Note
Go to the end to download the full example code.
8.7. Run junifer and julearn.¶
This example uses a ParcelAggregation marker to compute the mean of each parcel using the Schaefer parcellation (100 rois, 7 Yeo networks) for a 3D nifti to extract some features for machine learning using julearn to predict some other data.
Authors: Leonard Sasse, Sami Hamdan, Nicolas Nieto, Synchon Mandal
License: BSD 3 clause
import tempfile
import nilearn
import pandas as pd
from julearn import run_cross_validation, PipelineCreator
import junifer.testing.registry # noqa: F401
from junifer.api import collect, run
from junifer.storage.sqlite import SQLiteFeatureStorage
from junifer.utils import configure_logging
Set the logging level to info to see extra information:
configure_logging(level="INFO")
/__w/junifer/junifer/junifer/utils/logging.py:139: UserWarning: The '__version__' attribute is deprecated and will be removed in MarkupSafe 3.1. Use feature detection, or `importlib.metadata.version("markupsafe")`, instead.
vstring = str(getattr(module, "__version__", None))
2024-11-13 15:31:15,564 - JUNIFER - INFO - ===== Lib Versions =====
2024-11-13 15:31:15,564 - JUNIFER - INFO - numpy: 1.26.4
2024-11-13 15:31:15,564 - JUNIFER - INFO - scipy: 1.14.1
2024-11-13 15:31:15,564 - JUNIFER - INFO - pandas: 2.1.4
2024-11-13 15:31:15,564 - JUNIFER - INFO - nilearn: 0.10.4
2024-11-13 15:31:15,564 - JUNIFER - INFO - nibabel: 5.3.2
2024-11-13 15:31:15,564 - JUNIFER - INFO - junifer: 0.0.6.dev252
2024-11-13 15:31:15,564 - JUNIFER - INFO - ========================
Define the markers you want:
marker_dicts = [
{
"name": "Schaefer100x17_TrimMean80",
"kind": "ParcelAggregation",
"parcellation": "Schaefer100x17",
"method": "trim_mean",
"method_params": {"proportiontocut": 0.2},
},
{
"name": "Schaefer200x17_Mean",
"kind": "ParcelAggregation",
"parcellation": "Schaefer200x17",
"method": "mean",
},
]
Define target and confounds for julearn machine learning:
Load the VBM phenotype data for machine learning data: - Fetch the Oasis dataset
oasis_dataset = nilearn.datasets.fetch_oasis_vbm()
age = oasis_dataset.ext_vars[y][:10]
sex = (
pd.Series(oasis_dataset.ext_vars["mf"][:10])
.map(lambda x: 1 if x == "F" else 0)
.values
)
Create a temporary directory for junifer feature extraction:
with tempfile.TemporaryDirectory() as tmpdir:
storage = {"kind": "SQLiteFeatureStorage", "uri": f"{tmpdir}/test.sqlite"}
# run the defined junifer feature extraction pipeline
run(
workdir="/tmp",
datagrabber={"kind": "OasisVBMTestingDataGrabber"},
markers=marker_dicts,
storage=storage,
)
# read in extracted features and add confounds and targets
# for julearn run cross validation
collect(storage)
db = SQLiteFeatureStorage(uri=storage["uri"])
df_vbm = db.read_df(feature_name="VBM_GM_Schaefer200x17_Mean_aggregation")
oasis_subjects = [x[0] for x in df_vbm.index]
df_vbm.index = oasis_subjects
2024-11-13 15:31:15,582 - JUNIFER - INFO - Validating Marker Collection
2024-11-13 15:31:15,582 - JUNIFER - INFO - DataGrabber output type: ['VBM_GM']
2024-11-13 15:31:15,582 - JUNIFER - INFO - Validating Data Reader:
2024-11-13 15:31:15,583 - JUNIFER - INFO - Data Reader output type: ['VBM_GM']
2024-11-13 15:31:15,583 - JUNIFER - INFO - Validating Marker: Schaefer100x17_TrimMean80
2024-11-13 15:31:15,583 - JUNIFER - INFO - Marker output type: ['vector']
2024-11-13 15:31:15,583 - JUNIFER - INFO - Validating storage for Schaefer100x17_TrimMean80
2024-11-13 15:31:15,583 - JUNIFER - INFO - Validating Marker: Schaefer200x17_Mean
2024-11-13 15:31:15,583 - JUNIFER - INFO - Marker output type: ['vector']
2024-11-13 15:31:15,583 - JUNIFER - INFO - Validating storage for Schaefer200x17_Mean
2024-11-13 15:31:15,587 - JUNIFER - INFO - Getting element sub-01
2024-11-13 15:31:15,588 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:31:15,588 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0001_MR1/mwrc1OAS1_0001_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:31:15,588 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:31:15,589 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:31:15,589 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:15,589 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:15,589 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:15,589 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:15,589 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:31:15,589 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:15,591 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:15,644 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:16,815 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:16,896 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp0j5a7eh4/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_5235eabc-a1d4-11ef-a09a-0242ac1200020en22kiv/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp0j5a7eh4/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_5235eabc-a1d4-11ef-a09a-0242ac1200020en22kiv/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp0j5a7eh4/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_5235eabc-a1d4-11ef-a09a-0242ac1200020en22kiv/parcellation_warped.nii.gz
2024-11-13 15:31:18,690 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:19,897 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:19,932 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:31:19,932 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:19,933 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:19,933 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:19,933 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:19,933 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:31:19,933 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:19,934 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:19,989 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:21,184 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:21,265 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp0j5a7eh4/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_54cce4c4-a1d4-11ef-a09a-0242ac120002cndktyek/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp0j5a7eh4/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_54cce4c4-a1d4-11ef-a09a-0242ac120002cndktyek/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp0j5a7eh4/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_54cce4c4-a1d4-11ef-a09a-0242ac120002cndktyek/parcellation_warped.nii.gz
