrection"), a CommandLine Interface with command: | |
| N4BiasFieldCorrection --bspline-fitting [ 200 ] -d 3 --input-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_scaled.nii.gz --mask-image /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/check_hdr/tpl-MNI152NLin2009cAsym_res-02_desc-brain_mask_trans_dil_hdr.nii.gz --output ref_bold_corrected_trans_corrected.nii.gz -r | |
| 191018-03:41:29,291 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:41:29,474 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.n4_correct". | |
| 191018-03:41:31,420 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:41:31,420 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass". | |
| 191018-03:41:31,428 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:41:31,428 nipype.workflow INFO: | |
| [Node] Running "skullstrip_first_pass" ("nipype.interfaces.fsl.preprocess.BET"), a CommandLine Interface with command: | |
| bet /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/n4_correct/ref_bold_corrected_trans_corrected.nii.gz /scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_05_wf/sdc_wf/pepolar_unwarp_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_pass/ref_bold_corrected_trans_corrected_brain.nii.gz -f 0.20 -m | |
| 191018-03:41:33,988 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_05_wf.sdc_wf.pepolar_unwarp_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:41:34,268 nipype.workflow INFO: | |
| [Node] Finished "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_pass". | |
| 191018-03:41:35,412 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.single_subject_ochsAging2337_wf.func_preproc_task_reapp_run_04_wf.bold_bold_trans_wf.bold_reference_wf.enhance_and_skullstrip_bold_wf.skullstrip_first_dilate" in "/scratch/fmriprep_wf/single_subject_ochsAging2337_wf/func_preproc_task_reapp_run_04_wf/bold_bold_trans_wf/bold_reference_wf/enhance_and_skullstrip_bold_wf/skullstrip_first_dilate". | |
| 191018-03:41:35,414 nipype.workflow INFO: | |
| [Node] Setting-up "fmriprep_wf.sin |
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