8.3. UKB VBM GMD Extraction

Authors: Federico Raimondo

License: BSD 3 clause

2024-10-10 15:43:59,383 - JUNIFER - INFO - Registering OasisVBMTestingDataGrabber in datagrabber
2024-10-10 15:43:59,384 - JUNIFER - INFO - Registering SPMAuditoryTestingDataGrabber in datagrabber
2024-10-10 15:43:59,384 - JUNIFER - INFO - Registering PartlyCloudyTestingDataGrabber in datagrabber
2024-10-10 15:43:59,389 - JUNIFER - INFO - Registering ParcelAggregation in marker
2024-10-10 15:43:59,397 - JUNIFER - INFO - Registering SQLiteFeatureStorage in storage
2024-10-10 15:43:59,397 - JUNIFER - INFO - Validating Marker Collection
2024-10-10 15:43:59,397 - JUNIFER - INFO - DataGrabber output type: ['VBM_GM']
2024-10-10 15:43:59,398 - JUNIFER - INFO - Validating Data Reader:
2024-10-10 15:43:59,398 - JUNIFER - INFO - Data Reader output type: ['VBM_GM']
2024-10-10 15:43:59,398 - JUNIFER - INFO - Validating Marker: Schaefer1000x7_TrimMean80
2024-10-10 15:43:59,398 - JUNIFER - INFO - Marker output type: ['vector']
2024-10-10 15:43:59,398 - JUNIFER - INFO - Validating storage for Schaefer1000x7_TrimMean80
2024-10-10 15:43:59,398 - JUNIFER - INFO - Validating Marker: Schaefer1000x7_Mean
2024-10-10 15:43:59,398 - JUNIFER - INFO - Marker output type: ['vector']
2024-10-10 15:43:59,398 - JUNIFER - INFO - Validating storage for Schaefer1000x7_Mean
2024-10-10 15:43:59,398 - JUNIFER - INFO - Validating Marker: Schaefer1000x7_Std
2024-10-10 15:43:59,399 - JUNIFER - INFO - Marker output type: ['vector']
2024-10-10 15:43:59,399 - JUNIFER - INFO - Validating storage for Schaefer1000x7_Std

Added README.md to /home/runner/nilearn_data


Dataset created in /home/runner/nilearn_data/oasis1

Downloading data from https://www.nitrc.org/frs/download.php/6364/archive_dartel.tgz ...

Downloaded 226820096 of 905208634 bytes (25.1%,    3.0s remaining)
Downloaded 439967744 of 905208634 bytes (48.6%,    2.1s remaining)
Downloaded 659513344 of 905208634 bytes (72.9%,    1.1s remaining)
Downloaded 879255552 of 905208634 bytes (97.1%,    0.1s remaining) ...done. (4 seconds, 0 min)
Extracting data from /home/runner/nilearn_data/oasis1/7088b0bf88f5650db26e32ec3afdd589/archive_dartel.tgz..... done.
2024-10-10 15:44:09,855 - JUNIFER - INFO - Getting element sub-01
2024-10-10 15:44:09,855 - JUNIFER - INFO - Fitting pipeline
2024-10-10 15:44:09,855 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0001_MR1/mwrc1OAS1_0001_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 15:44:09,855 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 15:44:09,857 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 15:44:09,857 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 15:44:09,858 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 15:44:09,858 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 15:44:09,858 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 15:44:09,858 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 15:44:09,858 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 15:44:09,858 - JUNIFER - INFO - At least one of the parcellation files are missing. Fetching using nilearn.

