293 lines
38 KiB
(Stored with Git Annex)
Text
293 lines
38 KiB
(Stored with Git Annex)
Text
+ dssource=ria+file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore#aae8905a-985f-46fb-91f5-35c772654ddd
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+ pushgitremote=file:///data/project/QC_workflow/TMP/RIA_QCworkflow/aae/8905a-985f-46fb-91f5-35c772654ddd
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+ subid=sub-cIIs01
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+ export 'DUCT_OUTPUT_PREFIX=logs/duct/sub-cIIs01_{datetime_filesafe}-{pid}_'
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+ DUCT_OUTPUT_PREFIX='logs/duct/sub-cIIs01_{datetime_filesafe}-{pid}_'
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+ datalad clone ria+file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore#aae8905a-985f-46fb-91f5-35c772654ddd ds
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[INFO] Attempting a clone into /var/lib/condor/execute/dir_2879629/ds
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[INFO] Attempting to clone from file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore/aae/8905a-985f-46fb-91f5-35c772654ddd to /var/lib/condor/execute/dir_2879629/ds
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[INFO] Completed clone attempts for Dataset(/var/lib/condor/execute/dir_2879629/ds)
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+ cd ds
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+ git remote add outputstore file:///data/project/QC_workflow/TMP/RIA_QCworkflow/aae/8905a-985f-46fb-91f5-35c772654ddd
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+ git checkout -b job_sub-cIIs01_10066410
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Switched to a new branch 'job_sub-cIIs01_10066410'
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+ datalad get -n sourcedata/raw/
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[INFO] Attempting a clone into /var/lib/condor/execute/dir_2879629/ds/sourcedata/raw
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[INFO] Attempting to clone from file:///data/project/QC_workflow/TMP/RIA_QCworkflow/inputstore/9e5/e9b46-fb3d-48cf-b766-89923247370d to /var/lib/condor/execute/dir_2879629/ds/sourcedata/raw
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[INFO] Attempting to clone from https://github.com/OpenNeuroDatasets/ds003416.git to /var/lib/condor/execute/dir_2879629/ds/sourcedata/raw
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[INFO] Start enumerating objects
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[INFO] Start counting objects
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[INFO] Start compressing objects
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[INFO] Start receiving objects
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[INFO] Start resolving deltas
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[INFO] Completed clone attempts for Dataset(/var/lib/condor/execute/dir_2879629/ds/sourcedata/raw)
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[INFO] Remote origin not usable by git-annex; setting annex-ignore
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[INFO] https://github.com/OpenNeuroDatasets/ds003416.git/config download failed: Not Found
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[INFO] access to 1 dataset sibling s3-PRIVATE not auto-enabled, enable with:
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| datalad siblings -d "/var/lib/condor/execute/dir_2879629/ds/sourcedata/raw" enable -s s3-PRIVATE
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+ datalad containers-run -m 'Compute MRIQC for sub-cIIs01' -n bids-mriqc -i sourcedata/raw/sub-cIIs01 -i sourcedata/raw/dataset_description.json mriqc sourcedata/raw . participant --participant-label sub-cIIs01 --no-datalad-get --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports
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[INFO] Making sure inputs are available (this may take some time)
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[INFO] Attempting a clone into /var/lib/condor/execute/dir_2879629/ds/code/containers
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[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_2879629/ds/code/containers
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[INFO] Attempting to clone from https://github.com/ReproNim/containers.git to /var/lib/condor/execute/dir_2879629/ds/code/containers
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[INFO] Start enumerating objects
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[INFO] Start counting objects
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[INFO] Start compressing objects
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[INFO] Start receiving objects
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[INFO] Start resolving deltas
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[INFO] Completed clone attempts for Dataset(/var/lib/condor/execute/dir_2879629/ds/code/containers)
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[INFO] Remote origin not usable by git-annex; setting annex-ignore
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[INFO] https://github.com/ReproNim/containers.git/config download failed: Not Found
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[INFO] == Command start (output follows) =====
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2025-10-09T23:58:20+0200 [INFO ] con-duct: duct 0.16.0 is executing 'singularity exec -W /tmp/singtmp.5k31PF -B /var/lib/condor/execute/dir_2879629/ds/code/containers/binds/zoneinfo/UTC:/etc/localtime -B /tmp/singtmp.5k31PF/tmp:/tmp -B /tmp/singtmp.5k31PF/var/tmp:/var/tmp -e -B /var/lib/condor/execute/dir_2879629/ds -H /var/lib/condor/execute/dir_2879629/ds/code/containers/binds/HOME --pwd /var/lib/condor/execute/dir_2879629/ds code/containers/images/bids/bids-mriqc--24.0.2.sing mriqc sourcedata/raw . participant --participant-label sub-cIIs01 --no-datalad-get --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports'...
