Alexandru Foias alexfoias
alexfoias
/ sci-zurich. additional_data
Last active
April 1, 2022 15:30
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| ~/data/sci-zurich ╱ af/additional_data +499 git add . ✔ ╱ base ╱ 11:23:16 | |
| ~/data/sci-zurich ╱ af/additional_data +499 git commit -m "add additional data" ✔ ╱ base ╱ 11:23:23 | |
| [af/additional_data 5cdccf6] add additional data | |
| 499 files changed, 239223 insertions(+) | |
| create mode 100644 derivatives/labels/sub-zh23/ses-01/anat/sub-zh23_ses-01_acq-sag_T2w_lesion-manual.json | |
| create mode 100644 derivatives/labels/sub-zh23/ses-01/anat/sub-zh23_ses-01_acq-sag_T2w_lesion-manual.nii.gz | |
| create mode 100644 derivatives/labels/sub-zh23/ses-01/anat/sub-zh23_ses-01_acq-sag_T2w_lesion-manual.roi | |
| create mode 100644 derivatives/labels/sub-zh24/ses-01/anat/sub-zh24_ses-01_acq-sag_T2w_lesion-manual.json | |
| create mode 100644 derivatives/labels/sub-zh24/ses-01/anat/sub-zh24_ses-01_acq-sag_T2w_lesion-manual.roi |
alexfoias
/ fix_defaced_images
Created
March 7, 2022 15:33
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| ~/data/data-multi-subject ╱ af/fix_defaced_images git annex copy --to amazon | |
| copy derivatives/labels/sub-amu01/anat/sub-amu01_T1w_labels-disc-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu01/anat/sub-amu01_T2w_labels-disc-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu02/anat/sub-amu02_T1w_RPI_r_labels-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu02/anat/sub-amu02_T1w_labels-disc-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu02/anat/sub-amu02_T2w_labels-disc-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu03/anat/sub-amu03_T1w_labels-disc-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu03/anat/sub-amu03_T2w_labels-disc-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu04/anat/sub-amu04_T1w_RPI_r_labels-manual.nii.gz ok | |
| copy derivatives/labels/sub-amu04/anat/sub-amu04_T1w_labels-disc-manual.nii.gz ok |
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| [6/10/21 1:10:35] (base) alex@Sansfil-Securise-Employes-Poly-229-250 code % git clone https://github.com/neuropoly/axondeepseg.git | |
| Cloning into 'axondeepseg'... | |
| remote: Enumerating objects: 5696, done. | |
| remote: Counting objects: 100% (790/790), done. | |
| remote: Compressing objects: 100% (509/509), done. | |
| remote: Total 5696 (delta 490), reused 496 (delta 279), pack-reused 4906 | |
| Receiving objects: 100% (5696/5696), 150.95 MiB | 6.60 MiB/s, done. | |
| Resolving deltas: 100% (3835/3835), done. | |
| [6/10/21 1:11:02] (base) alex@Sansfil-Securise-Employes-Poly-229-250 code % cd axondeepseg | |
| [6/10/21 1:12:00] (base) alex@Sansfil-Securise-Employes-Poly-229-250 axondeepseg % ls |
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| [20/04/21 11:02:59] (base) alex@NeuroPoly-MacBook-Pro fsleyes-plugin-shimming-toolbox % git checkout ah/plugin-package | |
| Branch 'ah/plugin-package' set up to track remote branch 'ah/plugin-package' from 'origin'. | |
| Switched to a new branch 'ah/plugin-package' | |
| [20/04/21 11:03:07] (base) alex@NeuroPoly-MacBook-Pro fsleyes-plugin-shimming-toolbox % ls | |
| Dockerfile README.md run.sh | |
| MANIFEST.in fsleyes_plugin_shimming_toolbox setup.py | |
| Makefile installer testing | |
| [20/04/21 11:03:09] (base) alex@NeuroPoly-MacBook-Pro fsleyes-plugin-shimming-toolbox % make install | |
| bash installer/install_conda.sh |
alexfoias
/ gist:bdf8f28c3e2adbe8048cc3ce4aaf6736
Created
April 13, 2021 19:28
PR77 data-multi-subject
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| [13/04/21 3:05:32] (base) alex@NeuroPoly-MacBook-Pro data-multi-subject % git annex dead here | |
