Created
November 6, 2018 00:37
-
-
Save nataliavelez/667de103e34ef37ce63270098467e5ec to your computer and use it in GitHub Desktop.
2018/11/05 MRIQC Error Log
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Reading data from project: /scratch/groups/hyo/OPUS/BIDS_data | |
| Running data quality checks on: /scratch/groups/hyo/OPUS/BIDS_data/06 | |
| 2018-11-05 23:25:49,630 mriqc:IMPORTANT | |
| Running MRIQC version 0.14.2: | |
| * BIDS dataset path: /scratch/groups/hyo/OPUS/BIDS_data. | |
| * Output folder: /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc. | |
| * Analysis levels: participant. | |
| 181105-23:25:58,307 nipype.workflow INFO: | |
| Building anatomical MRIQC workflow, datasets list: ['sub-06/anat/sub-06_T1w.nii.gz'] | |
| 2018-11-05 23:25:58,307 nipype.workflow:INFO Building anatomical MRIQC workflow, datasets list: ['sub-06/anat/sub-06_T1w.nii.gz'] | |
| 2018-11-05 23:26:06,925 mriqc:WARNING Anonymized quality metrics will be submitted to MRIQC's metrics repository. Use --no-sub to disable submission. | |
| 181105-23:26:11,9 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/PlotMosaicNoise) | |
| 2018-11-05 23:26:11,009 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/PlotMosaicNoise) | |
| 181105-23:26:11,20 nipype.workflow ERROR: | |
| Node PlotMosaicNoise.a0 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:26:11,020 nipype.workflow:ERROR Node PlotMosaicNoise.a0 failed to run on host sh-101-22.int. | |
| 181105-23:26:11,24 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-232611-nvelez-PlotMosaicNoise.a0-15d91ddb-8a7d-4aca-aed8-27608d72dfd1.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:26:11,024 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-232611-nvelez-PlotMosaicNoise.a0-15d91ddb-8a7d-4aca-aed8-27608d72dfd1.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:26:13,88 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/PlotMosaicZoomed) | |
| 2018-11-05 23:26:13,088 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/PlotMosaicZoomed) | |
| 181105-23:26:13,98 nipype.workflow ERROR: | |
| Node PlotMosaicZoomed.a0 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:26:13,098 nipype.workflow:ERROR Node PlotMosaicZoomed.a0 failed to run on host sh-101-22.int. | |
| 181105-23:26:13,99 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-232613-nvelez-PlotMosaicZoomed.a0-f2b837b6-6bef-466a-bb89-66cdb57a6ece.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:26:13,099 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-232613-nvelez-PlotMosaicZoomed.a0-f2b837b6-6bef-466a-bb89-66cdb57a6ece.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:26:16,754 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2018-11-05 23:30:20,961 niworkflows:INFO Terminal outputs of initialization saved (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/stderr.nipype-init). | |
| 2018-11-05 23:30:20,964 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.6/site-packages/niworkflows/data/t1-mni_registration_fast_000.json. | |
| 2018-11-05 23:30:20,970 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ ants_t1_to_mni, ants_t1_to_mni_Warped.nii.gz ] --transform Rigid[ 0.01 ] --metric Mattes[ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 32, Random, 0.15 ] --convergence [ 1000, 1e-06, 20 ] --smoothing-sigmas 4.0vox --shrink-factors 4 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 32, Regular, 0.15 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x0.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric Mattes[ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/moving_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 50x20, 1e-06, 10 ] --smoothing-sigmas 1.0x0.0vox --shrink-factors 2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.0, 1.0 ] --write-composite-transform 1 | |
| 2018-11-05 23:34:46,556 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2018-11-05 23:34:53,125 niworkflows:INFO Report - setting fixed (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/fixed_masked.nii.gz) and moving (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization/ants_t1_to_mni_Warped.nii.gz) images | |
| 2018-11-05 23:34:53,126 niworkflows:INFO Generating visual report | |
| 181105-23:34:53,821 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization) | |
| 2018-11-05 23:34:53,821 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/anatMRIQCT1w/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..anat..sub-06_T1w.nii.gz/SpatialNormalization) | |
| 181105-23:34:53,830 nipype.workflow ERROR: | |
| Node SpatialNormalization.a0 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:34:53,830 nipype.workflow:ERROR Node SpatialNormalization.a0 failed to run on host sh-101-22.int. | |
| 181105-23:34:53,831 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233453-nvelez-SpatialNormalization.a0-d41d0e79-1b9a-4b7a-945a-cba9207429d9.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:34:53,831 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233453-nvelez-SpatialNormalization.a0-d41d0e79-1b9a-4b7a-945a-cba9207429d9.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:34:58,953 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/SpikesMask) | |
| 2018-11-05 23:34:58,953 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/SpikesMask) | |
| 181105-23:34:58,965 nipype.workflow ERROR: | |
| Node SpikesMask.a7 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:34:58,965 nipype.workflow:ERROR Node SpikesMask.a7 failed to run on host sh-101-22.int. | |
| 181105-23:34:58,966 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233458-nvelez-SpikesMask.a7-4b210197-7760-4606-9c75-16875eaab93f.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:34:58,966 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233458-nvelez-SpikesMask.a7-4b210197-7760-4606-9c75-16875eaab93f.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:34:59,242 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/PlotMosaicSD) | |
| 2018-11-05 23:34:59,242 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/PlotMosaicSD) | |
| 181105-23:34:59,254 nipype.workflow ERROR: | |
| Node PlotMosaicSD.a7 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:34:59,254 nipype.workflow:ERROR Node PlotMosaicSD.a7 failed to run on host sh-101-22.int. | |
