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ds005256-mriqc/logs/sub-0123_9220554.err

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+ dssource=ria+file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore#2d58dd48-4166-4dc3-9cd1-64f3d0665a8c
+ pushgitremote=file:///data/project/QC_workflow/TMP/RIA_QCworkflow/2d5/8dd48-4166-4dc3-9cd1-64f3d0665a8c
+ subid=sub-0123
+ export 'DUCT_OUTPUT_PREFIX=logs/duct/sub-0123_{datetime_filesafe}-{pid}_'
+ DUCT_OUTPUT_PREFIX='logs/duct/sub-0123_{datetime_filesafe}-{pid}_'
+ datalad clone ria+file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore#2d58dd48-4166-4dc3-9cd1-64f3d0665a8c ds
[INFO] Attempting a clone into /var/lib/condor/execute/dir_3279197/ds
[INFO] Attempting to clone from file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore/2d5/8dd48-4166-4dc3-9cd1-64f3d0665a8c to /var/lib/condor/execute/dir_3279197/ds
[INFO] Completed clone attempts for Dataset(/var/lib/condor/execute/dir_3279197/ds)
+ cd ds
+ git remote add outputstore file:///data/project/QC_workflow/TMP/RIA_QCworkflow/2d5/8dd48-4166-4dc3-9cd1-64f3d0665a8c
+ git checkout -b job_sub-0123_9220554
Switched to a new branch 'job_sub-0123_9220554'
+ datalad get -n sourcedata/raw/
[INFO] Attempting a clone into /var/lib/condor/execute/dir_3279197/ds/sourcedata/raw
[INFO] Attempting to clone from file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore/2ee/2bfa7-6c1b-4cf6-87e9-297e30f42517 to /var/lib/condor/execute/dir_3279197/ds/sourcedata/raw
[INFO] Attempting to clone from https://github.com/OpenNeuroDatasets/ds005256.git to /var/lib/condor/execute/dir_3279197/ds/sourcedata/raw
[INFO] Start enumerating objects
[INFO] Start receiving objects
[INFO] Start resolving deltas
[INFO] Completed clone attempts for Dataset(/var/lib/condor/execute/dir_3279197/ds/sourcedata/raw)
[INFO] Remote origin not usable by git-annex; setting annex-ignore
[INFO] https://github.com/OpenNeuroDatasets/ds005256.git/config download failed: Not Found
[INFO] access to 1 dataset sibling openneuro not auto-enabled, enable with:
| datalad siblings -d "/var/lib/condor/execute/dir_3279197/ds/sourcedata/raw" enable -s openneuro
+ datalad containers-run -m 'Compute MRIQC for sub-0123' -n bids-mriqc -i sourcedata/raw/sub-0123 -i sourcedata/raw/dataset_description.json mriqc sourcedata/raw . participant --participant-label sub-0123 --no-datalad-get --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports
[INFO] Making sure inputs are available (this may take some time)
[INFO] Attempting a clone into /var/lib/condor/execute/dir_3279197/ds/code/containers
[INFO] Attempting to clone from file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore/b02/e63c2-62c1-11e9-82b0-52540040489c to /var/lib/condor/execute/dir_3279197/ds/code/containers
[INFO] Attempting to clone from https://github.com/ReproNim/containers.git to /var/lib/condor/execute/dir_3279197/ds/code/containers
[INFO] Start enumerating objects
[INFO] Start counting objects
[INFO] Start compressing objects
[INFO] Start receiving objects
[INFO] Start resolving deltas
[INFO] Completed clone attempts for Dataset(/var/lib/condor/execute/dir_3279197/ds/code/containers)
[INFO] Remote origin not usable by git-annex; setting annex-ignore
[INFO] https://github.com/ReproNim/containers.git/config download failed: Not Found
[INFO] == Command start (output follows) =====
2025-09-17T22:57:56+0200 [INFO ] con-duct: duct 0.16.0 is executing 'singularity exec -W /tmp/singtmp.gE0Vxc -B /var/lib/condor/execute/dir_3279197/ds/code/containers/binds/zoneinfo/UTC:/etc/localtime -B /tmp/singtmp.gE0Vxc/tmp:/tmp -B /tmp/singtmp.gE0Vxc/var/tmp:/var/tmp -e -B /var/lib/condor/execute/dir_3279197/ds -H /var/lib/condor/execute/dir_3279197/ds/code/containers/binds/HOME --pwd /var/lib/condor/execute/dir_3279197/ds code/containers/images/bids/bids-mriqc--24.0.2.sing mriqc sourcedata/raw . participant --participant-label sub-0123 --no-datalad-get --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports'...
2025-09-17T22:57:56+0200 [INFO ] con-duct: Log files will be written to logs/duct/sub-0123_2025.09.17T22.57.56-3338661_
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
Fontconfig error: No writable cache directories
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/opt/conda/lib/python3.11/site-packages/nilearn/plotting/displays/_slicers.py:420: UserWarning: empty mask
xmin_, xmax_, ymin_, ymax_, zmin_, zmax_ = get_mask_bounds(
2025-09-18T13:09:54+0200 [INFO ] con-duct: Summary:
Exit Code: 0
Command: singularity exec -W /tmp/singtmp.gE0Vxc -B /var/lib/condor/execute/dir_3279197/ds/code/containers/binds/zoneinfo/UTC:/etc/localtime -B /tmp/singtmp.gE0Vxc/tmp:/tmp -B /tmp/singtmp.gE0Vxc/var/tmp:/var/tmp -e -B /var/lib/condor/execute/dir_3279197/ds -H /var/lib/condor/execute/dir_3279197/ds/code/containers/binds/HOME --pwd /var/lib/condor/execute/dir_3279197/ds code/containers/images/bids/bids-mriqc--24.0.2.sing mriqc sourcedata/raw . participant --participant-label sub-0123 --no-datalad-get --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports
Log files location: logs/duct/sub-0123_2025.09.17T22.57.56-3338661_
Wall Clock Time: 51117.799 sec
Memory Peak Usage (RSS): 11.3 GB
Memory Average Usage (RSS): 2.0 GB
Virtual Memory Peak Usage (VSZ): 16.2 GB
Virtual Memory Average Usage (VSZ): 4.7 GB
Memory Peak Percentage: 2.00%
Memory Average Percentage: 0.24%
CPU Peak Usage: 312.60%
Average CPU Usage: 90.12%
[INFO] == Command exit (modification check follows) =====
+ datalad push --to mriqc_out-storage
[INFO] Determine push target
[INFO] Push refspecs
[INFO] Transfer data
[INFO] Finished push of Dataset(/var/lib/condor/execute/dir_3279197/ds)
+ flock --verbose /data/project/QC_workflow/TMP/ds005256-mriqc/.condor_datalad_lock git push outputstore
To file:///data/project/QC_workflow/TMP/RIA_QCworkflow/2d5/8dd48-4166-4dc3-9cd1-64f3d0665a8c
* [new branch] job_sub-0123_9220554 -> job_sub-0123_9220554
+ echo SUCCESS
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