2024-11-13 15:31:24,015 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:25,237 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:25,291 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:31:25,292 - JUNIFER - INFO - Getting element sub-02
2024-11-13 15:31:25,292 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:31:25,292 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0002_MR1/mwrc1OAS1_0002_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:31:25,292 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:31:25,293 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:31:25,293 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:25,294 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:25,294 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:25,294 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:25,294 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:31:25,294 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:25,295 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:25,349 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:26,512 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:26,592 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp27_5e0ym/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_57fecc02-a1d4-11ef-a09a-0242ac1200022rugb9zf/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp27_5e0ym/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_57fecc02-a1d4-11ef-a09a-0242ac1200022rugb9zf/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp27_5e0ym/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_57fecc02-a1d4-11ef-a09a-0242ac1200022rugb9zf/parcellation_warped.nii.gz
2024-11-13 15:31:28,390 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:29,629 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:29,665 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:31:29,665 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:29,665 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:29,665 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:29,666 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:29,666 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:31:29,666 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:29,667 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:29,722 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:30,920 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:31,002 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp27_5e0ym/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_5a9a0bc0-a1d4-11ef-a09a-0242ac120002aaen0kk7/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp27_5e0ym/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_5a9a0bc0-a1d4-11ef-a09a-0242ac120002aaen0kk7/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp27_5e0ym/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_5a9a0bc0-a1d4-11ef-a09a-0242ac120002aaen0kk7/parcellation_warped.nii.gz
2024-11-13 15:31:33,782 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:34,887 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:34,941 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:31:34,942 - JUNIFER - INFO - Getting element sub-03
2024-11-13 15:31:34,943 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:31:34,943 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0003_MR1/mwrc1OAS1_0003_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:31:34,943 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:31:34,944 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:31:34,944 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:34,944 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:34,944 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:34,944 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:34,944 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:31:34,944 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:34,946 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:35,000 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:36,129 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:36,209 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp0adwauyj/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_5dbf594a-a1d4-11ef-a09a-0242ac120002h6kz_lfi/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp0adwauyj/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_5dbf594a-a1d4-11ef-a09a-0242ac120002h6kz_lfi/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp0adwauyj/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_5dbf594a-a1d4-11ef-a09a-0242ac120002h6kz_lfi/parcellation_warped.nii.gz
2024-11-13 15:31:37,998 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:39,069 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:39,120 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:31:39,120 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:39,120 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:39,121 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:39,121 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:39,121 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:31:39,121 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:39,122 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:39,176 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:40,335 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:40,415 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp0adwauyj/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_603ca024-a1d4-11ef-a09a-0242ac120002kdvqilu3/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp0adwauyj/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_603ca024-a1d4-11ef-a09a-0242ac120002kdvqilu3/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp0adwauyj/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_603ca024-a1d4-11ef-a09a-0242ac120002kdvqilu3/parcellation_warped.nii.gz
2024-11-13 15:31:43,161 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:44,293 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:44,345 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:31:44,346 - JUNIFER - INFO - Getting element sub-04