Added README.md to /home/runner/junifer/data/parcellations


Dataset created in /home/runner/junifer/data/parcellations/schaefer_2018

Downloading data from https://raw.githubusercontent.com/ThomasYeoLab/CBIG/v0.14.3-Update_Yeo2011_Schaefer2018_labelname/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations/MNI/Schaefer2018_1000Parcels_7Networks_order.txt ...
 ...done. (0 seconds, 0 min)
Downloading data from https://raw.githubusercontent.com/ThomasYeoLab/CBIG/v0.14.3-Update_Yeo2011_Schaefer2018_labelname/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations/MNI/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz ...
 ...done. (0 seconds, 0 min)
2024-10-10 15:44:10,011 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 15:44:10,049 - JUNIFER - INFO - Downloading xfm file for MNI152NLin6Asym to MNI152Lin from https://gin.g-node.org/juaml/human-template-xfms/raw/main/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:00:37,215 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
Downloading https://templateflow.s3.amazonaws.com/tpl-MNI152Lin/tpl-MNI152Lin_res-02_T1w.nii.gz

  0%|          | 0.00/1.45M [00:00<?, ?B/s]
100%|██████████| 1.45M/1.45M [00:00<00:00, 19.5MB/s]
2024-10-10 16:00:37,561 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations9qj5bawy/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations9qj5bawy/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpdntjz51s/parcellationsxstz41la/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:00:45,425 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:00:46,604 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:00:46,777 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:00:46,778 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:00:46,778 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:00:46,778 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:00:46,778 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:00:46,778 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:00:46,778 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:00:46,781 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:00:46,814 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:00:47,863 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:00:47,961 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationst6ouhu0q/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationst6ouhu0q/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpdntjz51s/parcellationsmkzgaliq/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:00:55,367 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:00:56,560 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:00:56,737 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:00:56,738 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:00:56,738 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:00:56,738 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:00:56,738 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:00:56,738 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:00:56,738 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:00:56,741 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:00:56,774 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:00:57,827 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:00:57,925 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationstx6xrtq4/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationstx6xrtq4/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpdntjz51s/parcellationsbi2rj3dn/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:01:05,300 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:01:06,505 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:01:06,685 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:01:06,686 - JUNIFER - INFO - Getting element sub-02
2024-10-10 16:01:06,686 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:01:06,686 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0002_MR1/mwrc1OAS1_0002_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:01:06,686 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:01:06,687 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:01:06,687 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:01:06,688 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:01:06,688 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:01:06,688 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:01:06,688 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:01:06,688 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:01:06,690 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:01:06,726 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:01:07,771 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:01:07,869 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsb6ez986p/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsb6ez986p/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp3ttcyp6c/parcellations_wtwcmko/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:01:15,209 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:01:16,397 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:01:16,567 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:01:16,567 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:01:16,568 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:01:16,568 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:01:16,568 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:01:16,568 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:01:16,568 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:01:16,571 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:01:16,603 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:01:17,648 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:01:17,746 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations9a74ruo8/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations9a74ruo8/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp3ttcyp6c/parcellationshs88oc4r/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:01:25,055 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:01:26,213 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:01:26,391 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:01:26,391 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:01:26,392 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:01:26,392 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:01:26,392 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:01:26,392 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:01:26,392 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:01:26,394 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:01:26,427 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:01:27,478 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:01:27,575 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations5_9u1x_h/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations5_9u1x_h/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp3ttcyp6c/parcellationsskm3mciq/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:01:35,002 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:01:36,191 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:01:36,372 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:01:36,373 - JUNIFER - INFO - Getting element sub-03
2024-10-10 16:01:36,373 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:01:36,373 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0003_MR1/mwrc1OAS1_0003_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:01:36,373 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:01:36,374 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:01:36,374 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:01:36,375 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:01:36,375 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:01:36,375 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:01:36,375 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:01:36,375 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:01:36,378 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:01:36,410 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:01:37,461 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:01:37,559 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations7of6n64s/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations7of6n64s/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmplhnds04z/parcellations6x4kfekz/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:01:44,898 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:01:46,108 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:01:46,279 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:01:46,279 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:01:46,279 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:01:46,280 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:01:46,280 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:01:46,280 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:01:46,280 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:01:46,282 