8.3. UKB VBM GMD Extraction

Authors: Federico Raimondo

License: BSD 3 clause

2024-08-14 13:18:48,302 - JUNIFER - INFO - Registering OasisVBMTestingDataGrabber in datagrabber
2024-08-14 13:18:48,302 - JUNIFER - INFO - Registering SPMAuditoryTestingDataGrabber in datagrabber
2024-08-14 13:18:48,302 - JUNIFER - INFO - Registering PartlyCloudyTestingDataGrabber in datagrabber
2024-08-14 13:18:48,302 - JUNIFER - INFO - Validating Marker Collection
2024-08-14 13:18:48,302 - JUNIFER - INFO - DataGrabber output type: ['VBM_GM']
2024-08-14 13:18:48,302 - JUNIFER - INFO - Validating Data Reader:
2024-08-14 13:18:48,303 - JUNIFER - INFO - Data Reader output type: ['VBM_GM']
2024-08-14 13:18:48,303 - JUNIFER - INFO - Validating Marker: Schaefer1000x7_TrimMean80
2024-08-14 13:18:48,303 - JUNIFER - INFO - Marker output type: ['vector']
2024-08-14 13:18:48,303 - JUNIFER - INFO - Validating storage for Schaefer1000x7_TrimMean80
2024-08-14 13:18:48,303 - JUNIFER - INFO - Validating Marker: Schaefer1000x7_Mean
2024-08-14 13:18:48,303 - JUNIFER - INFO - Marker output type: ['vector']
2024-08-14 13:18:48,303 - JUNIFER - INFO - Validating storage for Schaefer1000x7_Mean
2024-08-14 13:18:48,303 - JUNIFER - INFO - Validating Marker: Schaefer1000x7_Std
2024-08-14 13:18:48,303 - JUNIFER - INFO - Marker output type: ['vector']
2024-08-14 13:18:48,303 - 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 117686272 of 905208634 bytes (13.0%,    6.7s remaining)
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Downloaded 815955968 of 905208634 bytes (90.1%,    0.7s remaining) ...done. (7 seconds, 0 min)
Extracting data from /home/runner/nilearn_data/oasis1/7088b0bf88f5650db26e32ec3afdd589/archive_dartel.tgz..... done.
2024-08-14 13:19:01,905 - JUNIFER - INFO - Getting element sub-01
2024-08-14 13:19:01,906 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:19:01,906 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0001_MR1/mwrc1OAS1_0001_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:19:01,906 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:19:01,907 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:19:01,907 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:19:01,908 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:19:01,908 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:19:01,908 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:19:01,908 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:19:01,908 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:19:01,908 - 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)
2024-08-14 13:19:01,937 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:19:01,975 - 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
2024-08-14 13:26:07,524 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
Downloading https://templateflow.s3.amazonaws.com/tpl-MNI152Lin/tpl-MNI152Lin_res-02_T1w.nii.gz

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2024-08-14 13:26:08,324 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsiogct_dd/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsiogct_dd/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp47d6z4yz/parcellationsnqcybnd7/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:26:15,542 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:26:16,721 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:26:16,877 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:26:16,877 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:26:16,877 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:26:16,877 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:26:16,877 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:26:16,878 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:26:16,878 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:26:16,880 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:26:16,914 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:26:17,956 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:26:18,056 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsogkuvzxm/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsogkuvzxm/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp47d6z4yz/parcellations1_nwiwhq/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:26:25,892 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:26:27,071 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:26:27,230 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:26:27,230 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:26:27,230 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:26:27,230 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:26:27,230 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:26:27,230 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:26:27,230 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:26:27,232 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:26:27,267 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:26:28,311 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:26:28,410 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsqrz34hep/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsqrz34hep/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp47d6z4yz/parcellationszsedaok7/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:26:35,731 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:26:36,915 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:26:37,078 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:26:37,079 - JUNIFER - INFO - Getting element sub-02
2024-08-14 13:26:37,079 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:26:37,079 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0002_MR1/mwrc1OAS1_0002_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:26:37,079 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:26:37,080 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:26:37,080 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:26:37,081 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:26:37,081 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:26:37,081 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:26:37,081 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:26:37,081 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:26:37,083 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:26:37,116 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:26:38,183 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:26:38,282 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations86yi_2k7/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations86yi_2k7/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpr3_6gz3q/parcellationsiy96cj_g/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:26:45,735 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:26:46,895 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:26:47,048 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:26:47,048 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:26:47,049 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:26:47,049 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:26:47,049 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:26:47,049 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:26:47,049 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:26:47,051 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:26:47,084 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:26:48,119 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:26:48,217 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations2zazoam9/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations2zazoam9/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpr3_6gz3q/parcellations1evwi1eq/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:26:55,612 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:26:56,777 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:26:56,939 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:26:56,939 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:26:56,939 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:26:56,939 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:26:56,939 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:26:56,940 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:26:56,940 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:26:56,942 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:26:56,974 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:26:58,017 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:26:58,116 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsg02yfvxp/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsg02yfvxp/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpr3_6gz3q/parcellationsjnsnr9fv/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:27:05,498 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:27:06,639 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:27:06,797 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:27:06,798 - JUNIFER - INFO - Getting element sub-03