2024-11-13 15:31:44,346 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:31:44,346 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0004_MR1/mwrc1OAS1_0004_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:31:44,347 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:31:44,347 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:31:44,348 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:44,348 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:44,348 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:44,348 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:44,348 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:31:44,348 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:44,349 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:44,403 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:45,533 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:45,613 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpvioliha5/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_635a26aa-a1d4-11ef-a09a-0242ac120002ohvw1nvd/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpvioliha5/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_635a26aa-a1d4-11ef-a09a-0242ac120002ohvw1nvd/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpvioliha5/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_635a26aa-a1d4-11ef-a09a-0242ac120002ohvw1nvd/parcellation_warped.nii.gz
2024-11-13 15:31:47,398 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:48,520 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:48,555 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:31:48,555 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:48,555 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:48,556 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:48,556 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:48,556 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:31:48,556 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:48,557 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:48,611 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:49,767 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:49,847 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpvioliha5/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_65dc5128-a1d4-11ef-a09a-0242ac12000210_42_d5/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpvioliha5/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_65dc5128-a1d4-11ef-a09a-0242ac12000210_42_d5/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpvioliha5/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_65dc5128-a1d4-11ef-a09a-0242ac12000210_42_d5/parcellation_warped.nii.gz
2024-11-13 15:31:52,602 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:53,786 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:53,840 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:31:53,842 - JUNIFER - INFO - Getting element sub-05
2024-11-13 15:31:53,842 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:31:53,842 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0005_MR1/mwrc1OAS1_0005_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:31:53,842 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:31:53,843 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:31:53,843 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:53,843 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:53,843 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:53,843 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:53,843 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:31:53,843 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:53,845 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:53,899 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:55,073 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:55,153 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmps8s48eas/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_69031f4e-a1d4-11ef-a09a-0242ac120002pwwqgezk/prewarp_parcellation.nii.gz -r /tmp/junifer/tmps8s48eas/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_69031f4e-a1d4-11ef-a09a-0242ac120002pwwqgezk/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmps8s48eas/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_69031f4e-a1d4-11ef-a09a-0242ac120002pwwqgezk/parcellation_warped.nii.gz
2024-11-13 15:31:56,950 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:31:58,197 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:31:58,235 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:31:58,236 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:31:58,236 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:31:58,236 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:31:58,236 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:31:58,236 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:31:58,236 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:31:58,238 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:31:58,293 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:31:59,491 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:31:59,572 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmps8s48eas/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_6ba1973a-a1d4-11ef-a09a-0242ac120002jf502sgx/prewarp_parcellation.nii.gz -r /tmp/junifer/tmps8s48eas/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_6ba1973a-a1d4-11ef-a09a-0242ac120002jf502sgx/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmps8s48eas/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_6ba1973a-a1d4-11ef-a09a-0242ac120002jf502sgx/parcellation_warped.nii.gz
2024-11-13 15:32:02,351 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:03,436 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:03,489 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:32:03,490 - JUNIFER - INFO - Getting element sub-06
2024-11-13 15:32:03,490 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:32:03,490 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0006_MR1/mwrc1OAS1_0006_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:32:03,491 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:32:03,491 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:32:03,492 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:03,492 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:03,492 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:03,492 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:03,492 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:32:03,492 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:03,493 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:03,548 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:04,686 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:04,766 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpmotap310/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_6ec3607e-a1d4-11ef-a09a-0242ac120002_6iidhsd/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpmotap310/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_6ec3607e-a1d4-11ef-a09a-0242ac120002_6iidhsd/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpmotap310/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_6ec3607e-a1d4-11ef-a09a-0242ac120002_6iidhsd/parcellation_warped.nii.gz