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:01:46,315 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:01:47,363 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:01:47,461 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations8bbpi_qr/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations8bbpi_qr/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmplhnds04z/parcellationsqlyb38bf/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:01:54,824 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:01:55,998 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:01:56,171 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:01:56,171 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:01:56,171 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:01:56,172 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:01:56,172 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:01:56,172 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:01:56,172 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:01:56,174 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:01:56,207 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:01:57,257 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:01:57,355 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsqynwd5pw/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsqynwd5pw/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmplhnds04z/parcellations8e9idc47/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:02:04,728 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:02:05,923 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:02:06,100 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:02:06,102 - JUNIFER - INFO - Getting element sub-04
2024-10-10 16:02:06,102 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:02:06,102 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0004_MR1/mwrc1OAS1_0004_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:02:06,103 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:02:06,104 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:02:06,104 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:02:06,104 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:02:06,104 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:02:06,105 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:02:06,105 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:02:06,105 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:02:06,107 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:02:06,143 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:02:07,219 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:02:07,317 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationscw8_qgx5/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationscw8_qgx5/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpz3jsnxfe/parcellationsw6tyloi8/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:02:14,696 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:02:15,912 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:02:16,084 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:02:16,084 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:02:16,085 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:02:16,085 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:02:16,085 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:02:16,085 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:02:16,085 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:02:16,087 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:02:16,120 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:02:17,186 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:02:17,284 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationscb6zjbnc/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationscb6zjbnc/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpz3jsnxfe/parcellationsvf5jf82t/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:02:24,612 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:02:25,789 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:02:25,961 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:02:25,961 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:02:25,962 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:02:25,962 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:02:25,962 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:02:25,962 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:02:25,962 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:02:25,964 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:02:25,997 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:02:27,057 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:02:27,155 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationshd62eo3v/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationshd62eo3v/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpz3jsnxfe/parcellationsyrjmgu_j/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:02:34,452 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:02:35,666 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:02:35,843 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:02:35,844 - JUNIFER - INFO - Getting element sub-05
2024-10-10 16:02:35,844 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:02:35,845 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0005_MR1/mwrc1OAS1_0005_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:02:35,845 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:02:35,846 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:02:35,846 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:02:35,847 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:02:35,847 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:02:35,847 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:02:35,847 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:02:35,847 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:02:35,849 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:02:35,885 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:02:36,954 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:02:37,053 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsavgh9spm/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsavgh9spm/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpqbr1o7h4/parcellationsmz_rsn32/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:02:44,419 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:02:45,624 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:02:45,796 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:02:45,796 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:02:45,797 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:02:45,797 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:02:45,797 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:02:45,797 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:02:45,797 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:02:45,799 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:02:45,831 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:02:46,896 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:02:46,994 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsmzwefhpo/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsmzwefhpo/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpqbr1o7h4/parcellationsfe5oyxa0/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:02:54,271 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:02:55,453 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:02:55,628 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:02:55,628 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:02:55,629 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:02:55,629 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:02:55,629 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:02:55,629 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:02:55,629 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:02:55,631 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:02:55,664 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:02:56,727 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:02:56,824 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations11k09e0e/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations11k09e0e/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpqbr1o7h4/parcellations31t4g5il/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:03:04,223 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:03:05,443 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:03:05,621 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:03:05,623 - JUNIFER - INFO - Getting element sub-06