| 181105-23:34:59,256 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233459-nvelez-PlotMosaicSD.a7-85cb6048-90e6-4737-afad-e0475f652643.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:34:59,256 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233459-nvelez-PlotMosaicSD.a7-85cb6048-90e6-4737-afad-e0475f652643.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:34:59,390 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/PlotMosaicMean) | |
| 2018-11-05 23:34:59,390 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/PlotMosaicMean) | |
| 181105-23:34:59,401 nipype.workflow ERROR: | |
| Node PlotMosaicMean.a7 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:34:59,401 nipype.workflow:ERROR Node PlotMosaicMean.a7 failed to run on host sh-101-22.int. | |
| 181105-23:34:59,402 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233459-nvelez-PlotMosaicMean.a7-8eba37b3-8746-4b97-b8a8-7af68faa824f.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:34:59,402 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-233459-nvelez-PlotMosaicMean.a7-8eba37b3-8746-4b97-b8a8-7af68faa824f.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:34:59,681 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2018-11-05 23:36:31,316 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.6/site-packages/niworkflows/data/epi-mni_registration_precise_000.json. | |
| 2018-11-05 23:36:31,330 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPI2MNI/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-train_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-train_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-train_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform 1 | |
| 2018-11-05 23:44:22,924 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2018-11-05 23:44:22,926 niworkflows:INFO Report - setting fixed (/usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz) and moving (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPI2MNI/epi_to_mni_Warped.nii.gz) images | |
| 2018-11-05 23:44:22,927 niworkflows:INFO Generating visual report | |
| 181105-23:44:23,581 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPI2MNI) | |
| 2018-11-05 23:44:23,581 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/EPI2MNI) | |
| 181105-23:44:23,589 nipype.workflow ERROR: | |
| Node EPI2MNI.a7 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:44:23,589 nipype.workflow:ERROR Node EPI2MNI.a7 failed to run on host sh-101-22.int. | |
| 181105-23:44:23,590 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234423-nvelez-EPI2MNI.a7-2c7eb7c9-f838-4222-bc58-ee92a43934fa.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:44:23,590 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234423-nvelez-EPI2MNI.a7-2c7eb7c9-f838-4222-bc58-ee92a43934fa.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:44:23,884 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/UploadMetrics) | |
| 2018-11-05 23:44:23,884 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-02_bold.nii.gz/UploadMetrics) | |
| 181105-23:44:23,896 nipype.workflow ERROR: | |
| Node UploadMetrics.a7 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:44:23,896 nipype.workflow:ERROR Node UploadMetrics.a7 failed to run on host sh-101-22.int. | |
| 181105-23:44:23,897 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234423-nvelez-UploadMetrics.a7-02026359-5e44-4b66-9d3e-9efda10180e5.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 2018-11-05 23:44:23,897 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234423-nvelez-UploadMetrics.a7-02026359-5e44-4b66-9d3e-9efda10180e5.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 181105-23:44:29,82 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/SpikesMask) | |
| 2018-11-05 23:44:29,082 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/SpikesMask) | |
| 181105-23:44:29,94 nipype.workflow ERROR: | |
| Node SpikesMask.a6 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:44:29,094 nipype.workflow:ERROR Node SpikesMask.a6 failed to run on host sh-101-22.int. | |
| 181105-23:44:29,95 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234429-nvelez-SpikesMask.a6-9fc7a657-d104-4a9c-bfa1-ee9d8b410524.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:44:29,095 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234429-nvelez-SpikesMask.a6-9fc7a657-d104-4a9c-bfa1-ee9d8b410524.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:44:29,329 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/PlotMosaicSD) | |
| 2018-11-05 23:44:29,329 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/PlotMosaicSD) | |
| 181105-23:44:29,340 nipype.workflow ERROR: | |
| Node PlotMosaicSD.a6 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:44:29,340 nipype.workflow:ERROR Node PlotMosaicSD.a6 failed to run on host sh-101-22.int. | |
| 181105-23:44:29,341 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234429-nvelez-PlotMosaicSD.a6-27972fd4-0f0d-41c1-8782-f091701746a1.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:44:29,341 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234429-nvelez-PlotMosaicSD.a6-27972fd4-0f0d-41c1-8782-f091701746a1.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:44:29,545 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/PlotMosaicMean) | |
| 2018-11-05 23:44:29,545 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/PlotMosaicMean) | |
| 181105-23:44:29,558 nipype.workflow ERROR: | |
| Node PlotMosaicMean.a6 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:44:29,558 nipype.workflow:ERROR Node PlotMosaicMean.a6 failed to run on host sh-101-22.int. | |
| 181105-23:44:29,559 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234429-nvelez-PlotMosaicMean.a6-1cf5db01-450d-482f-8549-953673033495.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:44:29,559 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234429-nvelez-PlotMosaicMean.a6-1cf5db01-450d-482f-8549-953673033495.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:44:30,051 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2018-11-05 23:46:04,079 niworkflows:INFO Terminal outputs of initialization saved (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPI2MNI/stderr.nipype-init). | |
| 2018-11-05 23:46:04,080 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.6/site-packages/niworkflows/data/epi-mni_registration_precise_000.json. | |