2024-11-13 15:32:06,553 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:07,617 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:07,652 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:32:07,652 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:07,652 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:07,652 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:07,652 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:07,652 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:32:07,652 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:07,654 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:07,708 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:08,837 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:08,917 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpmotap310/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_713e3f40-a1d4-11ef-a09a-0242ac120002eyfpxd7e/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpmotap310/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_713e3f40-a1d4-11ef-a09a-0242ac120002eyfpxd7e/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpmotap310/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_713e3f40-a1d4-11ef-a09a-0242ac120002eyfpxd7e/parcellation_warped.nii.gz
2024-11-13 15:32:11,690 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:12,823 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:12,875 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:32:12,876 - JUNIFER - INFO - Getting element sub-07
2024-11-13 15:32:12,877 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:32:12,877 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0007_MR1/mwrc1OAS1_0007_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:32:12,877 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:32:12,878 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:32:12,878 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:12,878 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:12,878 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:12,878 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:12,878 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:32:12,878 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:12,880 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:12,933 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:14,062 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:14,141 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpg7nqayad/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_745b8250-a1d4-11ef-a09a-0242ac12000225qmayc8/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpg7nqayad/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_745b8250-a1d4-11ef-a09a-0242ac12000225qmayc8/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpg7nqayad/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_745b8250-a1d4-11ef-a09a-0242ac12000225qmayc8/parcellation_warped.nii.gz
2024-11-13 15:32:15,920 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:16,966 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:17,001 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:32:17,001 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:17,001 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:17,001 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:17,001 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:17,001 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:32:17,001 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:17,003 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:17,056 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:18,196 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:18,276 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpg7nqayad/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_76d0b32a-a1d4-11ef-a09a-0242ac120002ied82mez/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpg7nqayad/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_76d0b32a-a1d4-11ef-a09a-0242ac120002ied82mez/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpg7nqayad/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_76d0b32a-a1d4-11ef-a09a-0242ac120002ied82mez/parcellation_warped.nii.gz
2024-11-13 15:32:21,022 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:22,186 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:22,241 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:32:22,242 - JUNIFER - INFO - Getting element sub-08
2024-11-13 15:32:22,242 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:32:22,242 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0009_MR1/mwrc1OAS1_0009_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:32:22,242 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:32:22,243 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:32:22,244 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:22,244 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:22,244 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:22,244 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:22,244 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:32:22,244 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:22,245 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:22,300 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:23,467 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:23,547 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp6pa073bb/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_79f0abb4-a1d4-11ef-a09a-0242ac1200021fh07r9w/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp6pa073bb/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_79f0abb4-a1d4-11ef-a09a-0242ac1200021fh07r9w/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp6pa073bb/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_79f0abb4-a1d4-11ef-a09a-0242ac1200021fh07r9w/parcellation_warped.nii.gz