2024-08-14 13:27:06,798 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:27:06,798 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0003_MR1/mwrc1OAS1_0003_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:27:06,798 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:27:06,799 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:27:06,799 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:27:06,799 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:27:06,799 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:27:06,800 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:27:06,800 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:27:06,800 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:27:06,802 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:27:06,833 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:27:07,880 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:27:07,979 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations_sjv_yo1/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations_sjv_yo1/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpk508vb1z/parcellationsoxlfsz0p/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:27:15,323 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:27:16,549 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:27:16,701 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:27:16,701 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:27:16,701 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:27:16,701 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:27:16,701 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:27:16,702 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:27:16,702 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:27:16,703 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:27:16,736 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:27:17,790 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:27:17,889 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations61tr04vj/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations61tr04vj/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpk508vb1z/parcellations_iau6isl/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:27:25,325 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:27:26,514 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:27:26,671 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:27:26,671 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:27:26,671 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:27:26,671 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:27:26,671 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:27:26,671 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:27:26,671 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:27:26,673 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:27:26,706 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:27:27,751 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:27:27,850 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationssp6q8t8b/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationssp6q8t8b/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpk508vb1z/parcellationssvcem3tn/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:27:35,249 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:27:36,426 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:27:36,587 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:27:36,588 - JUNIFER - INFO - Getting element sub-04
2024-08-14 13:27:36,588 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:27:36,588 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0004_MR1/mwrc1OAS1_0004_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:27:36,588 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:27:36,589 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:27:36,589 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:27:36,589 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:27:36,590 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:27:36,590 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:27:36,590 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:27:36,590 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:27:36,592 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:27:36,623 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:27:37,660 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:27:37,758 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsjuvjp0d6/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsjuvjp0d6/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpnfb2ricw/parcellationss6ky4jr4/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:27:45,039 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:27:46,218 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:27:46,371 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:27:46,371 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:27:46,372 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:27:46,372 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:27:46,372 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:27:46,372 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:27:46,372 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:27:46,374 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:27:46,412 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:27:47,450 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:27:47,549 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations2456l_2u/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations2456l_2u/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpnfb2ricw/parcellationsl66ba2j2/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:27:54,949 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:27:56,089 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:27:56,246 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:27:56,247 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:27:56,247 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:27:56,247 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:27:56,247 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:27:56,247 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:27:56,247 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:27:56,249 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:27:56,282 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:27:57,320 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:27:57,419 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsnjluxjwz/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsnjluxjwz/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpnfb2ricw/parcellations8co8i226/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:28:04,842 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:28:06,002 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:28:06,162 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:28:06,163 - JUNIFER - INFO - Getting element sub-05
2024-08-14 13:28:06,163 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:28:06,163 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0005_MR1/mwrc1OAS1_0005_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:28:06,163 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:28:06,164 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:28:06,164 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:28:06,165 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:28:06,165 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:28:06,165 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:28:06,165 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:28:06,165 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:28:06,167 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:28:06,198 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:28:07,234 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:28:07,333 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsgpb_yn1_/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsgpb_yn1_/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpmtg7_p1b/parcellations22vgm5_2/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:28:14,676 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:28:15,839 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:28:15,995 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:28:15,996 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:28:15,996 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:28:15,996 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:28:15,996 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:28:15,996 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:28:15,996 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:28:15,998 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:28:16,031 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:28:17,066 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:28:17,165 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsde6ovxfg/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsde6ovxfg/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpmtg7_p1b/parcellationsk42awlzj/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:28:24,571 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:28:25,720 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:28:25,874 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:28:25,874 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:28:25,875 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:28:25,875 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:28:25,875 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:28:25,875 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:28:25,875 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:28:25,877 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:28:25,909 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:28:26,948 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:28:27,047 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsyzilk280/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsyzilk280/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpmtg7_p1b/parcellationsu7r3utqv/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:28:34,561 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:28:35,714 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:28:35,877 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:28:35,878 - JUNIFER - INFO - Getting element sub-06