| 2018-11-05 23:46:04,083 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPI2MNI/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPIApplyMask/sub-06_task-train_run-01_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPIApplyMask/sub-06_task-train_run-01_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPIApplyMask/sub-06_task-train_run-01_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform 1 | |
| 2018-11-05 23:49:41,227 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2018-11-05 23:49:41,235 niworkflows:INFO Report - setting fixed (/usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz) and moving (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPI2MNI/epi_to_mni_Warped.nii.gz) images | |
| 2018-11-05 23:49:41,235 niworkflows:INFO Generating visual report | |
| 181105-23:49:41,894 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPI2MNI) | |
| 2018-11-05 23:49:41,894 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/EPI2MNI) | |
| 181105-23:49:41,910 nipype.workflow ERROR: | |
| Node EPI2MNI.a6 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:49:41,910 nipype.workflow:ERROR Node EPI2MNI.a6 failed to run on host sh-101-22.int. | |
| 181105-23:49:41,911 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234941-nvelez-EPI2MNI.a6-fe7ada49-148c-49d9-abc5-d0b641fc1eb0.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:49:41,911 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234941-nvelez-EPI2MNI.a6-fe7ada49-148c-49d9-abc5-d0b641fc1eb0.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:49:42,154 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/UploadMetrics) | |
| 2018-11-05 23:49:42,154 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-train_run-01_bold.nii.gz/UploadMetrics) | |
| 181105-23:49:42,165 nipype.workflow ERROR: | |
| Node UploadMetrics.a6 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:49:42,165 nipype.workflow:ERROR Node UploadMetrics.a6 failed to run on host sh-101-22.int. | |
| 181105-23:49:42,166 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234942-nvelez-UploadMetrics.a6-9045bc7c-c16f-48f9-80ed-4268efa8e27a.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 2018-11-05 23:49:42,166 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234942-nvelez-UploadMetrics.a6-9045bc7c-c16f-48f9-80ed-4268efa8e27a.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 181105-23:49:47,691 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/SpikesMask) | |
| 2018-11-05 23:49:47,691 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/SpikesMask) | |
| 181105-23:49:47,701 nipype.workflow ERROR: | |
| Node SpikesMask.a5 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:49:47,701 nipype.workflow:ERROR Node SpikesMask.a5 failed to run on host sh-101-22.int. | |
| 181105-23:49:47,702 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234947-nvelez-SpikesMask.a5-2c1d3dad-5819-4bc0-bdca-e59ff7ebdfc7.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:49:47,702 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234947-nvelez-SpikesMask.a5-2c1d3dad-5819-4bc0-bdca-e59ff7ebdfc7.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:49:48,33 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/PlotMosaicSD) | |
| 2018-11-05 23:49:48,033 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/PlotMosaicSD) | |
| 181105-23:49:48,44 nipype.workflow ERROR: | |
| Node PlotMosaicSD.a5 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:49:48,044 nipype.workflow:ERROR Node PlotMosaicSD.a5 failed to run on host sh-101-22.int. | |
| 181105-23:49:48,45 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234948-nvelez-PlotMosaicSD.a5-0ef632e6-e45a-4da9-957b-b5db2a65c833.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:49:48,045 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234948-nvelez-PlotMosaicSD.a5-0ef632e6-e45a-4da9-957b-b5db2a65c833.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:49:48,163 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/PlotMosaicMean) | |
| 2018-11-05 23:49:48,163 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/PlotMosaicMean) | |
| 181105-23:49:48,175 nipype.workflow ERROR: | |
| Node PlotMosaicMean.a5 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:49:48,175 nipype.workflow:ERROR Node PlotMosaicMean.a5 failed to run on host sh-101-22.int. | |
| 181105-23:49:48,176 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234948-nvelez-PlotMosaicMean.a5-daecf1da-c77f-497a-9d01-b1935ac80b6f.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:49:48,176 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-234948-nvelez-PlotMosaicMean.a5-daecf1da-c77f-497a-9d01-b1935ac80b6f.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:49:48,446 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2018-11-05 23:51:16,303 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.6/site-packages/niworkflows/data/epi-mni_registration_precise_000.json. | |
| 2018-11-05 23:51:16,307 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPI2MNI/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-test_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-test_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-test_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform 1 | |
| 2018-11-05 23:54:52,527 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2018-11-05 23:54:52,528 niworkflows:INFO Report - setting fixed (/usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz) and moving (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPI2MNI/epi_to_mni_Warped.nii.gz) images | |
| 2018-11-05 23:54:52,529 niworkflows:INFO Generating visual report | |
| 181105-23:54:53,192 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPI2MNI) | |
| 2018-11-05 23:54:53,192 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/EPI2MNI) | |
| 181105-23:54:53,200 nipype.workflow ERROR: | |
| Node EPI2MNI.a5 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:54:53,200 nipype.workflow:ERROR Node EPI2MNI.a5 failed to run on host sh-101-22.int. | |
| 181105-23:54:53,202 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235453-nvelez-EPI2MNI.a5-1cb7fe30-05d7-4690-a0e9-14f2c4b3e291.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:54:53,202 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235453-nvelez-EPI2MNI.a5-1cb7fe30-05d7-4690-a0e9-14f2c4b3e291.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:54:53,439 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/UploadMetrics) | |
| 2018-11-05 23:54:53,439 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-02_bold.nii.gz/UploadMetrics) | |