2024-11-13 15:32:25,325 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:26,380 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:26,414 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:32:26,414 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:26,414 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:26,415 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:26,415 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:26,415 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:32:26,415 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:26,416 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:26,469 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:27,603 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:27,682 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp6pa073bb/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_7c6d1666-a1d4-11ef-a09a-0242ac120002rurfzbc6/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp6pa073bb/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_7c6d1666-a1d4-11ef-a09a-0242ac120002rurfzbc6/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp6pa073bb/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_7c6d1666-a1d4-11ef-a09a-0242ac120002rurfzbc6/parcellation_warped.nii.gz
2024-11-13 15:32:30,450 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:31,529 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:31,582 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:32:31,584 - JUNIFER - INFO - Getting element sub-09
2024-11-13 15:32:31,584 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:32:31,584 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0010_MR1/mwrc1OAS1_0010_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:32:31,584 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:32:31,585 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:32:31,585 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:31,585 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:31,585 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:31,585 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:31,585 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:32:31,585 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:31,587 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:31,640 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:32,760 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:32,839 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp8jzn4yj_/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_7f81fcb8-a1d4-11ef-a09a-0242ac120002k61_h9yx/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp8jzn4yj_/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_7f81fcb8-a1d4-11ef-a09a-0242ac120002k61_h9yx/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp8jzn4yj_/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_7f81fcb8-a1d4-11ef-a09a-0242ac120002k61_h9yx/parcellation_warped.nii.gz
2024-11-13 15:32:34,615 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:35,700 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:35,735 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:32:35,735 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:35,735 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:35,735 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:35,735 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:35,735 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:32:35,735 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:35,737 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:35,791 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:36,959 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:37,039 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmp8jzn4yj_/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_81fb64ac-a1d4-11ef-a09a-0242ac120002wtb8hb46/prewarp_parcellation.nii.gz -r /tmp/junifer/tmp8jzn4yj_/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_81fb64ac-a1d4-11ef-a09a-0242ac120002wtb8hb46/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmp8jzn4yj_/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_81fb64ac-a1d4-11ef-a09a-0242ac120002wtb8hb46/parcellation_warped.nii.gz
2024-11-13 15:32:39,809 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:40,939 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:40,994 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:32:40,995 - JUNIFER - INFO - Getting element sub-10
2024-11-13 15:32:40,995 - JUNIFER - INFO - Fitting pipeline
2024-11-13 15:32:40,995 - JUNIFER - INFO - Reading VBM_GM from /github/home/nilearn_data/oasis1/OAS1_0011_MR1/mwrc1OAS1_0011_MR1_mpr_anon_fslswapdim_bet.nii.gz
2024-11-13 15:32:40,995 - JUNIFER - INFO - VBM_GM is of type NIFTI
2024-11-13 15:32:40,996 - JUNIFER - INFO - Fitting marker Schaefer100x17_TrimMean80
2024-11-13 15:32:40,996 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:40,997 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:40,997 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:40,997 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:40,997 - JUNIFER - INFO - n_rois: 100
2024-11-13 15:32:40,997 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:40,998 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_100Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:41,052 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:42,217 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:42,297 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpn8hp7dkq/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_851e190e-a1d4-11ef-a09a-0242ac120002ul2s4_tf/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpn8hp7dkq/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_851e190e-a1d4-11ef-a09a-0242ac120002ul2s4_tf/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpn8hp7dkq/ants_parcellation_warper_Schaefer100x17_from_MNI152NLin6Asym_to_MNI152Lin_851e190e-a1d4-11ef-a09a-0242ac120002ul2s4_tf/parcellation_warped.nii.gz
2024-11-13 15:32:44,087 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:45,259 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:45,294 - JUNIFER - INFO - Fitting marker Schaefer200x17_Mean
2024-11-13 15:32:45,294 - JUNIFER - INFO - Computing VBM_GM
2024-11-13 15:32:45,294 - JUNIFER - INFO - Fetching one of Schaefer parcellations.