| dead here (recording state in git...) | |
| ok | |
| (recording state in git...) | |
| [13/04/21 3:05:34] (base) alex@NeuroPoly-MacBook-Pro data-multi-subject % git annex sync --content amazon | |
| commit | |
| On branch af/add_ucdavis | |
| Your branch is up to date with 'origin/af/add_ucdavis'. | |
| nothing to commit, working tree clean |
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| Last login: Mon Mar 8 12:02:43 on ttys001 | |
| [8/03/21 2:23:18] (base) alex@NeuroPoly-MacBook-Pro ~ % cd data | |
| [8/03/21 3:00:47] (base) alex@NeuroPoly-MacBook-Pro data % ls | |
| AtlasRat data-single-subject-fast rene-data-multi-subject | |
| data-multi-subject data-single-subject-slow sct-testing-large | |
| data-single-subject errsm uk-biobank | |
| [8/03/21 3:00:47] (base) alex@NeuroPoly-MacBook-Pro data % cd sct-testing-large | |
| [8/03/21 3:00:50] (base) alex@NeuroPoly-MacBook-Pro sct-testing-large % git status | |
| On branch af/add_subj_user0016 | |
| nothing to commit, working tree clean |
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| smartctl 6.6 2016-05-31 r4324 [x86_64-linux-4.15.0-76-generic] (local build) | |
| Copyright (C) 2002-16, Bruce Allen, Christian Franke, www.smartmontools.org | |
| === START OF INFORMATION SECTION === | |
| Model Family: Seagate Barracuda 7200.14 (AF) | |
| Device Model: ST3000DM001-1CH166 | |
| Serial Number: Z1F5G5F4 | |
| LU WWN Device Id: 5 000c50 0790a929e | |
| Firmware Version: CC43 | |
| User Capacity: 3,000,592,982,016 bytes [3.00 TB] |
alexfoias
/ gist:46c67a233f364c0b164fc3b190a7e4c9
Created
November 18, 2020 19:50
Test install jn/3048-big-sur-version-parsing-9b30b2a2fd751a4cbb2c24677e1e9eb5fc39f51e
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| [18/11/20 2:45:25] (base) alex@NeuroPoly-MacBook-Pro spinalcordtoolbox % ./install_sct | |
| ******************************* | |
| * Welcome to SCT installation * | |
| ******************************* | |
| Checking OS type and version... |
alexfoias
/ install log - fc1879ea9aa2862c7c888d2454ae62bccde861d2
Created
November 16, 2020 16:33
sct install Big sur
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| [16/11/20 11:02:51] (base) alex@NeuroPoly-MacBook-Pro spinalcordtoolbox % ./install_sct | |
| ******************************* | |
| * Welcome to SCT installation * | |
| ******************************* | |
| Checking OS type and version... |
alexfoias
/ pytest without prelude or dcm2niix
Created
November 5, 2020 19:12
pytest without prelude or dcm2niix
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| [5/11/20 2:10:05] (base) alex@NeuroPoly-MacBook-Pro shimming-toolbox % pytest -m "not prelude and not dcm2niix" | |
| INFO:root:/Users/alex/code/shimming-toolbox/testing_data, testing_data | |
| INFO:shimmingtoolbox.download:Trying URL: https://github.com/shimming-toolbox/data-testing/archive/r20201021.zip | |
| INFO:shimmingtoolbox.download:Downloading: data-testing-r20201021.zip | |
| Status: 100%|████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████████| 11.4M/11.4M [00:00<00:00, 13.9MB/s] | |
| INFO:shimmingtoolbox.download:Unzip data to: /var/folders/11/q0s99tk17rj_7jtmj1psydbr0000gn/T/st_download_8k3rb4g3 | |
| INFO:shimmingtoolbox.download:Removing temporary folders... | |
| ============================================================================================== test session starts =============================================================================================== | |
| platform darwin -- Python 3.8.3, pytest-4.6.11, py-1.9.0, plu |
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