2024-10-10 16:03:05,623 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:03:05,623 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0006_MR1/mwrc1OAS1_0006_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:03:05,624 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:03:05,625 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:03:05,625 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:03:05,625 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:03:05,625 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:03:05,626 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:03:05,626 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:03:05,626 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:03:05,628 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:03:05,663 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:03:06,747 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:03:06,845 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations4fz00654/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations4fz00654/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp4mgiywuq/parcellations4i3saymp/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:03:14,275 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:03:15,469 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:03:15,642 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:03:15,642 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:03:15,642 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:03:15,642 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:03:15,642 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:03:15,643 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:03:15,643 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:03:15,645 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:03:15,677 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:03:16,738 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:03:16,837 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsbmacnr3o/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsbmacnr3o/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp4mgiywuq/parcellationst4drk4oz/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:03:24,117 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:03:25,333 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:03:25,508 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:03:25,508 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:03:25,509 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:03:25,509 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:03:25,509 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:03:25,509 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:03:25,509 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:03:25,511 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:03:25,544 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:03:26,620 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:03:26,718 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations_en2b16o/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations_en2b16o/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp4mgiywuq/parcellationsnxh8k5b_/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:03:34,085 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:03:35,316 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:03:35,495 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:03:35,497 - JUNIFER - INFO - Getting element sub-07
2024-10-10 16:03:35,497 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:03:35,498 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0007_MR1/mwrc1OAS1_0007_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:03:35,498 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:03:35,499 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:03:35,499 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:03:35,500 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:03:35,500 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:03:35,500 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:03:35,500 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:03:35,500 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:03:35,502 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:03:35,539 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:03:36,617 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:03:36,716 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationslvpuabfd/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationslvpuabfd/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpvhmvcku8/parcellationsuwl3yy49/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:03:44,172 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:03:45,386 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:03:45,556 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:03:45,557 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:03:45,557 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:03:45,557 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:03:45,557 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:03:45,557 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:03:45,557 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:03:45,560 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:03:45,592 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:03:46,670 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:03:46,770 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsu2c56fgc/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsu2c56fgc/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpvhmvcku8/parcellationsn5rzprl5/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:03:54,184 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:03:55,369 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:03:55,544 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:03:55,544 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:03:55,545 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:03:55,545 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:03:55,545 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:03:55,545 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:03:55,545 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:03:55,547 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:03:55,580 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:03:56,654 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:03:56,754 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsh9f278i1/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsh9f278i1/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpvhmvcku8/parcellations36xi0gul/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:04:04,141 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:04:05,376 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:04:05,555 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:04:05,557 - JUNIFER - INFO - Getting element sub-08
2024-10-10 16:04:05,557 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:04:05,557 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0009_MR1/mwrc1OAS1_0009_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:04:05,557 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:04:05,558 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:04:05,558 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:04:05,559 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:04:05,559 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:04:05,559 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:04:05,559 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:04:05,559 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:04:05,561 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:04:05,597 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:04:06,680 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:04:06,778 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsz573zt19/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsz573zt19/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpuiehsxpx/parcellationsuflyl9sb/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:04:14,215 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:04:15,439 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:04:15,610 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:04:15,610 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:04:15,611 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:04:15,611 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:04:15,611 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:04:15,611 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:04:15,611 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:04:15,614 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:04:15,646 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:04:16,722 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:04:16,820 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsslami8uy/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsslami8uy/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpuiehsxpx/parcellationsd6lcjzlo/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:04:24,229 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:04:25,451 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:04:25,626 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:04:25,626 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:04:25,627 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:04:25,627 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:04:25,627 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:04:25,627 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:04:25,627 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:04:25,629 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:04:25,661 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:04:26,719 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:04:26,816 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsg26ra_bi/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsg26ra_bi/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpuiehsxpx/parcellations4wmtu5rc/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:04:34,145 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:04:35,374 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:04:35,552 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:04:35,554 - JUNIFER - INFO - Getting element sub-09