| 181105-23:54:53,450 nipype.workflow ERROR: | |
| Node UploadMetrics.a5 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:54:53,450 nipype.workflow:ERROR Node UploadMetrics.a5 failed to run on host sh-101-22.int. | |
| 181105-23:54:53,451 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235453-nvelez-UploadMetrics.a5-279a9045-98ab-4886-b7c2-ed5514001b7a.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 2018-11-05 23:54:53,451 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235453-nvelez-UploadMetrics.a5-279a9045-98ab-4886-b7c2-ed5514001b7a.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 181105-23:54:57,531 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/SpikesMask) | |
| 2018-11-05 23:54:57,531 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/SpikesMask) | |
| 181105-23:54:57,543 nipype.workflow ERROR: | |
| Node SpikesMask.a4 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:54:57,543 nipype.workflow:ERROR Node SpikesMask.a4 failed to run on host sh-101-22.int. | |
| 181105-23:54:57,544 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235457-nvelez-SpikesMask.a4-0cd9d482-bbdd-409b-82cb-a3515c9845fa.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:54:57,544 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235457-nvelez-SpikesMask.a4-0cd9d482-bbdd-409b-82cb-a3515c9845fa.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:54:57,921 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/PlotMosaicSD) | |
| 2018-11-05 23:54:57,921 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/PlotMosaicSD) | |
| 181105-23:54:57,932 nipype.workflow ERROR: | |
| Node PlotMosaicSD.a4 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:54:57,932 nipype.workflow:ERROR Node PlotMosaicSD.a4 failed to run on host sh-101-22.int. | |
| 181105-23:54:57,933 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235457-nvelez-PlotMosaicSD.a4-4ac53f8f-1025-4d29-9ede-f86839697a37.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:54:57,933 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235457-nvelez-PlotMosaicSD.a4-4ac53f8f-1025-4d29-9ede-f86839697a37.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181105-23:54:58,76 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/PlotMosaicMean) | |
| 2018-11-05 23:54:58,076 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/PlotMosaicMean) | |
| 181105-23:54:58,87 nipype.workflow ERROR: | |
| Node PlotMosaicMean.a4 failed to run on host sh-101-22.int. | |
| 2018-11-05 23:54:58,087 nipype.workflow:ERROR Node PlotMosaicMean.a4 failed to run on host sh-101-22.int. | |
| 181105-23:54:58,88 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235458-nvelez-PlotMosaicMean.a4-15527661-6ef5-4cff-9731-bb3e07ba93a2.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:54:58,088 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181105-235458-nvelez-PlotMosaicMean.a4-15527661-6ef5-4cff-9731-bb3e07ba93a2.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-05 23:54:58,373 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2018-11-05 23:56:23,143 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.6/site-packages/niworkflows/data/epi-mni_registration_precise_000.json. | |
| 2018-11-05 23:56:23,148 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPI2MNI/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPIApplyMask/sub-06_task-test_run-01_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPIApplyMask/sub-06_task-test_run-01_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPIApplyMask/sub-06_task-test_run-01_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform 1 | |
| 2018-11-06 00:00:15,753 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2018-11-06 00:00:15,761 niworkflows:INFO Report - setting fixed (/usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz) and moving (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPI2MNI/epi_to_mni_Warped.nii.gz) images | |
| 2018-11-06 00:00:15,761 niworkflows:INFO Generating visual report | |
| 181106-00:00:16,431 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPI2MNI) | |
| 2018-11-06 00:00:16,431 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/EPI2MNI) | |
| 181106-00:00:16,438 nipype.workflow ERROR: | |
| Node EPI2MNI.a4 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:00:16,438 nipype.workflow:ERROR Node EPI2MNI.a4 failed to run on host sh-101-22.int. | |
| 181106-00:00:16,439 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000016-nvelez-EPI2MNI.a4-b63645d1-af2f-4e16-af00-7f814c90c397.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:00:16,439 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000016-nvelez-EPI2MNI.a4-b63645d1-af2f-4e16-af00-7f814c90c397.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:00:16,738 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/UploadMetrics) | |
| 2018-11-06 00:00:16,738 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.UploadMetrics" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-test_run-01_bold.nii.gz/UploadMetrics) | |
| 181106-00:00:16,748 nipype.workflow ERROR: | |
| Node UploadMetrics.a4 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:00:16,748 nipype.workflow:ERROR Node UploadMetrics.a4 failed to run on host sh-101-22.int. | |
| 181106-00:00:16,750 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000016-nvelez-UploadMetrics.a4-21f737d6-d3d3-4647-92b6-f38e748c3c41.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 2018-11-06 00:00:16,750 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000016-nvelez-UploadMetrics.a4-21f737d6-d3d3-4647-92b6-f38e748c3c41.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 149, in _run_interface | |
| scheme=url.scheme, port=port, email=email) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/webapi.py", line 235, in upload_qc_metrics | |
| response = requests.post(webapi_url, headers=headers, data=dumps(data)) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 110, in post | |
| return request('post', url, data=data, json=json, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/api.py", line 56, in request | |
| return session.request(method=method, url=url, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 474, in request | |
| prep = self.prepare_request(req) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/sessions.py", line 407, in prepare_request | |