2024-08-14 13:28:35,878 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:28:35,878 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0006_MR1/mwrc1OAS1_0006_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:28:35,878 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:28:35,879 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:28:35,879 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:28:35,880 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:28:35,880 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:28:35,880 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:28:35,880 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:28:35,880 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:28:35,882 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:28:35,914 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:28:36,947 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:28:37,046 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsanre16ed/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsanre16ed/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpv6uls2kq/parcellationsmguy8aho/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:28:44,414 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:28:45,582 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:28:45,736 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:28:45,737 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:28:45,737 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:28:45,737 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:28:45,737 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:28:45,737 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:28:45,737 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:28:45,739 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:28:45,772 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:28:46,806 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:28:46,905 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsg4ctg2kk/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsg4ctg2kk/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpv6uls2kq/parcellationsrsuqhnih/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:28:54,197 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:28:55,382 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:28:55,541 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:28:55,541 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:28:55,542 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:28:55,542 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:28:55,542 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:28:55,542 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:28:55,542 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:28:55,544 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:28:55,577 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:28:56,627 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:28:56,726 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsry9gip5f/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsry9gip5f/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpv6uls2kq/parcellationsxks86sy7/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:29:04,193 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:29:05,382 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:29:05,541 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:29:05,541 - JUNIFER - INFO - Getting element sub-07
2024-08-14 13:29:05,542 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:29:05,542 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0007_MR1/mwrc1OAS1_0007_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:29:05,542 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:29:05,543 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:29:05,543 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:29:05,543 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:29:05,543 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:29:05,544 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:29:05,544 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:29:05,544 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:29:05,546 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:29:05,578 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:29:06,619 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:29:06,717 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations3go4oivm/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations3go4oivm/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp6iia2sew/parcellationswrnva4bk/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:29:14,028 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:29:15,190 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:29:15,346 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:29:15,347 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:29:15,347 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:29:15,347 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:29:15,347 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:29:15,347 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:29:15,347 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:29:15,349 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:29:15,382 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:29:16,401 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:29:16,501 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations7w2uoxep/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations7w2uoxep/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp6iia2sew/parcellationsnz6oe2xj/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:29:23,894 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:29:25,097 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:29:25,258 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:29:25,258 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:29:25,258 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:29:25,258 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:29:25,258 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:29:25,259 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:29:25,259 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:29:25,261 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:29:25,293 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:29:26,328 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:29:26,427 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsb0x7xbp2/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsb0x7xbp2/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp6iia2sew/parcellationsgvyebyuv/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:29:33,747 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:29:34,891 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:29:35,050 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:29:35,051 - JUNIFER - INFO - Getting element sub-08
2024-08-14 13:29:35,051 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:29:35,051 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0009_MR1/mwrc1OAS1_0009_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:29:35,051 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:29:35,052 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:29:35,052 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:29:35,053 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:29:35,053 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:29:35,053 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:29:35,053 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:29:35,053 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:29:35,055 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:29:35,093 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:29:36,117 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:29:36,216 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsjnzb3jo0/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsjnzb3jo0/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp4b4eo4a7/parcellations2g0g_gog/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:29:43,619 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:29:44,788 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:29:44,943 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:29:44,943 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:29:44,944 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:29:44,944 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:29:44,944 