2024-10-10 16:04:35,554 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:04:35,554 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0010_MR1/mwrc1OAS1_0010_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:04:35,554 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:04:35,556 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:04:35,556 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:04:35,556 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:04:35,557 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:04:35,557 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:04:35,557 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:04:35,557 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:04:35,560 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:04:35,607 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:04:36,689 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:04:36,787 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations0tqxejdf/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations0tqxejdf/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpssbhqyaw/parcellationsblsyrijp/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:04:44,201 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:04:45,450 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:04:45,620 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:04:45,620 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:04:45,620 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:04:45,620 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:04:45,621 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:04:45,621 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:04:45,621 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:04:45,623 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:04:45,655 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:04:46,749 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:04:46,846 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsme5or9ne/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsme5or9ne/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpssbhqyaw/parcellations25_kdlk4/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:04:54,099 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:04:55,338 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:04:55,515 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:04:55,515 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:04:55,515 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:04:55,515 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:04:55,516 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:04:55,516 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:04:55,516 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:04:55,518 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:04:55,550 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:04:56,631 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:04:56,729 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsa1c1auy4/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsa1c1auy4/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpssbhqyaw/parcellations3ch85730/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:05:04,056 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:05:05,308 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:05:05,486 - JUNIFER - INFO - Marker collection fitting done
2024-10-10 16:05:05,487 - JUNIFER - INFO - Getting element sub-10
2024-10-10 16:05:05,487 - JUNIFER - INFO - Fitting pipeline
2024-10-10 16:05:05,487 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0011_MR1/mwrc1OAS1_0011_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-10-10 16:05:05,488 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-10-10 16:05:05,489 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-10-10 16:05:05,489 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:05:05,489 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:05:05,489 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:05:05,490 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:05:05,490 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:05:05,490 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:05:05,492 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:05:05,524 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:05:06,609 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:05:06,707 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations7_88_reo/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations7_88_reo/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpocbb0wzn/parcellationslljsmpzd/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:05:14,098 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:05:15,354 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:05:15,529 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-10-10 16:05:15,529 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:05:15,530 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:05:15,530 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:05:15,530 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:05:15,530 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:05:15,530 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:05:15,532 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:05:15,564 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:05:16,633 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:05:16,730 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellationsl4z8i_py/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellationsl4z8i_py/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpocbb0wzn/parcellations81bxzm87/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:05:24,259 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:05:25,435 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:05:25,609 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-10-10 16:05:25,609 - JUNIFER - INFO - Computing VBM_GM
2024-10-10 16:05:25,609 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-10-10 16:05:25,609 - JUNIFER - INFO - Parcellation parameters:
2024-10-10 16:05:25,610 - JUNIFER - INFO -      resolution: 2.0
2024-10-10 16:05:25,610 - JUNIFER - INFO -      n_rois: 1000
2024-10-10 16:05:25,610 - JUNIFER - INFO -      yeo_networks: 7
2024-10-10 16:05:25,612 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-10-10 16:05:25,643 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-10-10 16:05:26,710 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-10-10 16:05:26,807 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpxfnbpk9d/parcellations1pzlhm7t/Schaefer1000x7.nii.gz -r /tmp/tmpxfnbpk9d/parcellations1pzlhm7t/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpocbb0wzn/parcellations2f_u9tx3/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-10-10 16:05:34,169 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-10-10 16:05:35,394 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp_2cn8hsq/test.sqlite (multiple output)>
2024-10-10 16:05:35,575 - JUNIFER - INFO - Marker collection fitting done

import tempfile

import junifer.testing.registry  # noqa: F401
from junifer.api import run


datagrabber = {
    "kind": "OasisVBMTestingDataGrabber",
}

markers = [
    {
        "name": "Schaefer1000x7_TrimMean80",
        "kind": "ParcelAggregation",
        "parcellation": "Schaefer1000x7",
        "method": "trim_mean",
        "method_params": {"proportiontocut": 0.2},
    },
    {
        "name": "Schaefer1000x7_Mean",
        "kind": "ParcelAggregation",
        "parcellation": "Schaefer1000x7",
        "method": "mean",
    },
    {
        "name": "Schaefer1000x7_Std",
        "kind": "ParcelAggregation",
        "parcellation": "Schaefer1000x7",
        "method": "std",
    },
]

storage = {
    "kind": "SQLiteFeatureStorage",
}

with tempfile.TemporaryDirectory() as tmpdir:
    uri = f"{tmpdir}/test.sqlite"
    storage["uri"] = uri
    run(
        workdir="/tmp",
        datagrabber=datagrabber,
        markers=markers,
        storage=storage,
    )