| hooks=merge_hooks(request.hooks, self.hooks), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 302, in prepare | |
| self.prepare_url(url, params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/models.py", line 378, in prepare_url | |
| host = idna.encode(host, uts46=True).decode('utf-8') | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 340, in encode | |
| s = uts46_remap(s, std3_rules, transitional) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/requests/packages/idna/core.py", line 309, in uts46_remap | |
| from .uts46data import uts46data | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 181106-00:00:20,825 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/SpikesMask) | |
| 2018-11-06 00:00:20,825 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/SpikesMask) | |
| 181106-00:00:20,832 nipype.workflow ERROR: | |
| Node SpikesMask.a3 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:00:20,832 nipype.workflow:ERROR Node SpikesMask.a3 failed to run on host sh-101-22.int. | |
| 181106-00:00:20,833 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000020-nvelez-SpikesMask.a3-4341cc99-1234-4916-b6ea-878d3bd3f7b4.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:00:20,833 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000020-nvelez-SpikesMask.a3-4341cc99-1234-4916-b6ea-878d3bd3f7b4.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:00:21,73 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/PlotMosaicSD) | |
| 2018-11-06 00:00:21,073 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/PlotMosaicSD) | |
| 181106-00:00:21,87 nipype.workflow ERROR: | |
| Node PlotMosaicSD.a3 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:00:21,087 nipype.workflow:ERROR Node PlotMosaicSD.a3 failed to run on host sh-101-22.int. | |
| 181106-00:00:21,88 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000021-nvelez-PlotMosaicSD.a3-d1d400a3-0ab2-4623-a00b-c3135d4b4c05.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:00:21,088 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000021-nvelez-PlotMosaicSD.a3-d1d400a3-0ab2-4623-a00b-c3135d4b4c05.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:00:21,214 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/PlotMosaicMean) | |
| 2018-11-06 00:00:21,214 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/PlotMosaicMean) | |
| 181106-00:00:21,225 nipype.workflow ERROR: | |
| Node PlotMosaicMean.a3 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:00:21,225 nipype.workflow:ERROR Node PlotMosaicMean.a3 failed to run on host sh-101-22.int. | |
| 181106-00:00:21,226 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000021-nvelez-PlotMosaicMean.a3-311a71ec-bbd1-4224-947f-61b01f0a08a3.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:00:21,226 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000021-nvelez-PlotMosaicMean.a3-311a71ec-bbd1-4224-947f-61b01f0a08a3.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/viz.py", line 124, in _run_interface | |
| annotate=self.inputs.annotate) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/viz/utils.py", line 239, in plot_mosaic | |
| fig = plt.figure(figsize=(22, nrows * 3)) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:00:21,509 niworkflows:INFO Estimating initial transform using AffineInitializer | |
| 2018-11-06 00:01:56,187 niworkflows:INFO Terminal outputs of initialization saved (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPI2MNI/stderr.nipype-init). | |
| 2018-11-06 00:01:56,188 niworkflows:INFO Loading settings from file /usr/local/miniconda/lib/python3.6/site-packages/niworkflows/data/epi-mni_registration_precise_000.json. | |
| 2018-11-06 00:01:56,192 niworkflows:INFO Retry #1, commandline: | |
| antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-moving-transform [ /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPI2MNI/transform.mat, 0 ] --initialize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-self_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform Affine[ 0.08 ] --metric Mattes[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-self_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 56, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz, /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPIApplyMask/sub-06_task-self_run-02_bold_valid_volreg_tstat_corrected_masked.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8x4x2 --use-estimate-learning-rate-once 1 --use-histogram-matching 1 --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform 1 | |
| 2018-11-06 00:05:25,529 niworkflows:INFO Successful spatial normalization (retry #1). | |
| 2018-11-06 00:05:25,530 niworkflows:INFO Report - setting fixed (/usr/local/miniconda/lib/python3.6/site-packages/mriqc/data/mni/2mm_T2_brain.nii.gz) and moving (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPI2MNI/epi_to_mni_Warped.nii.gz) images | |
| 2018-11-06 00:05:25,530 niworkflows:INFO Generating visual report | |
| 181106-00:05:26,199 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPI2MNI) | |
| 2018-11-06 00:05:26,199 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/SpatialNormalization/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/EPI2MNI) | |
| 181106-00:05:26,207 nipype.workflow ERROR: | |
| Node EPI2MNI.a3 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:05:26,207 nipype.workflow:ERROR Node EPI2MNI.a3 failed to run on host sh-101-22.int. | |
| 181106-00:05:26,208 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000526-nvelez-EPI2MNI.a3-6ad1221f-7b7c-4480-a1c7-68bf30e0c819.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:05:26,208 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000526-nvelez-EPI2MNI.a3-6ad1221f-7b7c-4480-a1c7-68bf30e0c819.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 522, in run | |
| runtime = self._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 60, in _post_run_hook | |
| return super(RobustMNINormalizationRPT, self)._post_run_hook(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/mixins/reporting.py", line 47, in _post_run_hook | |
| self._generate_report() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/report_base.py", line 70, in _generate_report | |
| compress=self.inputs.compress_report), | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/viz/utils.py", line 352, in plot_registration | |
| display = plot_anat(anat_nii, **plot_params) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 504, in plot_anat | |