2024-11-13 15:32:45,294 - JUNIFER - INFO - Parcellation parameters:
2024-11-13 15:32:45,294 - JUNIFER - INFO - resolution: 2.0
2024-11-13 15:32:45,294 - JUNIFER - INFO - n_rois: 200
2024-11-13 15:32:45,294 - JUNIFER - INFO - yeo_networks: 17
2024-11-13 15:32:45,296 - JUNIFER - INFO - Loading parcellation: /github/home/junifer/data/parcellations/schaefer_2018/Schaefer2018_200Parcels_17Networks_order_FSLMNI152_2mm.nii.gz
2024-11-13 15:32:45,351 - JUNIFER - INFO - Found existing xfm file for MNI152NLin6Asym to MNI152Lin at /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5
2024-11-13 15:32:46,497 - JUNIFER - INFO - Downloading template MNI152Lin in resolution 2
2024-11-13 15:32:46,577 - JUNIFER - INFO - antsApplyTransforms command to be executed:
antsApplyTransforms -d 3 -e 3 -n 'GenericLabel[NearestNeighbor]' -i /tmp/junifer/tmpn8hp7dkq/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_87ae00b2-a1d4-11ef-a09a-0242ac120002xhrp6qcp/prewarp_parcellation.nii.gz -r /tmp/junifer/tmpn8hp7dkq/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_87ae00b2-a1d4-11ef-a09a-0242ac120002xhrp6qcp/MNI152Lin_T1w.nii.gz -t /github/home/junifer/data/xfms/.git/annex/objects/80/1W/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5/SHA256E-s151956315--b80fd5f087580ecbbb212d1ece24c12f1ce448ca4912c1ea739eb8e84b6f418a.h5 -o /tmp/junifer/tmpn8hp7dkq/ants_parcellation_warper_Schaefer200x17_from_MNI152NLin6Asym_to_MNI152Lin_87ae00b2-a1d4-11ef-a09a-0242ac120002xhrp6qcp/parcellation_warped.nii.gz
2024-11-13 15:32:49,347 - JUNIFER - INFO - antsApplyTransforms command succeeded with the following output:
2024-11-13 15:32:50,485 - JUNIFER - INFO - Storing in <SQLiteFeatureStorage @ /tmp/tmp9cbx9hfe/test.sqlite (multiple output)>
2024-11-13 15:32:50,539 - JUNIFER - INFO - Marker collection fitting done
2024-11-13 15:32:50,540 - JUNIFER - INFO - Collecting data using SQLiteFeatureStorage
2024-11-13 15:32:50,540 - JUNIFER - INFO - Collecting data from /tmp/tmp9cbx9hfe/*test.sqlite
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2024-11-13 15:32:52,275 - JUNIFER - INFO - Collect done
Using julearn for machine learning: We predict the age given our vbm features and sex as a confound.
X = list(df_vbm.columns)
df_vbm[y] = age
df_vbm[confound] = sex
X_types = {
"features": X,
"confound": confound,
}
creator = PipelineCreator(problem_type="regression", apply_to="features")
creator.add("zscore", apply_to=["features", "confound"])
creator.add("confound_removal", apply_to="features", confounds="confound")
creator.add("ridge")
scores = run_cross_validation(
X=X + [confound],
y=y,
X_types=X_types,
data=df_vbm,
model=creator,
cv=3,
)
print(scores)
fit_time score_time ... fold cv_mdsum
0 0.142786 0.020095 ... 0 509497eb21da473048117e0c6704d3ea
1 0.140260 0.020139 ... 1 509497eb21da473048117e0c6704d3ea
2 0.139840 0.020076 ... 2 509497eb21da473048117e0c6704d3ea
[3 rows x 8 columns]
Interpretation of results: Doing machine learning with only 10 datapoints is not meaningful. This explains the big variation in scores for different cross-validation folds.
Total running time of the script: (1 minutes 37.383 seconds)