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2025-10-09T23:58:20+0200 [INFO ] con-duct: Log files will be written to logs/duct/sub-cIIs01_2025.10.09T23.58.20-2886255_
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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Fontconfig error: No writable cache directories
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: divide by zero encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/dipy/denoise/noise_estimate.py:252: RuntimeWarning: invalid value encountered in divide
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s = sum_m2 / (2 * K * sigma**2)
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/opt/conda/lib/python3.11/site-packages/nireports/reportlets/mosaic.py:565: RuntimeWarning: More than 20 figures have been opened. Figures created through the pyplot interface (`matplotlib.pyplot.figure`) are retained until explicitly closed and may consume too much memory. (To control this warning, see the rcParam `figure.max_open_warning`). Consider using `matplotlib.pyplot.close()`.
|
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fig = plt.figure(layout=None)
|
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/opt/conda/lib/python3.11/site-packages/nireports/reportlets/mosaic.py:565: RuntimeWarning: More than 20 figures have been opened. Figures created through the pyplot interface (`matplotlib.pyplot.figure`) are retained until explicitly closed and may consume too much memory. (To control this warning, see the rcParam `figure.max_open_warning`). Consider using `matplotlib.pyplot.close()`.
|
|
fig = plt.figure(layout=None)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:114: RuntimeWarning: More than 20 figures have been opened. Figures created through the pyplot interface (`matplotlib.pyplot.figure`) are retained until explicitly closed and may consume too much memory. (To control this warning, see the rcParam `figure.max_open_warning`). Consider using `matplotlib.pyplot.close()`.
|
|
fig, axs = plt.subplots(
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:162: RuntimeWarning: divide by zero encountered in scalar divide
|
|
max_snr = imax / sigma
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:164: RuntimeWarning: invalid value encountered in divide
|
|
labels_bins_position = bins[0] * np.array(labels_bins) / max_snr
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:162: RuntimeWarning: divide by zero encountered in scalar divide
|
|
max_snr = imax / sigma
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:164: RuntimeWarning: invalid value encountered in divide
|
|
labels_bins_position = bins[0] * np.array(labels_bins) / max_snr
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:162: RuntimeWarning: divide by zero encountered in scalar divide
|
|
max_snr = imax / sigma
|
|
/opt/conda/lib/python3.11/site-packages/nireports/reportlets/modality/dwi.py:164: RuntimeWarning: invalid value encountered in divide
|
|
labels_bins_position = bins[0] * np.array(labels_bins) / max_snr
|
|
/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(
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/interfaces/anatomical.py:490: RuntimeWarning: divide by zero encountered in divide
|
|
bg_data[bg_data > 0] = bg_data[bg_data > 0] / bg_spread
|
|
/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(
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/interfaces/anatomical.py:490: RuntimeWarning: divide by zero encountered in divide
|
|
bg_data[bg_data > 0] = bg_data[bg_data > 0] / bg_spread
|
|
/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(
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/interfaces/anatomical.py:490: RuntimeWarning: divide by zero encountered in divide
|
|
bg_data[bg_data > 0] = bg_data[bg_data > 0] / bg_spread
|
|
/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(
|
|
/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(
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/interfaces/anatomical.py:490: RuntimeWarning: divide by zero encountered in divide
|
|
bg_data[bg_data > 0] = bg_data[bg_data > 0] / bg_spread
|
|
/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(