| vmin=vmin, vmax=vmax, cmap=cmap, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 285, in plot_img | |
| black_bg=black_bg, colorbar=colorbar, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:05:30,87 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ComputeIQMs.measures" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/measures) | |
| 2018-11-06 00:05:30,087 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ComputeIQMs.measures" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ComputeIQMs/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-02_bold.nii.gz/measures) | |
| 181106-00:05:30,97 nipype.workflow ERROR: | |
| Node measures.a3 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:05:30,097 nipype.workflow:ERROR Node measures.a3 failed to run on host sh-101-22.int. | |
| 181106-00:05:30,98 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000530-nvelez-measures.a3-79f05178-325a-4435-a95d-3a842f5ec49e.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/functional.py", line 85, in _run_interface | |
| stats = summary_stats(epidata, mskdata, erode=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/qc/anatomical.py", line 565, in summary_stats | |
| from statsmodels.robust.scale import mad | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 2018-11-06 00:05:30,098 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000530-nvelez-measures.a3-79f05178-325a-4435-a95d-3a842f5ec49e.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/interfaces/functional.py", line 85, in _run_interface | |
| stats = summary_stats(epidata, mskdata, erode=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/mriqc/qc/anatomical.py", line 565, in summary_stats | |
| from statsmodels.robust.scale import mad | |
| File "<frozen importlib._bootstrap>", line 971, in _find_and_load | |
| File "<frozen importlib._bootstrap>", line 955, in _find_and_load_unlocked | |
| File "<frozen importlib._bootstrap>", line 665, in _load_unlocked | |
| File "<frozen importlib._bootstrap_external>", line 674, in exec_module | |
| File "<frozen importlib._bootstrap_external>", line 780, in get_code | |
| File "<frozen importlib._bootstrap_external>", line 833, in get_data | |
| OSError: [Errno 5] Input/output error | |
| 181106-00:05:48,403 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-01_bold.nii.gz/SpikesMask) | |
| 2018-11-06 00:05:48,403 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-01_bold.nii.gz/SpikesMask) | |
| 181106-00:05:50,423 nipype.workflow ERROR: | |
| Node SpikesMask.a2 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:05:50,423 nipype.workflow:ERROR Node SpikesMask.a2 failed to run on host sh-101-22.int. | |
| 181106-00:05:50,424 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000550-nvelez-SpikesMask.a2-512c7c9d-8cc9-4ac0-94a0-720eff3b3549.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:05:50,424 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000550-nvelez-SpikesMask.a2-512c7c9d-8cc9-4ac0-94a0-720eff3b3549.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:05:52,542 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-01_bold.nii.gz/gen_ref) | |
| 2018-11-06 00:05:52,542 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-01_bold.nii.gz/gen_ref) | |
| 181106-00:05:52,560 nipype.workflow ERROR: | |
| Node gen_ref.a2 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:05:52,560 nipype.workflow:ERROR Node gen_ref.a2 failed to run on host sh-101-22.int. | |
| 181106-00:05:52,561 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000552-nvelez-gen_ref.a2-cf1a47a4-dd00-418a-97f2-7723026579a3.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 399, in _run_interface | |
| zpad=4, outputtype='NIFTI_GZ').run() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/afni/base.py", line 110, in _run_interface | |
| return super(AFNICommandBase, self)._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 1033, in _run_interface | |
| self.raise_exception(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 970, in raise_exception | |
| ).format(**runtime.dictcopy())) | |
| RuntimeError: Command: | |
| 3dvolreg -Fourier -twopass -1Dfile slice.1D -1Dmatrix_save slice.aff12.1D -prefix slice_volreg.nii.gz -zpad 4 -maxdisp1D slice_md.1D /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-01_bold.nii.gz/gen_ref/slice.nii.gz | |
| Standard output: | |
| Standard error: | |
| /bin/sh: 1: 3dvolreg: Input/output error | |
| Return code: 2 | |
| 2018-11-06 00:05:52,561 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000552-nvelez-gen_ref.a2-cf1a47a4-dd00-418a-97f2-7723026579a3.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 399, in _run_interface | |
| zpad=4, outputtype='NIFTI_GZ').run() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/afni/base.py", line 110, in _run_interface | |
| return super(AFNICommandBase, self)._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 1033, in _run_interface | |
| self.raise_exception(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 970, in raise_exception | |
| ).format(**runtime.dictcopy())) | |
| RuntimeError: Command: | |
| 3dvolreg -Fourier -twopass -1Dfile slice.1D -1Dmatrix_save slice.aff12.1D -prefix slice_volreg.nii.gz -zpad 4 -maxdisp1D slice_md.1D /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-self_run-01_bold.nii.gz/gen_ref/slice.nii.gz | |
| Standard output: | |
| Standard error: | |
| /bin/sh: 1: 3dvolreg: Input/output error | |
| Return code: 2 | |
| 181106-00:06:03,817 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-02_bold.nii.gz/SpikesMask) | |
| 2018-11-06 00:06:03,817 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-02_bold.nii.gz/SpikesMask) | |
| 181106-00:06:03,830 nipype.workflow ERROR: | |
| Node SpikesMask.a1 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:06:03,830 nipype.workflow:ERROR Node SpikesMask.a1 failed to run on host sh-101-22.int. | |
| 181106-00:06:03,831 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000603-nvelez-SpikesMask.a1-9e58e03e-9037-42f1-a0d6-a7b6fe0e049d.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:06:03,831 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000603-nvelez-SpikesMask.a1-9e58e03e-9037-42f1-a0d6-a7b6fe0e049d.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:06:05,828 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-02_bold.nii.gz/gen_ref) | |