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:29:44,944 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:29:44,944 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:29:44,946 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:29:44,979 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:29:46,005 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:29:46,103 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations3j2c29by/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations3j2c29by/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp4b4eo4a7/parcellationsg4hbtldq/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:29:53,529 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:29:54,674 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:29:54,830 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:29:54,830 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:29:54,831 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:29:54,831 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:29:54,831 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:29:54,831 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:29:54,831 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:29:54,833 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:29:54,865 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:29:55,879 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:29:55,978 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsfat04f8n/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsfat04f8n/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp4b4eo4a7/parcellationsq0ow5a8d/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:30:03,467 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:30:04,623 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:30:04,783 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:30:04,784 - JUNIFER - INFO - Getting element sub-09
2024-08-14 13:30:04,784 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:30:04,784 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0010_MR1/mwrc1OAS1_0010_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:30:04,784 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:30:04,785 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:30:04,785 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:30:04,786 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:30:04,786 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:30:04,786 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:30:04,786 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:30:04,786 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:30:04,788 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:30:04,819 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:30:05,846 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:30:05,945 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations6ujn3hj0/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations6ujn3hj0/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp749czkl0/parcellationsbqyhxla9/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:30:13,331 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:30:14,511 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:30:14,664 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:30:14,664 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:30:14,664 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:30:14,664 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:30:14,664 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:30:14,664 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:30:14,664 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:30:14,666 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:30:14,698 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:30:15,724 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:30:15,823 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsbfvwzo2q/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsbfvwzo2q/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp749czkl0/parcellationsdf4gzf8q/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:30:23,338 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:30:24,492 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:30:24,649 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:30:24,649 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:30:24,650 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:30:24,650 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:30:24,650 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:30:24,650 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:30:24,650 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:30:24,652 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:30:24,684 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:30:25,702 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:30:25,800 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations05bdplow/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations05bdplow/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmp749czkl0/parcellationsepj7zegh/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:30:33,174 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:30:34,349 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:30:34,512 - JUNIFER - INFO - Marker collection fitting done
2024-08-14 13:30:34,513 - JUNIFER - INFO - Getting element sub-10
2024-08-14 13:30:34,513 - JUNIFER - INFO - Fitting pipeline
2024-08-14 13:30:34,513 - JUNIFER - INFO - Reading VBM_GM from /home/runner/nilearn_data/oasis1/OAS1_0011_MR1/mwrc1OAS1_0011_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-08-14 13:30:34,513 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-08-14 13:30:34,514 - JUNIFER - INFO - Fitting marker Schaefer1000x7_TrimMean80
2024-08-14 13:30:34,514 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:30:34,514 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:30:34,515 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:30:34,515 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:30:34,515 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:30:34,515 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:30:34,517 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:30:34,550 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:30:35,606 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:30:35,705 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationsjer31exi/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationsjer31exi/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpv456n9nv/parcellations17ckd_wf/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:30:43,135 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:30:44,270 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:30:44,422 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Mean
2024-08-14 13:30:44,422 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:30:44,422 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:30:44,422 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:30:44,422 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:30:44,422 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:30:44,423 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:30:44,424 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:30:44,457 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:30:45,464 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:30:45,563 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellations5cspszt_/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellations5cspszt_/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpv456n9nv/parcellations38zeal06/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:30:52,882 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:30:54,052 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:30:54,209 - JUNIFER - INFO - Fitting marker Schaefer1000x7_Std
2024-08-14 13:30:54,209 - JUNIFER - INFO - Computing VBM_GM
2024-08-14 13:30:54,209 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-08-14 13:30:54,209 - JUNIFER - INFO - Parcellation parameters:
2024-08-14 13:30:54,209 - JUNIFER - INFO -      resolution: 2.0
2024-08-14 13:30:54,210 - JUNIFER - INFO -      n_rois: 1000
2024-08-14 13:30:54,210 - JUNIFER - INFO -      yeo_networks: 7
2024-08-14 13:30:54,211 - JUNIFER - INFO - Loading parcellation /home/runner/junifer/data/parcellations/schaefer_2018/Schaefer2018_1000Parcels_7Networks_order_FSLMNI152_2mm.nii.gz
2024-08-14 13:30:54,244 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5
2024-08-14 13:30:55,263 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-08-14 13:30:55,362 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/tmpp3v3ecmt/parcellationse_htfioe/Schaefer1000x7.nii.gz -r /tmp/tmpp3v3ecmt/parcellationse_htfioe/MNI152Lin_T1w_2.0.nii.gz -t /home/runner/junifer/data/xfms/MNI152NLin6Asym_to_MNI152Lin/MNI152NLin6Asym_to_MNI152Lin_Composite.h5 -o /tmp/tmpv456n9nv/parcellations_1pspkmf/Schaefer1000x7_warped_from_MNI152NLin6Asym_to_MNI152Lin.nii.gz
2024-08-14 13:31:02,715 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:

2024-08-14 13:31:03,870 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmptajsek_y/test.sqlite (multiple output)>
2024-08-14 13:31:04,027 - 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,
    )