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: invalid value encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: invalid value encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: invalid value encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: invalid value encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: divide by zero encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:234: RuntimeWarning: divide by zero encountered in scalar divide
|
|
cc_snr_estimates['shell0'] = round(float(in_b0[cc_mask].mean() / std_signal), decimals)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:257: RuntimeWarning: invalid value encountered in scalar divide
|
|
float(np.mean(mean_signal_worst / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:260: RuntimeWarning: invalid value encountered in scalar divide
|
|
float(np.mean(mean_signal_best / std_signal)), decimals
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
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ptp = 0.5 * (vmax - vmin)
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/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
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mask_nii = threshold_img(fixed_image_nii, 1e-3)
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/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
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ptp = 0.5 * (vmax - vmin)
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/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
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mask_nii = threshold_img(fixed_image_nii, 1e-3)
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/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
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ptp = 0.5 * (vmax - vmin)
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/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
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mask_nii = threshold_img(fixed_image_nii, 1e-3)
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/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
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mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/img_plotting.py:557: RuntimeWarning: overflow encountered in scalar subtract
|
|
ptp = 0.5 * (vmax - vmin)
|
|
/opt/conda/lib/python3.11/site-packages/nireports/interfaces/reporting/base.py:105: UserWarning: The given float value must not exceed 0. But, you have given threshold=0.001.
|
|
mask_nii = threshold_img(fixed_image_nii, 1e-3)
|
|
/opt/conda/lib/python3.11/site-packages/mriqc/qc/diffusion.py:220: ExtremeValueWarning: CC mask is too small (0 voxels)
|
|
warn(f'CC mask is too small ({nvox_cc} voxels)', ExtremeValueWarning, stacklevel=1)
|
|
2025-10-10T08:27:05+0200 [INFO ] con-duct: Summary:
|
|
Exit Code: 0
|
|
Command: singularity exec -W /tmp/singtmp.5k31PF -B /var/lib/condor/execute/dir_2879629/ds/code/containers/binds/zoneinfo/UTC:/etc/localtime -B /tmp/singtmp.5k31PF/tmp:/tmp -B /tmp/singtmp.5k31PF/var/tmp:/var/tmp -e -B /var/lib/condor/execute/dir_2879629/ds -H /var/lib/condor/execute/dir_2879629/ds/code/containers/binds/HOME --pwd /var/lib/condor/execute/dir_2879629/ds code/containers/images/bids/bids-mriqc--24.0.2.sing mriqc sourcedata/raw . participant --participant-label sub-cIIs01 --no-datalad-get --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports
|
|
Log files location: logs/duct/sub-cIIs01_2025.10.09T23.58.20-2886255_
|
|
Wall Clock Time: 30525.104 sec
|
|
Memory Peak Usage (RSS): 10.6 GB
|
|
Memory Average Usage (RSS): 2.1 GB
|
|
Virtual Memory Peak Usage (VSZ): 16.2 GB
|
|
Virtual Memory Average Usage (VSZ): 5.0 GB
|
|
Memory Peak Percentage: 1.80%
|
|
Memory Average Percentage: 0.26%
|
|
CPU Peak Usage: 325.20%
|
|
Average CPU Usage: 90.48%
|
|
|
|
[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_2879629/ds)
|
|
+ flock --verbose /data/project/QC_workflow/TMP/ds003416-mriqc/.condor_datalad_lock git push outputstore
|
|
To file:///data/project/QC_workflow/TMP/RIA_QCworkflow/aae/8905a-985f-46fb-91f5-35c772654ddd
|
|
* [new branch] job_sub-cIIs01_10066410 -> job_sub-cIIs01_10066410
|
|
+ echo SUCCESS
|