| 2018-11-06 00:06:05,828 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-02_bold.nii.gz/gen_ref) | |
| 181106-00:06:05,837 nipype.workflow ERROR: | |
| Node gen_ref.a1 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:06:05,837 nipype.workflow:ERROR Node gen_ref.a1 failed to run on host sh-101-22.int. | |
| 181106-00:06:05,838 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000605-nvelez-gen_ref.a1-a7f5bdd8-6932-43a6-99a2-a9155e939f91.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 399, in _run_interface | |
| zpad=4, outputtype='NIFTI_GZ').run() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/afni/base.py", line 110, in _run_interface | |
| return super(AFNICommandBase, self)._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 1033, in _run_interface | |
| self.raise_exception(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 970, in raise_exception | |
| ).format(**runtime.dictcopy())) | |
| RuntimeError: Command: | |
| 3dvolreg -Fourier -twopass -1Dfile slice.1D -1Dmatrix_save slice.aff12.1D -prefix slice_volreg.nii.gz -zpad 4 -maxdisp1D slice_md.1D /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-02_bold.nii.gz/gen_ref/slice.nii.gz | |
| Standard output: | |
| Standard error: | |
| /bin/sh: 1: 3dvolreg: Input/output error | |
| Return code: 2 | |
| 2018-11-06 00:06:05,838 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000605-nvelez-gen_ref.a1-a7f5bdd8-6932-43a6-99a2-a9155e939f91.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 399, in _run_interface | |
| zpad=4, outputtype='NIFTI_GZ').run() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/afni/base.py", line 110, in _run_interface | |
| return super(AFNICommandBase, self)._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 1033, in _run_interface | |
| self.raise_exception(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 970, in raise_exception | |
| ).format(**runtime.dictcopy())) | |
| RuntimeError: Command: | |
| 3dvolreg -Fourier -twopass -1Dfile slice.1D -1Dmatrix_save slice.aff12.1D -prefix slice_volreg.nii.gz -zpad 4 -maxdisp1D slice_md.1D /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-02_bold.nii.gz/gen_ref/slice.nii.gz | |
| Standard output: | |
| Standard error: | |
| /bin/sh: 1: 3dvolreg: Input/output error | |
| Return code: 2 | |
| 181106-00:06:17,595 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-01_bold.nii.gz/SpikesMask) | |
| 2018-11-06 00:06:17,595 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/ReportsWorkflow/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-01_bold.nii.gz/SpikesMask) | |
| 181106-00:06:17,607 nipype.workflow ERROR: | |
| Node SpikesMask.a0 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:06:17,607 nipype.workflow:ERROR Node SpikesMask.a0 failed to run on host sh-101-22.int. | |
| 181106-00:06:17,608 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000617-nvelez-SpikesMask.a0-1cae2480-83aa-4e8b-89f2-ae1d9da2a8eb.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 2018-11-06 00:06:17,608 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000617-nvelez-SpikesMask.a0-1cae2480-83aa-4e8b-89f2-ae1d9da2a8eb.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/utility/wrappers.py", line 144, in _run_interface | |
| out = function_handle(**args) | |
| File "<string>", line 57, in spikes_mask | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 682, in plot_roi | |
| alpha=alpha, cmap=cmap, vmin=vmin, vmax=vmax, **kwargs) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/img_plotting.py", line 171, in _plot_img_with_bg | |
| colorbar=colorbar) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/plotting/displays.py", line 508, in init_with_figure | |
| facecolor=facecolor) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/pyplot.py", line 533, in figure | |
| **kwargs) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 161, in new_figure_manager | |
| return cls.new_figure_manager_given_figure(num, fig) | |
| File "/home/users/nvelez/.local/lib/python3.6/site-packages/matplotlib/backends/_backend_tk.py", line 1046, in new_figure_manager_given_figure | |
| window = Tk.Tk(className="matplotlib") | |
| File "/usr/local/miniconda/lib/python3.6/tkinter/__init__.py", line 2020, in __init__ | |
| self.tk = _tkinter.create(screenName, baseName, className, interactive, wantobjects, useTk, sync, use) | |
| _tkinter.TclError: couldn't connect to display "localhost:19.0" | |
| 181106-00:06:19,628 nipype.workflow WARNING: | |
| [Node] Error on "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-01_bold.nii.gz/gen_ref) | |
| 2018-11-06 00:06:19,628 nipype.workflow:WARNING [Node] Error on "workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref" (/scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-01_bold.nii.gz/gen_ref) | |
| 181106-00:06:19,640 nipype.workflow ERROR: | |
| Node gen_ref.a0 failed to run on host sh-101-22.int. | |
| 2018-11-06 00:06:19,640 nipype.workflow:ERROR Node gen_ref.a0 failed to run on host sh-101-22.int. | |
| 181106-00:06:19,641 nipype.workflow ERROR: | |
| Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000619-nvelez-gen_ref.a0-55fc658d-7f59-4bce-b4fc-a1728a4e0c13.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 399, in _run_interface | |
| zpad=4, outputtype='NIFTI_GZ').run() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/afni/base.py", line 110, in _run_interface | |
| return super(AFNICommandBase, self)._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 1033, in _run_interface | |
| self.raise_exception(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 970, in raise_exception | |
| ).format(**runtime.dictcopy())) | |
| RuntimeError: Command: | |
| 3dvolreg -Fourier -twopass -1Dfile slice.1D -1Dmatrix_save slice.aff12.1D -prefix slice_volreg.nii.gz -zpad 4 -maxdisp1D slice_md.1D /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-01_bold.nii.gz/gen_ref/slice.nii.gz | |
| Standard output: | |
| Standard error: | |
| /bin/sh: 1: 3dvolreg: Input/output error | |
| Return code: 2 | |
| 2018-11-06 00:06:19,641 nipype.workflow:ERROR Saving crash info to /scratch/groups/hyo/OPUS/BIDS_data/derivatives/mriqc/logs/crash-20181106-000619-nvelez-gen_ref.a0-55fc658d-7f59-4bce-b4fc-a1728a4e0c13.txt | |
| Traceback (most recent call last): | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/plugins/linear.py", line 44, in run | |
| node.run(updatehash=updatehash) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 471, in run | |
| result = self._run_interface(execute=True) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 555, in _run_interface | |
| return self._run_command(execute) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/pipeline/engine/nodes.py", line 635, in _run_command | |
| result = self._interface.run(cwd=outdir) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/interfaces/registration.py", line 399, in _run_interface | |
| zpad=4, outputtype='NIFTI_GZ').run() | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 521, in run | |
| runtime = self._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/afni/base.py", line 110, in _run_interface | |
| return super(AFNICommandBase, self)._run_interface(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 1033, in _run_interface | |
| self.raise_exception(runtime) | |
| File "/usr/local/miniconda/lib/python3.6/site-packages/nipype/interfaces/base/core.py", line 970, in raise_exception | |
| ).format(**runtime.dictcopy())) | |
| RuntimeError: Command: | |
| 3dvolreg -Fourier -twopass -1Dfile slice.1D -1Dmatrix_save slice.aff12.1D -prefix slice_volreg.nii.gz -zpad 4 -maxdisp1D slice_md.1D /scratch/groups/hyo/OPUS/work/mriqc/workflow_enumerator/funcMRIQC/fMRI_HMC_afni/_in_file_..scratch..groups..hyo..OPUS..BIDS_data..sub-06..func..sub-06_task-probe_run-01_bold.nii.gz/gen_ref/slice.nii.gz | |
| Standard output: | |
| Standard error: | |
| /bin/sh: 1: 3dvolreg: Input/output error | |
| Return code: 2 | |
| 181106-00:06:19,654 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise.a0 | |
| 2018-11-06 00:06:19,654 nipype.workflow:ERROR could not run node: workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicNoise.a0 | |
| 181106-00:06:19,654 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed.a0 | |
| 2018-11-06 00:06:19,654 nipype.workflow:ERROR could not run node: workflow_enumerator.anatMRIQCT1w.ReportsWorkflow.PlotMosaicZoomed.a0 | |
| 181106-00:06:19,654 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization.a0 | |
| 2018-11-06 00:06:19,654 nipype.workflow:ERROR could not run node: workflow_enumerator.anatMRIQCT1w.SpatialNormalization.SpatialNormalization.a0 | |
| 181106-00:06:19,654 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a7 | |
| 2018-11-06 00:06:19,654 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a7 | |
| 181106-00:06:19,654 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a7 | |
| 2018-11-06 00:06:19,654 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a7 | |
| 181106-00:06:19,654 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a7 | |
| 2018-11-06 00:06:19,654 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a7 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a7 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a7 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a7 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a7 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a6 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a6 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a6 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a6 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a6 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a6 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a6 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a6 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a6 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a6 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a5 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a5 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a5 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a5 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a5 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a5 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a5 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a5 | |
| 181106-00:06:19,655 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a5 | |
| 2018-11-06 00:06:19,655 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a5 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a4 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a4 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a4 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a4 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a4 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a4 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a4 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a4 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a4 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.UploadMetrics.a4 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a3 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a3 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a3 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicSD.a3 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a3 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.PlotMosaicMean.a3 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a3 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.SpatialNormalization.EPI2MNI.a3 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ComputeIQMs.measures.a3 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ComputeIQMs.measures.a3 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a2 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a2 | |
| 181106-00:06:19,656 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref.a2 | |
| 2018-11-06 00:06:19,656 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref.a2 | |
| 181106-00:06:19,657 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a1 | |
| 2018-11-06 00:06:19,657 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a1 | |
| 181106-00:06:19,657 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref.a1 | |
| 2018-11-06 00:06:19,657 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref.a1 | |
| 181106-00:06:19,657 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a0 | |
| 2018-11-06 00:06:19,657 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.ReportsWorkflow.SpikesMask.a0 | |
| 181106-00:06:19,657 nipype.workflow ERROR: | |
| could not run node: workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref.a0 | |
| 2018-11-06 00:06:19,657 nipype.workflow:ERROR could not run node: workflow_enumerator.funcMRIQC.fMRI_HMC_afni.gen_ref.a0 |
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment