MRIQC#
#
Author: Monika Doerig
Date: 6 May 2025
Citation and Resources:#
Tools included in this workflow#
MRIQC:
Esteban O, Birman D, Schaer M, Koyejo OO, Poldrack RA, Gorgolewski KJ; MRIQC: Advancing the Automatic Prediction of Image Quality in MRI from Unseen Sites; PLOS ONE 12(9):e0184661; doi:10.1371/journal.pone.0184661
The documentation of this project is found here.
Dataset#
Data from OpenNeuro: Flanker Dataset
Kelly AMC and Uddin LQ and Biswal BB and Castellanos FX and Milham MP (2018). Flanker task (event-related). OpenNeuro Dataset ds000102. [Dataset] doi: null
Kelly AM, Uddin LQ, Biswal BB, Castellanos FX, Milham MP. Competition between functional brain networks mediates behavioral variability. Neuroimage. 2008 Jan 1;39(1):527-37. doi: 10.1016/j.neuroimage.2007.08.008. Epub 2007 Aug 23. PMID: 17919929.
Mennes, M., Kelly, C., Zuo, X.N., Di Martino, A., Biswal, B.B., Castellanos, F.X., Milham, M.P. (2010). Inter-individual differences in resting-state functional connectivity predict task-induced BOLD activity. Neuroimage, 50(4):1690-701. doi: 10.1016/j.neuroimage.2010.01.002. Epub 2010 Jan 15. Erratum in: Neuroimage. 2011 Mar 1;55(1):434
Mennes, M., Zuo, X.N., Kelly, C., Di Martino, A., Zang, Y.F., Biswal, B., Castellanos, F.X., Milham, M.P. (2011). Linking inter-individual differences in neural activation and behavior to intrinsic brain dynamics. Neuroimage, 54(4):2950-9. doi: 10.1016/j.neuroimage.2010.10.046
Load MRIQC#
import module
await module.purge()
await module.load('mriqc/22.0.6')
await module.list()
['mriqc/22.0.6']
!mriqc -h
You are using MRIQC v22.0.6, and a newer version is available: 24.0.2.
usage: mriqc [-h] [--version] [-v] [--species {human,rat}]
[--participant-label PARTICIPANT_LABEL [PARTICIPANT_LABEL ...]]
[--session-id [SESSION_ID ...]] [--run-id [RUN_ID ...]]
[--task-id [TASK_ID ...]] [-m [MODALITIES ...]] [--dsname DSNAME]
[--bids-database-dir PATH] [--nprocs NPROCS]
[--omp-nthreads OMP_NTHREADS] [--mem MEMORY_GB] [--testing] [-f]
[--pdb] [-w WORK_DIR] [--verbose-reports] [--write-graph]
[--dry-run] [--resource-monitor] [--use-plugin USE_PLUGIN]
[--no-sub] [--email EMAIL] [--webapi-url WEBAPI_URL]
[--webapi-port WEBAPI_PORT] [--upload-strict] [--ants-float]
[--ants-settings ANTS_SETTINGS] [--ica] [--fft-spikes-detector]
[--fd_thres FD_THRES] [--deoblique] [--despike]
[--start-idx START_IDX] [--stop-idx STOP_IDX]
bids_dir output_dir {participant,group} [{participant,group} ...]
MRIQC 22.0.6 Automated Quality Control and visual reports for Quality
Assesment of structural (T1w, T2w) and functional MRI of the brain. IMPORTANT:
Anonymized quality metrics (IQMs) will be submitted to MRIQC's metrics
repository. Submission of IQMs can be disabled using the ``--no-sub``
argument. Please visit https://mriqc.readthedocs.io/en/latest/dsa.html to
revise MRIQC's Data Sharing Agreement.
positional arguments:
bids_dir The root folder of a BIDS valid dataset (sub-XXXXX
folders should be found at the top level in this
folder).
output_dir The directory where the output files should be stored.
If you are running group level analysis this folder
should be prepopulated with the results of the
participant level analysis.
{participant,group} Level of the analysis that will be performed. Multiple
participant level analyses can be run independently
(in parallel) using the same output_dir.
optional arguments:
-h, --help show this help message and exit
--version show program's version number and exit
-v, --verbose Increases log verbosity for each occurrence, debug
level is -vvv. (default: 0)
--species {human,rat}
Use appropriate template for population (default:
human)
Options for filtering BIDS queries:
--participant-label PARTICIPANT_LABEL [PARTICIPANT_LABEL ...], --participant_label PARTICIPANT_LABEL [PARTICIPANT_LABEL ...], --participant-labels PARTICIPANT_LABEL [PARTICIPANT_LABEL ...], --participant_labels PARTICIPANT_LABEL [PARTICIPANT_LABEL ...]
A space delimited list of participant identifiers or a
single identifier (the sub- prefix can be removed).
(default: None)
--session-id [SESSION_ID ...]
Filter input dataset by session ID. (default: None)
--run-id [RUN_ID ...]
Filter input dataset by run ID (only integer run IDs
are valid). (default: None)
--task-id [TASK_ID ...]
Filter input dataset by task ID. (default: None)
-m [MODALITIES ...], --modalities [MODALITIES ...]
Filter input dataset by MRI type. (default: None)
--dsname DSNAME A dataset name. (default: None)
--bids-database-dir PATH
Path to an existing PyBIDS database folder, for faster
indexing (especially useful for large datasets).
(default: None)
Options to handle performance:
--nprocs NPROCS, --n_procs NPROCS, --n_cpus NPROCS, -n-cpus NPROCS
Maximum number of simultaneously running parallel
processes executed by *MRIQC* (e.g., several instances
of ANTs' registration). However, when ``--nprocs`` is
greater or equal to the ``--omp-nthreads`` option, it
also sets the maximum number of threads that
simultaneously running processes may aggregate
(meaning, with ``--nprocs 16 --omp-nthreads 8`` a
maximum of two 8-CPU-threaded processes will be
running at a given time). Under this mode of
operation, ``--nprocs`` sets the maximum number of
processors that can be assigned work within an *MRIQC*
job, which includes all the processors used by
currently running single- and multi-threaded
processes. If ``None``, the number of CPUs available
will be automatically assigned (which may not be what
you want in, e.g., shared systems like a HPC cluster.
(default: None)
--omp-nthreads OMP_NTHREADS, --ants-nthreads OMP_NTHREADS
Maximum number of threads that multi-threaded
processes executed by *MRIQC* (e.g., ANTs'
registration) can use. If ``None``, the number of CPUs
available will be automatically assigned (which may
not be what you want in, e.g., shared systems like a
HPC cluster. (default: None)
--mem MEMORY_GB, --mem_gb MEMORY_GB, --mem-gb MEMORY_GB
Upper bound memory limit for MRIQC processes.
(default: None)
--testing Use testing settings for a minimal footprint.
(default: False)
-f, --float32 Cast the input data to float32 if it's represented in
higher precision (saves space and improves
perfomance). (default: True)
--pdb Open Python debugger (pdb) on exceptions. (default:
False)
Instrumental options:
-w WORK_DIR, --work-dir WORK_DIR
Path where intermediate results should be stored.
(default:
/home/jovyan/workspace/books/examples/workflows/work)
--verbose-reports
--write-graph Write workflow graph. (default: False)
--dry-run Do not run the workflow. (default: False)
--resource-monitor, --profile
Hook up the resource profiler callback to nipype.
(default: False)
--use-plugin USE_PLUGIN
Nipype plugin configuration file. (default: None)
--no-sub Turn off submission of anonymized quality metrics to
MRIQC's metrics repository. (default: False)
--email EMAIL Email address to include with quality metric
submission. (default: )
--webapi-url WEBAPI_URL
IP address where the MRIQC WebAPI is listening.
(default: None)
--webapi-port WEBAPI_PORT
Port where the MRIQC WebAPI is listening. (default:
None)
--upload-strict Upload will fail if upload is strict. (default: False)
Specific settings for ANTs:
--ants-float Use float number precision on ANTs computations.
(default: False)
--ants-settings ANTS_SETTINGS
Path to JSON file with settings for ANTs. (default:
None)
Functional MRI workflow configuration:
--ica Run ICA on the raw data and include the components in
the individual reports (slow but potentially very
insightful). (default: False)
--fft-spikes-detector
Turn on FFT based spike detector (slow). (default:
False)
--fd_thres FD_THRES Threshold on framewise displacement estimates to
detect outliers. (default: 0.2)
--deoblique Deoblique the functional scans during head motion
correction preprocessing. (default: False)
--despike Despike the functional scans during head motion
correction preprocessing. (default: False)
--start-idx START_IDX
DEPRECATED Initial volume in functional timeseries
that should be considered for preprocessing. (default:
None)
--stop-idx STOP_IDX DEPRECATED Final volume in functional timeseries that
should be considered for preprocessing. (default:
None)
Data preparation#
!datalad install https://github.com/OpenNeuroDatasets/ds000102.git
!cd ds000102 && datalad get sub-01 sub-02 sub-03
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[INFO ] Remote origin not usable by git-annex; setting annex-ignore
[INFO ] https://github.com/OpenNeuroDatasets/ds000102.git/config download failed: Not Found
[INFO ] access to 1 dataset sibling s3-PRIVATE not auto-enabled, enable with:
| datalad siblings -d "/home/jovyan/workspace/books/examples/workflows/ds000102" enable -s s3-PRIVATE
install(ok): /home/jovyan/workspace/books/examples/workflows/ds000102 (dataset)
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Get sub-02/f .. _bold.nii.gz: 34%|█ | 10.0M/29.2M [00:00<00:01, 11.3M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 42%|█▏ | 12.1M/29.2M [00:01<00:01, 11.0M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 46%|█▍ | 13.5M/29.2M [00:01<00:01, 11.5M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 54%|█▌ | 15.7M/29.2M [00:01<00:01, 10.9M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 65%|█▉ | 18.9M/29.2M [00:01<00:00, 11.3M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 69%|██ | 20.2M/29.2M [00:01<00:00, 11.6M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 74%|██▏| 21.5M/29.2M [00:01<00:00, 10.5M Bytes/s]
Get sub-02/f .. _bold.nii.gz: 82%|██▍| 23.8M/29.2M [00:02<00:00, 10.7M Bytes/s]
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get(ok): sub-03/anat/sub-03_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-03/func/sub-03_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-03/func/sub-03_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-01/anat/sub-01_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-01/func/sub-01_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-01/func/sub-01_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-02/anat/sub-02_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-02/func/sub-02_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-02/func/sub-02_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-03 (directory)
get(ok): sub-01 (directory)
get(ok): sub-02 (directory)
action summary:
get (ok: 12)
The following section outlines key MRIQC command-line options used in this analysis. These include required positional arguments for specifying input and output directories, as well as optional flags for performance optimization and report generation. For a complete list of available options, refer to the official documentation.
Positional Arguments#
bids_dir: The root folder of a BIDS valid dataset (sub-XXXXX folders should be found at the top level in this folder).output_dir: The directory where the output files should be stored. If you are running group level analysis this folder should be prepopulated with the results of the participant level analysis.analysis_level: Possible choices: participant, group
Level of the analysis that will be performed. Multiple participant level analyses can be run independently (in parallel) using the same output_dir.
-v, --verbose: Increases log verbosity for each occurrence, debug level is -vvv.
Options to handle performance#
--nprocs, --n_procs, --n_cpus, -n-cpusMaximum number of simultaneously running parallel processes executed by MRIQC (e.g., several instances of ANTs’ registration). However, when –nprocs is greater or equal to the –omp-nthreads option, it also sets the maximum number of threads that simultaneously running processes may aggregate (meaning, with –nprocs 16 –omp-nthreads 8 a maximum of two 8-CPU-threaded processes will be running at a given time). Under this mode of operation, –nprocs sets the maximum number of processors that can be assigned work within an MRIQC job, which includes all the processors used by currently running single- and multi-threaded processes. If None, the number of CPUs available will be automatically assigned (which may not be what you want in, e.g., shared systems like a HPC cluster.--mem, --mem_gb, --mem-gb: Upper bound memory limit for MRIQC processes.
Instrumental options#
-w, --work-dir: Path where intermediate results should be stored.--verbose-reports: Generate verbose HTML reports with additional details--no-sub: Turn off submission of anonymized quality metrics to MRIQC’s metrics repository.
!
Warning:
--no-sub and --notrack may be necessary in environments with limited internet access, where automatic submission of quality metrics to MRIQC's web server and tracking data to NiPreps developers may fail or trigger runtime errors.
Participant-level Analysis#
%%bash
# Exit immediately if a command fails
set -e
# Set the number of threads for ITK (Image Processing Toolkit) to use
export ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS=6
# Set the directory for matplotlib configuration to avoid conflicts
export MPLCONFIGDIR=~/matplotlib-mpldir
# Run MRIQC
mriqc ds000102 \
MRIQC \
participant \
--participant-label sub-01 sub-02 sub-03 \
--no-sub \
--work-dir MRIQC_workdir \
--nprocs 6 \
--mem-gb 10 \
--verbose-reports \
-v
260118-05:45:52,72 cli IMPORTANT:
Running MRIQC version 22.0.6:
* BIDS dataset path: /h
ome/jovyan/workspace/books/examples/workflows/ds000102.
* Output folder: /home/jovyan/workspac
e/books/examples/workflows/MRIQC.
* Analysis levels: ['participant'].
260118-05:45:54,602 nipype.workflow INFO:
Building functional MRIQC workflow for files: /home/jovy
an/workspace/books/examples/workflows/ds000102/sub-01/func/sub-01_task-flanker_run-1_bold.nii.gz, /h
ome/jovyan/workspace/books/examples/workflows/ds000102/sub-01/func/sub-01_task-flanker_run-2_bold.ni
i.gz, /home/jovyan/workspace/books/examples/workflows/ds000102/sub-02/func/sub-02_task-flanker_run-1
_bold.nii.gz, /home/jovyan/workspace/books/examples/workflows/ds000102/sub-02/func/sub-02_task-flank
er_run-2_bold.nii.gz, /home/jovyan/workspace/books/examples/workflows/ds000102/sub-03/func/sub-03_ta
sk-flanker_run-1_bold.nii.gz, /home/jovyan/workspace/books/examples/workflows/ds000102/sub-03/func/s
ub-03_task-flanker_run-2_bold.nii.gz.
260118-05:45:58,586 nipype.workflow INFO:
Building anatomical MRIQC workflow for 3 NIfTI files..
260118-05:46:18,518 nipype.workflow INFO:
Workflow mriqc_wf settings: ['check', 'execution', 'logg
ing', 'monitoring']
260118-05:46:18,982 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-1_bold.nii.gz/metadata".
260118-05:46:18,991 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflows.interfaces.bids
.ReadSidecarJSON>
260118-05:46:19,27 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.datalad_get" in "/h
ome/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jovy
an..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/datalad_get".
260118-05:46:19,34 nipype.workflow INFO:
[Node] Executing "datalad_get" <mriqc.interfaces.datalad.
DataladIdentityInterface>
260118-05:46:19,34 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.datalad_get" in "/h
ome/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jovy
an..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/datalad_get".
260118-05:46:19,38 nipype.workflow INFO:
[Node] Executing "datalad_get" <mriqc.interfaces.datalad.
DataladIdentityInterface>
260118-05:46:19,40 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.datalad_get" in "/h
ome/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jovy
an..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/datalad_get".
260118-05:46:19,43 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.non_steady_state_de
tector" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_fil
e_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker
_run-1_bold.nii.gz/non_steady_state_detector".
260118-05:46:19,44 nipype.workflow INFO:
[Node] Executing "datalad_get" <mriqc.interfaces.datalad.
DataladIdentityInterface>
260118-05:46:19,46 nipype.workflow INFO:
[Node] Executing "non_steady_state_detector" <nipype.algo
rithms.confounds.NonSteadyStateDetector>
260118-05:46:19,417 nipype.workflow INFO:
[Node] Finished "non_steady_state_detector", elapsed tim
e 0.306307s.
260118-05:46:20,733 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 1.67035s.
260118-05:46:20,941 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_ta
sk-flanker_run-1_bold.nii.gz/provenance".
260118-05:46:20,948 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-05:46:21,7 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.056916s.
260118-05:46:21,175 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-2_bold.nii.gz/metadata".
260118-05:46:21,178 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.non_steady_state_d
etector" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_fi
le_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanke
r_run-2_bold.nii.gz/non_steady_state_detector".
260118-05:46:21,179 nipype.workflow INFO:
[Node] Executing "non_steady_state_detector" <nipype.alg
orithms.confounds.NonSteadyStateDetector>
260118-05:46:21,183 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflows.interfaces.bids
.ReadSidecarJSON>
260118-05:46:21,513 nipype.workflow INFO:
[Node] Finished "non_steady_state_detector", elapsed tim
e 0.332306s.
260118-05:46:22,596 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 1.411057s.
260118-05:46:22,816 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_ta
sk-flanker_run-2_bold.nii.gz/provenance".
260118-05:46:22,818 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-05:46:22,877 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.057772s.
260118-05:46:23,174 nipype.workflow INFO:
[Node] Finished "datalad_get", elapsed time 4.030589s.
260118-05:46:23,176 nipype.workflow INFO:
[Node] Finished "datalad_get", elapsed time 4.020459s.
2
60118-05:46:23,176 nipype.workflow INFO:
[Node] Finished "datalad_get", elapsed time 4.066813s.
260118-05:46:23,321 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-1_bold.nii.gz/metadata".
260118-05:46:23,323 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflows.interfaces.bids
.ReadSidecarJSON>
260118-05:46:23,348 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.non_steady_state_d
etector" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_fi
le_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanke
r_run-1_bold.nii.gz/non_steady_state_detector".
260118-05:46:23,350 nipype.workflow INFO:
[Node] Executing "non_steady_state_detector" <nipype.alg
orithms.confounds.NonSteadyStateDetector>
260118-05:46:23,612 nipype.workflow INFO:
[Node] Finished "non_steady_state_detector", elapsed tim
e 0.26069s.
260118-05:46:24,348 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 1.023843s.
260118-05:46:24,543 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_ta
sk-flanker_run-1_bold.nii.gz/provenance".
260118-05:46:24,545 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-05:46:24,606 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.059233s.
260118-05:46:24,795 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-2_bold.nii.gz/metadata".
260118-05:46:24,797 nipype.workflow INFO:
[Node] Setting-up
"mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/workflows/M
RIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..workspace..books..examples..workflows..ds00
0102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/non_steady_state_detector".
260118-05:46:2
4,798 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflows.interfaces.bids.ReadSidecarJS
ON>
260118-05:46:24,801 nipype.workflow INFO:
[Node] Executing "non_steady_state_detector" <nipype.alg
orithms.confounds.NonSteadyStateDetector>
260118-05:46:25,271 nipype.workflow INFO:
[Node] Finished "non_steady_state_detector", elapsed tim
e 0.468858s.
260118-05:46:26,886 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 2.087171s.
260118-05:46:27,91 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.provena
nce" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQM
s/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_tas
k-flanker_run-2_bold.nii.gz/provenance".
260118-05:46:27,94 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.A
ddProvenance>
260118-05:46:27,194 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.09632s.
260118-05:46:27,564 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.non_steady_state_d
etector" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_fi
le_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanke
r_run-1_bold.nii.gz/non_steady_state_detector".
260118-05:46:27,564 nipype.workflow INFO:
[Node] S
etting-up "mriqc_wf.funcMRIQC.ComputeIQMs.metadata" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..examples
..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/metadata".
260118-05:46:27,565 nipype.workflow INFO:
[Node] Executing "non_steady_state_detector" <nipype.alg
orithms.confounds.NonSteadyStateDetector>
260118-05:46:27,566 nipype.workflow INFO:
[Node] Executi
ng "metadata" <niworkflows.interfaces.bids.ReadSidecarJSON>
260118-05:46:27,848 nipype.workflow INFO:
[Node] Finished "non_steady_state_detector", elapsed tim
e 0.281216s.
260118-05:46:28,916 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 1.349513s.
260118-05:46:29,121 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_ta
sk-flanker_run-1_bold.nii.gz/provenance".
260118-05:46:29,124 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-05:46:29,184 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.05913s.
260118-05:46:29,399 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-2_bold.nii.gz/metadata".
260118-05:46:29,401 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.non_steady_state_d
etector" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_fi
le_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanke
r_run-2_bold.nii.gz/non_steady_state_detector".
260118-05:46:29,402 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflows.interfaces.bids
.ReadSidecarJSON>
260118-05:46:29,403 nipype.workflow INFO:
[Node] Executing "non_steady_state_detector" <nipype.alg
orithms.confounds.NonSteadyStateDetector>
260118-05:46:29,671 nipype.workflow INFO:
[Node] Finished "non_steady_state_detector", elapsed tim
e 0.266619s.
260118-05:46:30,316 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 0.912722s.
260118-05:46:30,533 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_ta
sk-flanker_run-2_bold.nii.gz/provenance".
260118-05:46:30,535 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-05:46:30,597 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.060495s.
260118-05:46:30,814 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.conform" in "/home
/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jovyan.
.workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/conform".
260118-05:46:30,817 nipype.workflow INFO:
[Node] Executing "conform" <mriqc.interfaces.common.conf
orm_image.ConformImage>
260118-05:46:30,818 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.
nii.gz/metadata".
260118-05:46:30,820 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflows.interfaces.bids
.ReadSidecarJSON>
260118-05:46:31,51 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.conform" in "/home/
jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/conform".
260118-05
:46:31,51 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.metadata" in "/h
ome/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_
..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/met
adata".
260118-05:46:31,53 nipype.workflow INFO:
[Node] Executing "conform" <mriqc.interfaces.comm
on.conform_image.ConformImage>
260118-05:46:31,54 nipype.workflow INFO:
[Node] Executing "metadata
" <niworkflows.interfaces.bids.ReadSidecarJSON>
260118-05:46:31,77 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.conform" in "/home/
jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/conform".
260118-05:46:31,90 nipype.workflow INFO:
[Node] Executing "conform" <mriqc.interfaces.common.confo
rm_image.ConformImage>
260118-05:46:31,103 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.metada
ta" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.
nii.gz/metadata".
260118-05:46:31,108 nipype.workflow INFO:
[Node] Executing "metadata" <niworkflo
ws.interfaces.bids.ReadSidecarJSON>
260118-05:46:31,877 nipype.workflow INFO:
[Node] Finished "conform", elapsed time 1.05948s.
260118-05:46:31,994 nipype.workflow INFO:
[Node] Finished "conform", elapsed time 0.939963s.
260118-05:46:32,136 nipype.workflow INFO:
[Node] Finished "conform", elapsed time 1.044512s.
260118-05:46:32,621 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 1.800235s.
260118-05:46:33,211 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 2.101942s.
260118-05:46:33,234 nipype.workflow INFO:
[Node] Finished "metadata", elapsed time 2.178892s.
260118-05:46:33,288 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.sanitize" in "/hom
e/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan
..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.
gz/sanitize".
260118-05:46:33,291 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.sanitize" in "/hom
e/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan
..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.
gz/sanitize".
260118-05:46:33,291 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.sani
tize" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_
..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_r
un-1_bold.nii.gz/sanitize".
260118-05:46:33,292 nipype.workflow INFO:
[Node] Executing "sanitize" <niworkflows.interfaces.head
er.SanitizeImage>
260118-05:46:33,293 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.
sanitize" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_f
ile_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flank
er_run-2_bold.nii.gz/sanitize".
260118-05:46:33,293 nipype.workflow INFO:
[Node] Executing "saniti
ze" <niworkflows.interfaces.header.SanitizeImage>
260118-05:46:33,294 nipype.workflow INFO:
[Node]
Executing "sanitize" <niworkflows.interfaces.header.SanitizeImage>
260118-05:46:33,299 nipype.workflow INFO:
[Node] Executing "sanitize" <niworkflows.interfaces.head
er.SanitizeImage>
260118-05:46:33,388 nipype.workflow INFO:
[Node] Finished "sanitize", elapsed time 0.087907s.
260118-05:46:33,388 nipype.workflow INFO:
[Node] Finished "sanitize", elapsed time 0.094059s.
260118-05:46:35,70 nipype.workflow INFO:
[Node] Finished "sanitize", elapsed time 1.774982s.
260118-05:46:35,77 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.sanitize" in "/home
/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan.
.workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.g
z/sanitize".
260118-05:46:35,79 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.sanitize" in "/home
/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan.
.workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.nii.g
z/sanitize".
260118-05:46:35,79 nipype.workflow INFO:
[Node] Finished "sanitize", elapsed time 1.7
85743s.
260118-05:46:35,81 nipype.workflow INFO:
[Node] Executing "sanitize" <niworkflows.interfac
es.header.SanitizeImage>
260118-05:46:35,81 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anat
MRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriq
c_wf/anatMRIQC/synthstrip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds00010
2..sub-01..anat..sub-01_T1w.nii.gz/pre_clip".
260118-05:46:35,81 nipype.workflow INFO:
[Node] Sett
ing-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.RotationMask" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_in_file_..home..jovyan..workspace..books.
.examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/RotationMask".
260118-05:46:35,82 ni
pype.workflow INFO:
[Node] Executing "sanitize" <niworkflows.interfaces.header.SanitizeImage>
260118-05:46:35,83 nipype.workflow INFO:
[Node] Executing "pre_clip" <niworkflows.interfaces.nibab
el.IntensityClip>
260118-05:46:35,85 nipype.workflow INFO:
[Node] Executing "RotationMask" <mriqc.
interfaces.anatomical.RotationMask>
260118-05:46:36,930 nipype.workflow INFO:
[Node] Finished "RotationMask", elapsed time 1.84317s.
260118-05:46:37,59 nipype.workflow INFO:
[Node] Finished "sanitize", elapsed time 1.976229s.
260118-05:46:37,208 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..an
at..sub-01_T1w.nii.gz/PlotMosaicNoise".
260118-05:46:37,208 nipype.workflow INFO:
[Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_in_file_..home..jovyan..workspace..books..examples..wo
rkflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/pre_clip".
260118-05:46:37,211 nipype.workflow IN
FO:
[Node] Executing "PlotMosaicNoise" <mriqc.interfaces.viz.PlotMosaic>
260118-05:46:37,211 nipyp
e.workflow INFO:
[Node] Executing "pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
260118-05:46:37,269 nipype.workflow INFO:
[Node] Finished "sanitize", elapsed time 2.186962s.
260118-05:46:39,107 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.Ro
tationMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Air
MaskWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat.
.sub-02_T1w.nii.gz/RotationMask".
260118-05:46:39,109 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..an
at..sub-02_T1w.nii.gz/PlotMosaicNoise".
260118-05:46:39,109 nipype.workflow INFO:
[Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_in_file_..home..jovyan..workspace..books..examples..wo
rkflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/pre_clip".
260118-05:46:39,110 nipype.workflow IN
FO:
[Node] Executing "RotationMask" <mriqc.interfaces.anatomical.RotationMask>
260118-05:46:39,112
nipype.workflow INFO:
[Node] Executing "pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
260118-05:46:39,114 nipype.workflow INFO:
[Node] Executing "PlotMosaicNoise" <mriqc.interfaces.viz
.PlotMosaic>
260118-05:46:41,162 nipype.workflow INFO:
[Node] Finished "RotationMask", elapsed time 2.051452s.
260118-05:46:43,207 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.Ro
tationMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Air
MaskWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat.
.sub-03_T1w.nii.gz/RotationMask".
260118-05:46:43,210 nipype.workflow INFO:
[Node] Executing "RotationMask" <mriqc.interfaces.anatom
ical.RotationMask>
260118-05:46:44,636 nipype.workflow INFO:
[Node] Finished "RotationMask", elapsed time 1.425098s.
260118-05:46:45,207 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..an
at..sub-03_T1w.nii.gz/PlotMosaicNoise".
260118-05:46:45,219 nipype.workflow INFO:
[Node] Executing "PlotMosaicNoise" <mriqc.interfaces.viz
.PlotMosaic>
260118-05:46:59,160 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 21.94870
3s.
260118-05:47:00,483 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 21.36816
3s.
260118-05:47:01,143 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.motion_co
rrect" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-1_bold.nii.gz/motion_correct".
260118-05:47:01,147 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..s
ub-01_task-flanker_run-1_bold.nii.gz/SpikesMask".
260118-05:47:01,149 nipype.workflow INFO:
[Node] Executing "motion_correct" <nipype.interfaces.afn
i.preprocess.Volreg>
260118-05:47:01,159 nipype.workflow INFO:
[Node] Executing "SpikesMask" <nipype.interfaces.utility
.wrappers.Function>
260118-05:47:03,780 nipype.workflow INFO:
[Node] Finished "pre_clip", elapsed time 28.69608s.
260118-05:47:04,641 nipype.workflow INFO:
[Node] Finished "pre_clip", elapsed time 25.527306s.
260118-05:47:05,7 nipype.workflow INFO:
[Node] Finished "pre_clip", elapsed time 27.794796s.
260118-05:47:05,223 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.motion_co
rrect" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-2_bold.nii.gz/motion_correct".
260118-05:47:05,226 nipype.workflow INFO:
[Node] Executing "motion_correct" <nipype.interfaces.afn
i.preprocess.Volreg>
260118-05:47:05,227 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRI
QC.ReportsWorkflow.SpikesMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mri
qc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds00
0102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.gz/SpikesMask".
260118-05:47:05,230 nipype.wo
rkflow INFO:
[Node] Executing "SpikesMask" <nipype.interfaces.utility.wrappers.Function>
260118-05:47:07,122 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.motion_co
rrect" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-1_bold.nii.gz/motion_correct".
260118-05:47:07,125 nipype.workflow INFO:
[Node] Execu
ting "motion_correct" <nipype.interfaces.afni.preprocess.Volreg>
260118-05:47:07,275 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 22.05361
7s.
260118-05:47:09,240 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..s
ub-02_task-flanker_run-1_bold.nii.gz/SpikesMask".
260118-05:47:09,243 nipype.workflow INFO:
[Node] Executing "SpikesMask" <nipype.interfaces.utility
.wrappers.Function>
260118-05:47:13,388 nipype.workflow INFO:
[Node] Finished "SpikesMask", elapsed time 8.157614s.
260118-05:47:15,194 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.motion_co
rrect" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-2_bold.nii.gz/motion_correct".
260118-05:47:15,198 nipype.workflow INFO:
[Node] Executing "motion_correct" <nipype.interfaces.afn
i.preprocess.Volreg>
260118-05:47:15,463 nipype.workflow INFO:
[Node] Finished "SpikesMask", elapsed time 14.303014s.
260118-05:47:17,245 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..s
ub-02_task-flanker_run-2_bold.nii.gz/SpikesMask".
260118-05:47:17,251 nipype.workflow INFO:
[Node] Executing "SpikesMask" <nipype.interfaces.utility
.wrappers.Function>
260118-05:47:17,518 nipype.workflow INFO:
[Node] Finished "SpikesMask", elapsed time 8.27472s.
260118-05:47:19,175 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.motion_co
rrect" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-1_bold.nii.gz/motion_correct".
260118-05:47:19,178 nipype.workflow INFO:
[Node] Executing "motion_correct" <nipype.interfaces.afn
i.preprocess.Volreg>
260118-05:47:22,843 nipype.workflow INFO:
[Node] Finished "SpikesMask", elapsed time 5.591317s.
260118-05:47:23,292 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..s
ub-03_task-flanker_run-1_bold.nii.gz/SpikesMask".
260118-05:47:23,299 nipype.workflow INFO:
[Node] Executing "SpikesMask" <nipype.interfaces.utility
.wrappers.Function>
260118-05:47:28,895 nipype.workflow INFO:
[Node] Finished "SpikesMask", elapsed time 5.594804s.
260118-05:47:31,231 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.motion_co
rrect" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-2_bold.nii.gz/motion_correct".
260118-05:47:31,235 nipype.workflow INFO:
[Node] Execu
ting "motion_correct" <nipype.interfaces.afni.preprocess.Volreg>
260118-05:49:39,521 nipype.workflow INFO:
[Node] Finished "motion_correct", elapsed time 158.36972
7s.
260118-05:49:41,346 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..s
ub-03_task-flanker_run-2_bold.nii.gz/SpikesMask".
260118-05:49:41,356 nipype.workflow INFO:
[Node] Executing "SpikesMask" <nipype.interfaces.utility
.wrappers.Function>
260118-05:49:44,314 nipype.workflow INFO:
[Node] Finished "motion_correct", elapsed time 157.18792
2s.
260118-05:49:44,703 nipype.workflow INFO:
[Node] Finished "motion_correct", elapsed time 159.47576
5s.
260118-05:49:45,287 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.pre_
n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_
wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1
w.nii.gz/pre_n4".
260118-05:49:45,288 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.pre_
n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_
wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1
w.nii.gz/pre_n4".
260118-05:49:45,293 nipype.workflow INFO:
[Node] Executing "pre_n4" <nipype.interfaces.ants.segmen
tation.N4BiasFieldCorrection>
260118-05:49:45,315 nipype.workflow INFO:
[Node] Executing "pre_n4" <nipype.interfaces.ants.segmen
tation.N4BiasFieldCorrection>
260118-05:49:49,721 nipype.workflow INFO:
[Node] Finished "SpikesMask", elapsed time 8.362889s.
260118-05:49:50,358 nipype.workflow INFO:
[Node] Finished "motion_correct", elapsed time 155.15941
8s.
260118-05:49:51,435 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/_in_
file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flan
ker_run-1_bold.nii.gz/ComputeFD".
260118-05:49:51,435 nipype.workflow INFO:
[Node] Setting-up "mri
qc_wf.anatMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_work
dir/mriqc_wf/anatMRIQC/synthstrip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows.
.ds000102..sub-03..anat..sub-03_T1w.nii.gz/pre_n4".
260118-05:49:51,439 nipype.workflow INFO:
[Node] Executing "pre_n4" <nipype.interfaces.ants.segmen
tation.N4BiasFieldCorrection>
260118-05:49:51,441 nipype.workflow INFO:
[Node] Executing "ComputeFD" <nipype.algorithms.confound
s.FramewiseDisplacement>
260118-05:49:51,448 nipype.workflow INFO:
[Node] Finished "ComputeFD", elapsed time 0.003675s.
260118-05:49:53,758 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.mean" in "/home/jo
vyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.gz/m
ean".
260118-05:49:53,772 nipype.workflow INFO:
[Node] Executing "mean" <nipype.interfaces.afni.utils.TS
tat>
260118-05:49:56,6 nipype.workflow INFO:
[Node] Finished "mean", elapsed time 2.231011s.
260118-05:49:57,603 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.compute_tsnr" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jo
vyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.
nii.gz/compute_tsnr".
260118-05:49:57,617 nipype.workflow INFO:
[Node] Executing "compute_tsnr" <nipype.algorithms.confo
unds.TSNR>
260118-05:49:57,918 nipype.workflow INFO:
[Node] Finished "motion_correct", elapsed time 158.73932
3s.
260118-05:49:59,119 nipype.workflow INFO:
[Node] Finished "compute_tsnr", elapsed time 1.501561000
0000001s.
260118-05:49:59,497 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.qualit
y" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-
flanker_run-1_bold.nii.gz/quality".
260118-05:49:59,502 nipype.workflow INFO:
[Node] Executing "quality" <nipype.interfaces.afni.prepr
ocess.QualityIndex>
260118-05:50:01,820 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesFinderBgMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRI
QC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01.
.func..sub-01_task-flanker_run-1_bold.nii.gz/SpikesFinderBgMask".
260118-05:50:01,826 nipype.workflo
w INFO:
[Node] Executing "SpikesFinderBgMask" <mriqc.interfaces.functional.Spikes>
260118-05:50:02,891 nipype.workflow INFO:
[Node] Finished "quality", elapsed time 3.381908s.
260118-05:50:03,290 nipype.workflow INFO:
[Node] Finished "SpikesFinderBgMask", elapsed time 1.458
385s.
260118-05:50:03,556 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/_in_
file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flan
ker_run-2_bold.nii.gz/ComputeFD".
260118-05:50:03,577 nipype.workflow INFO:
[Node] Executing "ComputeFD" <nipype.algorithms.confound
s.FramewiseDisplacement>
260118-05:50:03,584 nipype.workflow INFO:
[Node] Finished "ComputeFD", elapsed time 0.00407s.
260118-05:50:05,609 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.mean" in "/home/jo
vyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.gz/m
ean".
260118-05:50:05,610 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.compute_tsnr
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-2
_bold.nii.gz/compute_tsnr".
260118-05:50:05,613 nipype.workflow INFO:
[Node] Executing "mean" <nip
ype.interfaces.afni.utils.TStat>
260118-05:50:05,620 nipype.workflow INFO:
[Node] Executing "compute_tsnr" <nipype.algorithms.confo
unds.TSNR>
260118-05:50:05,700 nipype.workflow INFO:
[Node] Finished "motion_correct", elapsed time 154.46329
8s.
260118-05:50:07,414 nipype.workflow INFO:
[Node] Finished "mean", elapsed time 1.800453s.
260118-05:50:07,490 nipype.workflow INFO:
[Node] Finished "compute_tsnr", elapsed time 1.866722s.
260118-05:50:07,525 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.qualit
y" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-
flanker_run-2_bold.nii.gz/quality".
260118-05:50:07,529 nipype.workflow INFO:
[Node] Executing "quality" <nipype.interfaces.afni.prepr
ocess.QualityIndex>
260118-05:50:09,519 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesFinderBgMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRI
QC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01.
.func..sub-01_task-flanker_run-2_bold.nii.gz/SpikesFinderBgMask".
260118-05:50:09,523 nipype.workflo
w INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books
/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/_in_file_..home..jovyan..workspace..bo
oks..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-1_bold.nii.gz/ComputeFD".
260118-05:50:09,529 nipype.workflow INFO:
[Node] Executing "ComputeFD" <nipype.algorithms.confound
s.FramewiseDisplacement>
260118-05:50:09,537 nipype.workflow INFO:
[Node] Executing "SpikesFinderB
gMask" <mriqc.interfaces.functional.Spikes>
260118-05:50:09,547 nipype.workflow INFO:
[Node] Finished "ComputeFD", elapsed time 0.016908s.
260118-05:50:10,613 nipype.workflow INFO:
[Node] Finished "SpikesFinderBgMask", elapsed time 1.074
702s.
260118-05:50:10,981 nipype.workflow INFO:
[Node] Finished "quality", elapsed time 3.448378s.
260118-05:50:11,672 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.mean" in "/home/jo
vyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-1_bold.nii.gz/m
ean".
260118-05:50:11,675 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.qualit
y" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-
flanker_run-1_bold.nii.gz/quality".
260118-05:50:11,675 nipype.workflow INFO:
[Node] Setting-up "m
riqc_wf.funcMRIQC.compute_tsnr" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mr
iqc_wf/funcMRIQC/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..f
unc..sub-02_task-flanker_run-1_bold.nii.gz/compute_tsnr".
260118-05:50:11,676 nipype.workflow INFO:
[Node] Executing "mean" <nipype.interfaces.afni.utils.TStat>
260118-05:50:11,679 nipype.workflow I
NFO:
[Node] Executing "quality" <nipype.interfaces.afni.preprocess.QualityIndex>
260118-05:50:11,6
79 nipype.workflow INFO:
[Node] Executing "compute_tsnr" <nipype.algorithms.confounds.TSNR>
260118-05:50:13,286 nipype.workflow INFO:
[Node] Finished "compute_tsnr", elapsed time 1.60601s.
260118-05:50:14,210 nipype.workflow INFO:
[Node] Finished "mean", elapsed time 2.53327s.
260118-05:50:15,581 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesFinderBgMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRI
QC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02.
.func..sub-02_task-flanker_run-1_bold.nii.gz/SpikesFinderBgMask".
260118-05:50:15,584 nipype.workflo
w INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books
/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/_in_file_..home..jovyan..workspace..bo
oks..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/ComputeFD".
260118-05:50:15,585 nipype.workflow INFO:
[Node] Executing "SpikesFinderBgMask" <mriqc.interfaces.
functional.Spikes>
260118-05:50:15,590 nipype.workflow INFO:
[Node] Executing "ComputeFD" <nipype.algorithms.confound
s.FramewiseDisplacement>
260118-05:50:15,597 nipype.workflow INFO:
[Node] Finished "ComputeFD", el
apsed time 0.006621s.
260118-05:50:16,209 nipype.workflow INFO:
[Node] Finished "quality", elapsed time 4.529134s.
260118-05:50:16,488 nipype.workflow INFO:
[Node] Finished "SpikesFinderBgMask", elapsed time 0.901
635s.
260118-05:50:17,506 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.mean" in "/home/jo
vyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/m
ean".
260118-05:50:17,506 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.compute_tsnr
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-2
_bold.nii.gz/compute_tsnr".
260118-05:50:17,510 nipype.workflow INFO:
[Node] Executing "mean" <nipype.interfaces.afni.utils.TS
tat>
260118-05:50:17,510 nipype.workflow INFO:
[Node] Executing "compute_tsnr" <nipype.algorithms.
confounds.TSNR>
260118-05:50:17,512 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.qualit
y" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-
flanker_run-2_bold.nii.gz/quality".
260118-05:50:17,527 nipype.workflow INFO:
[Node] Executing "quality" <nipype.interfaces.afni.prepr
ocess.QualityIndex>
260118-05:50:18,273 nipype.workflow INFO:
[Node] Finished "compute_tsnr", elapsed time 0.738966s.
260118-05:50:19,542 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Sp
ikesFinderBgMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRI
QC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02.
.func..sub-02_task-flanker_run-2_bold.nii.gz/SpikesFinderBgMask".
260118-05:50:19,546 nipype.workflow INFO:
[Node] Executing "SpikesFinderBgMask" <mriqc.interfaces.
functional.Spikes>
260118-05:50:19,982 nipype.workflow INFO:
[Node] Finished "mean", elapsed time 2.470936s.
260118-05:50:20,667 nipype.workflow INFO:
[Node] Finished "SpikesFinderBgMask", elapsed time 1.120
44s.
260118-05:50:20,706 nipype.workflow INFO:
[Node] Finished "quality", elapsed time 3.154706s.
260118-05:50:21,464 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/_in_
file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flan
ker_run-1_bold.nii.gz/ComputeFD".
260118-05:50:21,467 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.mean" in "/home/jo
vyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/m
ean".
260118-05:50:21,468 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.compute_tsnr
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-1
_bold.nii.gz/compute_tsnr".
260118-05:50:21,476 nipype.workflow INFO:
[Node] Executing "compute_tsnr" <nipype.algorithms.confo
unds.TSNR>
260118-05:50:21,479 nipype.workflow INFO:
[Node] Executing "mean" <nipype.interfaces.af
ni.utils.TStat>
260118-05:50:21,482 nipype.workflow INFO:
[Node] Executing "ComputeFD" <nipype.alg
orithms.confounds.FramewiseDisplacement>
260118-05:50:21,519 nipype.workflow INFO:
[Node] Finished "ComputeFD", elapsed time 0.015062s.
260118-05:50:22,667 nipype.workflow INFO:
[Node] Finished "compute_tsnr", elapsed time 1.189691s.
260118-05:50:23,548 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.qualit
y" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-
flanker_run-1_bold.nii.gz/quality".
260118-05:50:23,550 nipype.workflow INFO:
[Node] Setting-up "m
riqc_wf.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/SpikesFinderBgMask"
.
260118-05:50:23,552 nipype.workflow INFO:
[Node] Executing "quality" <nipype.interfaces.afni.pre
process.QualityIndex>
260118-05:50:23,560 nipype.workflow INFO:
[Node] Executing "SpikesFinderBgMask" <mriqc.interfaces.
functional.Spikes>
260118-05:50:23,593 nipype.workflow INFO:
[Node] Finished "mean", elapsed time 2.113517s.
260118-05:50:25,135 nipype.workflow INFO:
[Node] Finished "SpikesFinderBgMask", elapsed time 1.563
6100000000002s.
260118-05:50:25,539 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/_in_
file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flan
ker_run-2_bold.nii.gz/ComputeFD".
260118-05:50:25,542 nipype.workflow INFO:
[Node] Executing "Comp
uteFD" <nipype.algorithms.confounds.FramewiseDisplacement>
260118-05:50:25,545 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.mean" in "/home/jo
vyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.nii.gz/m
ean".
260118-05:50:25,548 nipype.workflow INFO:
[Node] Finished "ComputeFD", elapsed time 0.0048s.
260118-05:50:25,550 nipype.workflow INFO:
[Node] Executing "mean" <nipype.interfaces.afni.utils.T
Stat>
260118-05:50:27,288 nipype.workflow INFO:
[Node] Finished "quality", elapsed time 3.734589s.
260118-05:50:27,411 nipype.workflow INFO:
[Node] Finished "mean", elapsed time 1.8595549999999998s
.
260118-05:50:27,471 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.compute_tsnr" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/_in_file_..home..jo
vyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.
nii.gz/compute_tsnr".
260118-05:50:27,474 nipype.workflow INFO:
[Node] Executing "compute_tsnr" <n
ipype.algorithms.confounds.TSNR>
260118-05:50:29,320 nipype.workflow INFO:
[Node] Finished "compute_tsnr", elapsed time 1.845126s.
260118-05:50:29,379 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.qualit
y" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-
flanker_run-2_bold.nii.gz/quality".
260118-05:50:29,379 nipype.workflow INFO:
[Node] Setting-up "m
riqc_wf.funcMRIQC.ReportsWorkflow.SpikesFinderBgMask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.nii.gz/SpikesFinderBgMask"
.
260118-05:50:29,382 nipype.workflow INFO:
[Node] Executing "quality" <nipype.interfaces.afni.pre
process.QualityIndex>
260118-05:50:29,385 nipype.workflow INFO:
[Node] Executing "SpikesFinderBgMask" <mriqc.interfaces.
functional.Spikes>
260118-05:50:30,606 nipype.workflow INFO:
[Node] Finished "SpikesFinderBgMask", elapsed time 1.219
694s.
260118-05:50:31,557 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRIBrainMask.afni
_msk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRIBrain
Mask/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_
task-flanker_run-1_bold.nii.gz/afni_msk".
260118-05:50:31,557 nipype.workflow INFO:
[Node] Setting
-up "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..b
ooks..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.gz/SharpenEPI"
.
260118-05:50:31,560 nipype.workflow INFO:
[Node] Executing "SharpenEPI" <nipype.interfaces.ants.se
gmentation.N4BiasFieldCorrection>
260118-05:50:31,561 nipype.workflow INFO:
[Node] Executing "afni
_msk" <nipype.interfaces.afni.preprocess.Automask>
260118-05:50:32,847 nipype.workflow INFO:
[Node] Finished "afni_msk", elapsed time 1.285545s.
260118-05:50:33,602 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicMean" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..fun
c..sub-01_task-flanker_run-1_bold.nii.gz/PlotMosaicMean".
260118-05:50:33,608 nipype.workflow INFO:
[Node] Executing "PlotMosaicMean" <mriqc.interfaces.viz.
PlotMosaic>
260118-05:50:34,84 nipype.workflow INFO:
[Node] Finished "quality", elapsed time 4.697342s.
260118-05:50:35,365 nipype.workflow INFO:
[Node] Finished "SharpenEPI", elapsed time 3.208862s.
260118-05:50:35,638 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..fu
nc..sub-01_task-flanker_run-1_bold.nii.gz/PlotMosaicNoise".
260118-05:50:35,641 nipype.workflow INFO
:
[Node] Executing "PlotMosaicNoise" <mriqc.interfaces.viz.PlotMosaic>
260118-05:50:37,381 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicSD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func.
.sub-01_task-flanker_run-1_bold.nii.gz/PlotMosaicSD".
260118-05:50:37,392 nipype.workflow INFO:
[Node] Executing "PlotMosaicSD" <mriqc.interfaces.viz.Pl
otMosaic>
260118-05:50:44,108 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 8.466025
s.
260118-05:50:45,249 nipype.workflow INFO:
[Node] Finished "pre_n4", elapsed time 59.642345s.
260118-05:50:45,486 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRIBrainMask.afni
_msk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRIBrain
Mask/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_
task-flanker_run-2_bold.nii.gz/afni_msk".
260118-05:50:45,489 nipype.workflow INFO:
[Node] Executing "afni_msk" <nipype.interfaces.afni.prep
rocess.Automask>
260118-05:50:45,614 nipype.workflow INFO:
[Node] Finished "PlotMosaicMean", elapsed time 12.004468
s.
260118-05:50:46,478 nipype.workflow INFO:
[Node] Finished "afni_msk", elapsed time 0.987727s.
260118-05:50:46,651 nipype.workflow INFO:
[Node] Finished "PlotMosaicSD", elapsed time 9.25595s.
260118-05:50:47,523 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.synt
hstrip" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthst
rip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-0
1_T1w.nii.gz/synthstrip".
260118-05:50:47,527 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..fu
nc..sub-01_task-flanker_run-2_bold.nii.gz/PlotMosaicNoise".
260118-05:50:47,527 nipype.workflow INFO
:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.PlotMosaicMean" in "/home/jovyan/workspace
/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.gz
/PlotMosaicMean".
260118-05:50:47,527 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.
SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflow
s..ds000102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.gz/SharpenEPI".
260118-05:50:47,528 ni
pype.workflow INFO:
[Node] Executing "synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
260118-
05:50:47,529 nipype.workflow INFO:
[Node] Executing "PlotMosaicNoise" <mriqc.interfaces.viz.PlotMo
saic>
260118-05:50:47,532 nipype.workflow INFO:
[Node] Executing "SharpenEPI" <nipype.interfaces.a
nts.segmentation.N4BiasFieldCorrection>
260118-05:50:47,544 nipype.workflow INFO:
[Node] Executing "PlotMosaicMean" <mriqc.interfaces.viz.
PlotMosaic>
260118-05:50:48,375 nipype.workflow INFO:
[Node] Finished "pre_n4", elapsed time 62.666125s.
260118-05:50:49,440 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.synt
hstrip" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthst
rip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-0
2_T1w.nii.gz/synthstrip".
260118-05:50:49,461 nipype.workflow INFO:
[Node] Executing "synthstrip" <mriqc.interfaces.synthstr
ip.SynthStrip>
260118-05:50:51,460 nipype.workflow INFO:
[Node] Finished "SharpenEPI", elapsed time 3.13067899999
99998s.
260118-05:50:52,157 nipype.workflow INFO:
[Node] Finished "pre_n4", elapsed time 59.755456s.
260118-05:50:53,450 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.synt
hstrip" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthst
rip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-0
3_T1w.nii.gz/synthstrip".
260118-05:50:53,451 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicSD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func.
.sub-01_task-flanker_run-2_bold.nii.gz/PlotMosaicSD".
260118-05:50:53,457 nipype.workflow INFO:
[Node] Executing "synthstrip" <mriqc.interfaces.synthstr
ip.SynthStrip>
260118-05:50:53,458 nipype.workflow INFO:
[Node] Executing "PlotMosaicSD" <mriqc.interfaces.viz.Pl
otMosaic>
260118-05:50:53,667 nipype.workflow INFO:
[Node] Finished "PlotMosaicMean", elapsed time 6.122388s
.
260118-05:50:54,49 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 6.518589s
.
260118-05:50:55,397 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRIBrainMask.afni
_msk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRIBrain
Mask/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_
task-flanker_run-1_bold.nii.gz/afni_msk".
260118-05:50:55,397 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.SharpenEPI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-0
2..func..sub-02_task-flanker_run-1_bold.nii.gz/SharpenEPI".
260118-05:50:55,401 nipype.workflow INFO:
[Node] Executing "afni_msk" <nipype.interfaces.afni.prep
rocess.Automask>
260118-05:50:55,402 nipype.workflow INFO:
[Node] Executing "SharpenEPI" <nipype.interfaces.ants.se
gmentation.N4BiasFieldCorrection>
260118-05:50:56,534 nipype.workflow INFO:
[Node] Finished "afni_msk", elapsed time 1.1325020000000
001s.
260118-05:50:57,412 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicMean" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..fun
c..sub-02_task-flanker_run-1_bold.nii.gz/PlotMosaicMean".
260118-05:50:57,420 nipype.workflow INFO:
[Node] Executing "PlotMosaicMean" <mriqc.interfaces.viz.
PlotMosaic>
260118-05:50:59,793 nipype.workflow INFO:
[Node] Finished "PlotMosaicSD", elapsed time 6.332004s.
260118-05:50:59,829 nipype.workflow INFO:
[Node] Finished "SharpenEPI", elapsed time 4.42501s.
260118-05:51:01,402 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..fu
nc..sub-02_task-flanker_run-1_bold.nii.gz/PlotMosaicNoise".
260118-05:51:01,403 nipype.workflow INFO
:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.PlotMosaicSD" in "/home/jovyan/workspace/b
ooks/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-1_bold.nii.gz/P
lotMosaicSD".
260118-05:51:01,406 nipype.workflow INFO:
[Node] Executing "PlotMosaicNoise" <mriqc.
interfaces.viz.PlotMosaic>
260118-05:51:01,406 nipype.workflow INFO:
[Node] Executing "PlotMosaicS
D" <mriqc.interfaces.viz.PlotMosaic>
260118-05:51:03,768 nipype.workflow INFO:
[Node] Finished "PlotMosaicMean", elapsed time 6.346818s
.
260118-05:51:05,477 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRIBrainMask.afni
_msk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRIBrain
Mask/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_
task-flanker_run-2_bold.nii.gz/afni_msk".
260118-05:51:05,480 nipype.workflow INFO:
[Node] Executi
ng "afni_msk" <nipype.interfaces.afni.preprocess.Automask>
260118-05:51:07,8 nipype.workflow INFO:
[Node] Finished "afni_msk", elapsed time 1.527225s.
260118-05:51:07,401 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.SharpenEPI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-0
2..func..sub-02_task-flanker_run-2_bold.nii.gz/SharpenEPI".
260118-05:51:07,404 nipype.workflow INFO:
[Node] Executing "SharpenEPI" <nipype.interfaces.ants.se
gmentation.N4BiasFieldCorrection>
260118-05:51:07,721 nipype.workflow INFO:
[Node] Finished "PlotMosaicSD", elapsed time 6.314395s.
260118-05:51:09,171 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 7.76392s
.
260118-05:51:09,511 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicMean" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..fun
c..sub-02_task-flanker_run-2_bold.nii.gz/PlotMosaicMean".
260118-05:51:09,512 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.PlotMosaicNoise" in "/home/jovyan/workspace/
books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/
PlotMosaicNoise".
260118-05:51:09,514 nipype.workflow INFO:
[Node] Executing "PlotMosaicMean" <mri
qc.interfaces.viz.PlotMosaic>
260118-05:51:09,517 nipype.workflow INFO:
[Node] Executing "PlotMosa
icNoise" <mriqc.interfaces.viz.PlotMosaic>
260118-05:51:13,40 nipype.workflow INFO:
[Node] Finished "SharpenEPI", elapsed time 4.303066s.
260118-05:51:13,436 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicSD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func.
.sub-02_task-flanker_run-2_bold.nii.gz/PlotMosaicSD".
260118-05:51:13,441 nipype.workflow INFO:
[Node] Executing "PlotMosaicSD" <mriqc.interfaces.viz.Pl
otMosaic>
260118-05:51:16,144 nipype.workflow INFO:
[Node] Finished "PlotMosaicMean", elapsed time 6.62974s.
260118-05:51:17,158 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 7.639845
s.
260118-05:51:17,455 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRIBrainMask.afni
_msk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRIBrain
Mask/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_
task-flanker_run-1_bold.nii.gz/afni_msk".
260118-05:51:17,456 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.SharpenEPI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-0
3..func..sub-03_task-flanker_run-1_bold.nii.gz/SharpenEPI".
260118-05:51:17,460 nipype.workflow INFO
:
[Node] Executing "SharpenEPI" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
260118
-05:51:17,461 nipype.workflow INFO:
[Node] Executing "afni_msk" <nipype.interfaces.afni.preprocess
.Automask>
260118-05:51:18,495 nipype.workflow INFO:
[Node] Finished "afni_msk", elapsed time 1.032517s.
260118-05:51:19,453 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicMean" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..fun
c..sub-03_task-flanker_run-1_bold.nii.gz/PlotMosaicMean".
260118-05:51:19,456 nipype.workflow INFO:
[Node] Executing "PlotMosaicMean" <mriqc.interfaces.viz.PlotMosaic>
260118-05:51:19,581 nipype.workflow INFO:
[Node] Finished "PlotMosaicSD", elapsed time 6.139202s.
260118-05:51:20,71 nipype.workflow INFO:
[Node] Finished "SharpenEPI", elapsed time 2.609047s.
260118-05:51:21,435 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicNoise" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..fu
nc..sub-03_task-flanker_run-1_bold.nii.gz/PlotMosaicNoise".
260118-05:51:21,440 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicSD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func.
.sub-03_task-flanker_run-1_bold.nii.gz/PlotMosaicSD".
260118-05:51:21,444 nipype.workflow INFO:
[Node] Executing "PlotMosaicSD" <mriqc.interfaces.viz.Pl
otMosaic>
260118-05:51:21,449 nipype.workflow INFO:
[Node] Executing "PlotMosaicNoise" <mriqc.interfaces.viz
.PlotMosaic>
260118-05:51:25,175 nipype.workflow INFO:
[Node] Finished "PlotMosaicMean", elapsed time 5.7183019
999999996s.
260118-05:51:25,474 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.fMRIBrainMask.afni
_msk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRIBrain
Mask/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_
task-flanker_run-2_bold.nii.gz/afni_msk".
260118-05:51:25,480 nipype.workflow INFO:
[Node] Executing "afni_msk" <nipype.interfaces.afni.prep
rocess.Automask>
260118-05:51:26,467 nipype.workflow INFO:
[Node] Finished "afni_msk", elapsed time 0.982997s.
260118-05:51:27,234 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 5.782055
s.
260118-05:51:27,453 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.SharpenEPI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-0
3..func..sub-03_task-flanker_run-2_bold.nii.gz/SharpenEPI".
260118-05:51:27,459 nipype.workflow INFO:
[Node] Executing "SharpenEPI" <nipype.interfaces.ants.se
gmentation.N4BiasFieldCorrection>
260118-05:51:27,673 nipype.workflow INFO:
[Node] Finished "PlotMosaicSD", elapsed time 6.228701s.
260118-05:51:29,619 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicMean" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..fun
c..sub-03_task-flanker_run-2_bold.nii.gz/PlotMosaicMean".
260118-05:51:29,619 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.PlotMosaicNoise" in "/home/jovyan/workspace/
books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.nii.gz/
PlotMosaicNoise".
260118-05:51:29,621 nipype.workflow INFO:
[Node] Executing "PlotMosaicMean" <mri
qc.interfaces.viz.PlotMosaic>
260118-05:51:29,622 nipype.workflow INFO:
[Node] Executing "PlotMosa
icNoise" <mriqc.interfaces.viz.PlotMosaic>
260118-05:51:30,928 nipype.workflow INFO:
[Node] Finished "SharpenEPI", elapsed time 3.46613s.
260118-05:51:31,399 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicSD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func.
.sub-03_task-flanker_run-2_bold.nii.gz/PlotMosaicSD".
260118-05:51:31,402 nipype.workflow INFO:
[Node] Executing "PlotMosaicSD" <mriqc.interfaces.viz.Pl
otMosaic>
260118-05:51:36,740 nipype.workflow INFO:
[Node] Finished "PlotMosaicNoise", elapsed time 7.116596
s.
260118-05:51:37,408 nipype.workflow INFO:
[Node] Finished "PlotMosaicSD", elapsed time 6.005146s.
260118-05:51:37,465 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.Comput
eDVARS" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_
task-flanker_run-1_bold.nii.gz/ComputeDVARS".
260118-05:51:37,472 nipype.workflow INFO:
[Node] Executing "ComputeDVARS" <nipype.algorithms.confo
unds.ComputeDVARS>
260118-05:51:37,587 nipype.workflow INFO:
[Node] Finished "PlotMosaicMean", elapsed time 7.965084s
.
260118-05:51:39,465 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.outlie
rs" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-1_bold.nii.gz/outliers".
260118-05:51:39,465 nipype.workflow INFO:
[Node] Setting-up
"mriqc_wf.funcMRIQC.ComputeIQMs.smoothness" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..examples..workfl
ows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.gz/smoothness".
260118-05:51:39,468
nipype.workflow INFO:
[Node] Executing "outliers" <nipype.interfaces.afni.preprocess.OutlierCount>
260118-05:51:39,469 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.u
tils.FWHMx>
260118-05:51:42,47 nipype.workflow INFO:
[Node] Finished "outliers", elapsed time 2.577556s.
260118-05:51:43,458 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.gcor"
in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in
_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-fla
nker_run-1_bold.nii.gz/gcor".
260118-05:51:43,463 nipype.workflow INFO:
[Node] Executing "gcor" <mriqc.interfaces.transitional.G
COR>
260118-05:51:43,608 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 4.138297s.
260118-05:51:45,470 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.di
lated_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func.
.sub-01_task-flanker_run-1_bold.nii.gz/dilated_mask".
260118-05:51:45,484 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.
morphology.BinaryDilation>
260118-05:51:45,581 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.095658s.
260118-05:51:47,546 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func
..sub-01_task-flanker_run-1_bold.nii.gz/PlotBrainmask".
260118-05:51:47,554 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.P
lotContours>
260118-05:51:47,877 nipype.workflow INFO:
[Node] Finished "ComputeDVARS", elapsed time 10.402406s.
260118-05:51:48,615 nipype.workflow INFO:
[Node] Finished "gcor", elapsed time 5.149857s.
260118-05:51:49,433 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..f
unc..sub-01_task-flanker_run-1_bold.nii.gz/PlotMosaicZoomed".
260118-05:51:49,436 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:51:49,462 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.EPI2MNI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spa
tialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..
func..sub-01_task-flanker_run-1_bold.nii.gz/EPI2MNI".
260118-05:51:49,467 nipype.workflow INFO:
[Node] Executing "EPI2MNI" <niworkflows.interfaces.repor
tlets.registration.SpatialNormalizationRPT>
260118-05:51:56,24 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 8.467941s.
260118-05:51:57,350 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 7.91226
8s.
260118-05:51:57,755 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.Comput
eDVARS" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_
task-flanker_run-2_bold.nii.gz/ComputeDVARS".
260118-05:51:57,762 nipype.workflow INFO:
[Node] Executing "ComputeDVARS" <nipype.algorithms.confo
unds.ComputeDVARS>
260118-05:51:59,636 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_ta
sk-flanker_run-2_bold.nii.gz/smoothness".
260118-05:51:59,642 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.ut
ils.FWHMx>
260118-05:52:02,497 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 2.85127s.
260118-05:52:03,587 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.outlie
rs" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-2_bold.nii.gz/outliers".
260118-05:52:03,605 nipype.workflow INFO:
[Node] Executing "outliers" <nipype.interfaces.afni.prep
rocess.OutlierCount>
260118-05:52:06,831 nipype.workflow INFO:
[Node] Finished "outliers", elapsed time 3.223843s.
260118-05:52:07,605 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.gcor"
in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in
_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-fla
nker_run-2_bold.nii.gz/gcor".
260118-05:52:07,613 nipype.workflow INFO:
[Node] Executing "gcor" <mriqc.interfaces.transitional.G
COR>
260118-05:52:08,650 nipype.workflow INFO:
[Node] Finished "ComputeDVARS", elapsed time 10.879745s.
260118-05:52:09,611 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.di
lated_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func.
.sub-01_task-flanker_run-2_bold.nii.gz/dilated_mask".
260118-05:52:09,620 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.
morphology.BinaryDilation>
260118-05:52:09,674 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.048172s.
260118-05:52:11,680 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func
..sub-01_task-flanker_run-2_bold.nii.gz/PlotBrainmask".
260118-05:52:11,685 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.PlotContours>
260118-05:52:13,208 nipype.workflow INFO:
[Node] Finished "gcor", elapsed time 5.593653s.
260118-05:52:13,678 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..f
unc..sub-01_task-flanker_run-2_bold.nii.gz/PlotMosaicZoomed".
260118-05:52:13,687 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:52:17,801 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 90.271262s.
260118-05:52:19,328 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 7.640888s.
260118-05:52:19,523 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.post
_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip
_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T
1w.nii.gz/post_n4".
260118-05:52:19,527 nipype.workflow INFO:
[Node] Executing "post_n4" <nipype.interfaces.ants.segme
ntation.N4BiasFieldCorrection>
260118-05:52:19,927 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 6.23817
2s.
260118-05:52:20,571 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 87.107285s.
260118-05:52:21,588 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1
w.nii.gz/smoothness".
260118-05:52:21,589 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMR
IQC.ReportsWorkflow.PlotMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_work
dir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflow
s..ds000102..sub-01..anat..sub-01_T1w.nii.gz/PlotMosaicZoomed".
260118-05:52:21,592 nipype.workflow
INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.utils.FWHMx>
260118-05:52:21,596 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat
..sub-01_T1w.nii.gz/PlotBrainmask".
260118-05:52:21,607 nipype.workflow INFO:
[Node] Executing "Pl
otBrainmask" <mriqc.interfaces.viz.PlotContours>
260118-05:52:21,612 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:52:25,826 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 96.36081s.
260118-05:52:27,704 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.post
_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip
_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T
1w.nii.gz/post_n4".
260118-05:52:27,709 nipype.workflow INFO:
[Node] Executing "post_n4" <nipype.interfaces.ants.segme
ntation.N4BiasFieldCorrection>
260118-05:52:31,292 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 9.683893s.
260118-05:52:31,777 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1
w.nii.gz/smoothness".
260118-05:52:31,784 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.ut
ils.FWHMx>
260118-05:52:31,885 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 10.292599s.
260118-05:52:33,822 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..a
nat..sub-02_T1w.nii.gz/PlotMosaicZoomed".
260118-05:52:33,828 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:52:41,717 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 9.931237s.
260118-05:52:43,22 nipype.workflow INFO:
[Node] Finished "post_n4", elapsed time 23.493469s.
260118-05:52:43,92 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 21.47763
1s.
260118-05:52:43,814 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.post
_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip
_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T
1w.nii.gz/post_n4".
260118-05:52:43,814 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQ
C.ReportsWorkflow.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds
000102..sub-02..anat..sub-02_T1w.nii.gz/PlotBrainmask".
260118-05:52:43,815 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.smoothness" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books
..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/smoothness".
260118-05:52:43,817 ni
pype.workflow INFO:
[Node] Executing "post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCor
rection>
260118-05:52:43,819 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interface
s.afni.utils.FWHMx>
260118-05:52:43,821 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mr
iqc.interfaces.viz.PlotContours>
260118-05:52:49,182 nipype.workflow INFO:
[Node] Finished "post_n4", elapsed time 21.470978s.
260118-05:52:49,595 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..a
nat..sub-03_T1w.nii.gz/PlotMosaicZoomed".
260118-05:52:49,607 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:52:53,290 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 9.466381s.
260118-05:52:53,545 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat
..sub-03_T1w.nii.gz/PlotBrainmask".
260118-05:52:53,549 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.P
lotContours>
260118-05:52:54,716 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 10.895943s.
260118-05:52:55,556 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.EPI2MNI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spa
tialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..
func..sub-01_task-flanker_run-2_bold.nii.gz/EPI2MNI".
260118-05:52:55,561 nipype.workflow INFO:
[N
ode] Executing "EPI2MNI" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
260118-05:52:59,43 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 25.21360
6s.
260118-05:52:59,609 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.Comput
eDVARS" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_
task-flanker_run-1_bold.nii.gz/ComputeDVARS".
260118-05:52:59,622 nipype.workflow INFO:
[Node] Executing "ComputeDVARS" <nipype.algorithms.confo
unds.ComputeDVARS>
260118-05:53:00,930 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 7.380355s.
260118-05:53:01,606 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_ta
sk-flanker_run-1_bold.nii.gz/smoothness".
260118-05:53:01,610 nipype.workflow INFO:
[Node] Executi
ng "smoothness" <nipype.interfaces.afni.utils.FWHMx>
260118-05:53:03,283 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 1.672457s.
260118-05:53:03,673 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.outlie
rs" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-1_bold.nii.gz/outliers".
260118-05:53:03,677 nipype.workflow INFO:
[Node] Executing "
outliers" <nipype.interfaces.afni.preprocess.OutlierCount>
260118-05:53:05,335 nipype.workflow INFO:
[Node] Finished "post_n4", elapsed time 21.516361s.
260118-05:53:05,710 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.gcor"
in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in
_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-fla
nker_run-1_bold.nii.gz/gcor".
260118-05:53:05,722 nipype.workflow INFO:
[Node] Executing "gcor" <mriqc.interfaces.transitional.G
COR>
260118-05:53:05,964 nipype.workflow INFO:
[Node] Finished "outliers", elapsed time 2.285523s.
260118-05:53:07,618 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.di
lated_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func.
.sub-02_task-flanker_run-1_bold.nii.gz/dilated_mask".
260118-05:53:07,626 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.
morphology.BinaryDilation>
260118-05:53:07,854 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.222885s.
260118-05:53:07,885 nipype.workflow INFO:
[Node] Finished "ComputeDVARS", elapsed time 8.259311s.
260118-05:53:08,395 nipype.workflow INFO:
[Node] Finished "gcor", elapsed time 2.6695640000000003s
.
260118-05:53:09,596 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..f
unc..sub-02_task-flanker_run-1_bold.nii.gz/PlotMosaicZoomed".
260118-05:53:09,596 nipype.workflow IN
FO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.PlotBrainmask" in "/home/jovyan/workspac
e/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan.
.workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-1_bold.nii.g
z/PlotBrainmask".
260118-05:53:09,596 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.
SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriq
c_wf/funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..
ds000102..sub-02..func..sub-02_task-flanker_run-1_bold.nii.gz/EPI2MNI".
260118-05:53:09,600 nipype.w
orkflow INFO:
[Node] Executing "EPI2MNI" <niworkflows.interfaces.reportlets.registration.SpatialNo
rmalizationRPT>
260118-05:53:09,601 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mri
qc.interfaces.viz.PlotMosaic>
260118-05:53:09,603 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.P
lotContours>
260118-05:53:14,944 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 25.3246
7s.
260118-05:53:15,596 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.Comput
eDVARS" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_
task-flanker_run-2_bold.nii.gz/ComputeDVARS".
260118-05:53:15,602 nipype.workflow INFO:
[Node] Executing "ComputeDVARS" <nipype.algorithms.confo
unds.ComputeDVARS>
260118-05:53:15,615 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 6.01341
7s.
260118-05:53:16,169 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 6.5633s.
260118-05:53:17,586 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_ta
sk-flanker_run-2_bold.nii.gz/smoothness".
260118-05:53:17,587 nipype.workflow INFO:
[Node] Setting
-up "mriqc_wf.funcMRIQC.ComputeIQMs.outliers" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..examples..work
flows..ds000102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/outliers".
260118-05:53:17,590 nipype.workflow INFO:
[Node] Executing "outliers" <nipype.interfaces.afni.prep
rocess.OutlierCount>
260118-05:53:17,603 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.ut
ils.FWHMx>
260118-05:53:20,451 nipype.workflow INFO:
[Node] Finished "outliers", elapsed time 2.8576639999999
998s.
260118-05:53:21,415 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 3.809462s.
260118-05:53:21,671 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.gcor"
in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in
_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-fla
nker_run-2_bold.nii.gz/gcor".
260118-05:53:21,675 nipype.workflow INFO:
[Node] Executing "gcor" <mriqc.interfaces.transitional.G
COR>
260118-05:53:23,648 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.di
lated_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func.
.sub-02_task-flanker_run-2_bold.nii.gz/dilated_mask".
260118-05:53:23,660 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.
morphology.BinaryDilation>
260118-05:53:23,712 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.050956s.
260118-05:53:25,189 nipype.workflow INFO:
[Node] Finished "gcor", elapsed time 3.512777s.
260118-05:53:25,662 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..f
unc..sub-02_task-flanker_run-2_bold.nii.gz/PlotMosaicZoomed".
260118-05:53:25,662 nipype.workflow IN
FO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.PlotBrainmask" in "/home/jovyan/workspac
e/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan.
.workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.g
z/PlotBrainmask".
260118-05:53:25,669 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.P
lotContours>
260118-05:53:25,680 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:53:26,39 nipype.workflow INFO:
[Node] Finished "ComputeDVARS", elapsed time 10.436025s.
260118-05:53:27,663 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.Comput
eDVARS" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_
task-flanker_run-1_bold.nii.gz/ComputeDVARS".
260118-05:53:27,667 nipype.workflow INFO:
[Node] Exe
cuting "ComputeDVARS" <nipype.algorithms.confounds.ComputeDVARS>
260118-05:53:32,460 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 6.77608
1s.
260118-05:53:33,700 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_ta
sk-flanker_run-1_bold.nii.gz/smoothness".
260118-05:53:33,705 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.ut
ils.FWHMx>
260118-05:53:38,605 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 4.899686s.
260118-05:53:38,644 nipype.workflow INFO:
[Node] Finished "ComputeDVARS", elapsed time 10.975957s.
260118-05:53:39,216 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 13.545835s
.
260118-05:53:39,900 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.outlie
rs" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-1_bold.nii.gz/outliers".
260118-05:53:39,903 nipype.workflow INFO:
[Node] Setting-up
"mriqc_wf.funcMRIQC.ComputeIQMs.gcor" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_work
dir/mriqc_wf/funcMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..d
s000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/gcor".
260118-05:53:39,904 nipype.workflow INFO:
[Node] Executing "outliers" <nipype.interfaces.afni.prep
rocess.OutlierCount>
260118-05:53:39,905 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRI
QC.ReportsWorkflow.dilated_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds
000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/dilated_mask".
260118-05:53:39,908 nipyp
e.workflow INFO:
[Node] Executing "gcor" <mriqc.interfaces.transitional.GCOR>
260118-05:53:39,912 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.
morphology.BinaryDilation>
260118-05:53:39,938 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.024345s.
260118-05:53:41,656 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func
..sub-03_task-flanker_run-1_bold.nii.gz/PlotBrainmask".
260118-05:53:41,660 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.P
lotContours>
260118-05:53:43,341 nipype.workflow INFO:
[Node] Finished "outliers", elapsed time 3.4353949999999
998s.
260118-05:53:43,768 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..f
unc..sub-03_task-flanker_run-1_bold.nii.gz/PlotMosaicZoomed".
260118-05:53:43,780 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:53:48,193 nipype.workflow INFO:
[Node] Finished "gcor", elapsed time 8.284544s.
260118-05:53:49,662 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.Comput
eDVARS" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_
task-flanker_run-2_bold.nii.gz/ComputeDVARS".
260118-05:53:49,671 nipype.workflow INFO:
[Node] Executing "ComputeDVARS" <nipype.algorithms.confo
unds.ComputeDVARS>
260118-05:53:49,788 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 6.00576
2s.
260118-05:53:51,615 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.smooth
ness" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_ta
sk-flanker_run-2_bold.nii.gz/smoothness".
260118-05:53:51,624 nipype.workflow INFO:
[Node] Executing "smoothness" <nipype.interfaces.afni.ut
ils.FWHMx>
260118-05:53:53,43 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 11.381514s.
260118-05:53:53,691 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.outlie
rs" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-2_bold.nii.gz/outliers".
260118-05:53:53,702 nipype.workflow INFO:
[Node] Executing "outliers" <nipype.interfaces.afni.prep
rocess.OutlierCount>
260118-05:53:55,55 nipype.workflow INFO:
[Node] Finished "smoothness", elapsed time 3.430169000000
0002s.
260118-05:53:55,719 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.gcor"
in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in
_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task-fla
nker_run-2_bold.nii.gz/gcor".
260118-05:53:55,728 nipype.workflow INFO:
[Node] Executing "gcor" <mriqc.interfaces.transitional.G
COR>
260118-05:53:56,500 nipype.workflow INFO:
[Node] Finished "outliers", elapsed time 2.793685s.
260118-05:53:57,725 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.di
lated_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func.
.sub-03_task-flanker_run-2_bold.nii.gz/dilated_mask".
260118-05:53:57,731 nipype.workflow INFO:
[Node] Executing "dilated_mask" <niworkflows.interfaces.
morphology.BinaryDilation>
260118-05:53:57,788 nipype.workflow INFO:
[Node] Finished "dilated_mask", elapsed time 0.055784s.
260118-05:53:58,363 nipype.workflow INFO:
[Node] Finished "ComputeDVARS", elapsed time 8.688644s.
260118-05:53:59,693 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otBrainmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func
..sub-03_task-flanker_run-2_bold.nii.gz/PlotBrainmask".
260118-05:53:59,695 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Pl
otMosaicZoomed" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..f
unc..sub-03_task-flanker_run-2_bold.nii.gz/PlotMosaicZoomed".
260118-05:53:59,699 nipype.workflow INFO:
[Node] Executing "PlotMosaicZoomed" <mriqc.interfaces.vi
z.PlotMosaic>
260118-05:53:59,700 nipype.workflow INFO:
[Node] Executing "PlotBrainmask" <mriqc.interfaces.viz.P
lotContours>
260118-05:53:59,982 nipype.workflow INFO:
[Node] Finished "gcor", elapsed time 4.253082s.
260118-05:54:01,631 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.fina
l_inu" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstr
ip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01
_T1w.nii.gz/final_inu".
260118-05:54:01,640 nipype.workflow INFO:
[Node] Executing "final_inu" <nipype.interfaces.utility.
wrappers.Function>
260118-05:54:02,696 nipype.workflow INFO:
[Node] Finished "final_inu", elapsed time 1.054735s.
260118-05:54:03,632 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.fina
l_masked" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synth
strip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub
-01_T1w.nii.gz/final_masked".
260118-05:54:03,637 nipype.workflow INFO:
[Node] Executing "final_masked" <niworkflows.interfaces.
nibabel.ApplyMask>
260118-05:54:04,639 nipype.workflow INFO:
[Node] Finished "final_masked", elapsed time 1.00068s.
260118-05:54:05,401 nipype.workflow INFO:
[Node] Finished "PlotMosaicZoomed", elapsed time 5.70087
2s.
260118-05:54:05,735 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.HeadMaskWorkflow.f
sl_bet" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMas
kWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..su
b-01_T1w.nii.gz/fsl_bet".
260118-05:54:05,736 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.fina
l_inu" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstr
ip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02
_T1w.nii.gz/final_inu".
260118-05:54:05,740 nipype.workflow INFO:
[Node] Executing "final_inu" <ni
pype.interfaces.utility.wrappers.Function>
260118-05:54:05,743 nipype.workflow INFO:
[Node] Execut
ing "fsl_bet" <nipype.interfaces.fsl.preprocess.BET>
260118-05:54:06,761 nipype.workflow INFO:
[Node] Finished "final_inu", elapsed time 1.019955s.
260118-05:54:07,624 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.fina
l_masked" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synth
strip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub
-02_T1w.nii.gz/final_masked".
260118-05:54:07,628 nipype.workflow INFO:
[Node] Executing "final_masked" <niworkflows.interfaces.
nibabel.ApplyMask>
260118-05:54:08,230 nipype.workflow INFO:
[Node] Finished "final_masked", elapsed time 0.600641s.
260118-05:54:08,987 nipype.workflow INFO:
[Node] Finished "PlotBrainmask", elapsed time 9.285766s.
260118-05:54:09,685 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.HeadMaskWorkflow.f
sl_bet" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMas
kWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..su
b-02_T1w.nii.gz/fsl_bet".
260118-05:54:09,687 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.fina
l_inu" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstr
ip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03
_T1w.nii.gz/final_inu".
260118-05:54:09,689 nipype.workflow INFO:
[Node] Executing "fsl_bet" <nipy
pe.interfaces.fsl.preprocess.BET>
260118-05:54:09,693 nipype.workflow INFO:
[Node] Executing "final_inu" <nipype.interfaces.utility.
wrappers.Function>
260118-05:54:11,334 nipype.workflow INFO:
[Node] Finished "EPI2MNI", elapsed time 141.865567s.
260118-05:54:11,454 nipype.workflow INFO:
[Node] Finished "final_inu", elapsed time 1.760179s.
260118-05:54:11,639 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.EPI2MNI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spa
tialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..
func..sub-02_task-flanker_run-2_bold.nii.gz/EPI2MNI".
260118-05:54:11,646 nipype.workflow INFO:
[Node] Executing "EPI2MNI" <niworkflows.interfaces.repor
tlets.registration.SpatialNormalizationRPT>
260118-05:54:13,867 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.synthstrip_wf.fina
l_masked" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/synth
strip_wf/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub
-03_T1w.nii.gz/final_masked".
260118-05:54:13,904 nipype.workflow INFO:
[Node] Executing "final_masked" <niworkflows.interfaces.
nibabel.ApplyMask>
260118-05:54:15,148 nipype.workflow INFO:
[Node] Finished "final_masked", elapsed time 1.231083s.
260118-05:54:15,706 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.HeadMaskWorkflow.f
sl_bet" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMas
kWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..su
b-03_T1w.nii.gz/fsl_bet".
260118-05:54:15,712 nipype.workflow INFO:
[Node] Executing "fsl_bet" <nipype.interfaces.fsl.prepro
cess.BET>
260118-05:55:15,589 nipype.workflow INFO:
[Node] Finished "EPI2MNI", elapsed time 125.986309s.
260118-05:55:17,952 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.EPI2MNI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spa
tialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..
func..sub-03_task-flanker_run-1_bold.nii.gz/EPI2MNI".
260118-05:55:17,993 nipype.workflow INFO:
[Node] Executing "EPI2MNI" <niworkflows.interfaces.repor
tlets.registration.SpatialNormalizationRPT>
260118-05:55:35,270 nipype.workflow INFO:
[Node] Finished "EPI2MNI", elapsed time 159.706914s.
260118-05:55:35,961 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.EPI2MNI" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spa
tialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..
func..sub-03_task-flanker_run-2_bold.nii.gz/EPI2MNI".
260118-05:55:35,973 nipype.workflow INFO:
[Node] Executing "EPI2MNI" <niworkflows.interfaces.repor
tlets.registration.SpatialNormalizationRPT>
260118-05:55:53,881 nipype.workflow INFO:
[Node] Finished "fsl_bet", elapsed time 104.183126s.
260118-05:55:55,998 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-1_bold.nii.gz/measures".
260118-05:55:56,19 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.functional.
FunctionalQC>
260118-05:55:57,288 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 1.260034s.
260118-05:55:58,18 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.sub
tract_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func.
.sub-01_task-flanker_run-1_bold.nii.gz/subtract_mask".
260118-05:55:58,21 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces.
morphology.BinarySubtraction>
260118-05:55:58,219 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.186483s.
260118-05:55:59,862 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.ResampleSegmentation" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000
102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.gz/ResampleSegmentation".
260118-05:55:59,870 nipype.workflow INFO:
[Node] Executing "ResampleSegmentation" <nipype.interfac
es.ants.resampling.ApplyTransforms>
260118-05:56:00,506 nipype.workflow INFO:
[Node] Finished "fsl_bet", elapsed time 114.762124s.
260118-05:56:02,100 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-2_bold.nii.gz/measures".
260118-05:56:02,131 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.functional
.FunctionalQC>
260118-05:56:03,68 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 0.935268s.
260118-05:56:03,600 nipype.workflow INFO:
[Node] Finished "ResampleSegmentation", elapsed time 3.7
282539999999997s.
260118-05:56:04,120 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.su
btract_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func
..sub-01_task-flanker_run-2_bold.nii.gz/subtract_mask".
260118-05:56:04,124 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces
.morphology.BinarySubtraction>
260118-05:56:04,124 nipype.workflow INFO:
[Node] Setting-up "mriqc_
wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..bo
oks..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.gz/ResampleSegm
entation".
260118-05:56:04,129 nipype.workflow INFO:
[Node] Executing "ResampleSegmentation" <nipy
pe.interfaces.ants.resampling.ApplyTransforms>
260118-05:56:04,142 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.016639s.
260118-05:56:05,917 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-1_bold.nii.gz/measures".
260118-05:56:05,935 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.functional
.FunctionalQC>
260118-05:56:06,804 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 0.868511s.
260118-05:56:06,884 nipype.workflow INFO:
[Node] Finished "ResampleSegmentation", elapsed time 2.7
54402s.
260118-05:56:07,852 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.su
btract_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func
..sub-02_task-flanker_run-1_bold.nii.gz/subtract_mask".
260118-05:56:07,855 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/wo
rkspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-1
_bold.nii.gz/ResampleSegmentation".
260118-05:56:07,867 nipype.workflow INFO:
[Node] Executing "ResampleSegmentation" <nipype.interfac
es.ants.resampling.ApplyTransforms>
260118-05:56:07,867 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces
.morphology.BinarySubtraction>
260118-05:56:07,887 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.018927s.
260118-05:56:10,77 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.measure
s" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-
flanker_run-2_bold.nii.gz/measures".
260118-05:56:10,111 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.functional
.FunctionalQC>
260118-05:56:10,396 nipype.workflow INFO:
[Node] Finished "ResampleSegmentation", elapsed time 2.5
19075s.
260118-05:56:11,240 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 1.120967s.
260118-05:56:12,131 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.su
btract_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func
..sub-02_task-flanker_run-2_bold.nii.gz/subtract_mask".
260118-05:56:12,133 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-1_bold.nii.gz/measures".
260118-05:56:12,136 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces
.morphology.BinarySubtraction>
260118-05:56:12,149 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.functional
.FunctionalQC>
260118-05:56:12,181 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.043527s.
260118-05:56:13,234 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 1.082897s.
260118-05:56:13,879 nipype.workflow INFO:
[Node] Finished "fsl_bet", elapsed time 118.163078s.
260118-05:56:14,104 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.su
btract_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func
..sub-03_task-flanker_run-1_bold.nii.gz/subtract_mask".
260118-05:56:14,104 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.measures" in "/home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..
examples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.nii.gz/measures".
260118
-05:56:14,107 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces.morph
ology.BinarySubtraction>
260118-05:56:14,115 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.functional
.FunctionalQC>
260118-05:56:14,126 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.018134s.
260118-05:56:14,830 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 0.713399s.
260118-05:56:16,77 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.sub
tract_mask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func.
.sub-03_task-flanker_run-2_bold.nii.gz/subtract_mask".
260118-05:56:16,78 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Plo
tHeadmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Repo
rtsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..
sub-01_T1w.nii.gz/PlotHeadmask".
260118-05:56:16,82 nipype.workflow INFO:
[Node] Executing "PlotHeadmask" <mriqc.interfaces.viz.Plo
tContours>
260118-05:56:16,83 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsW
orkflow.PlotHeadmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/ana
tMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub
-02..anat..sub-02_T1w.nii.gz/PlotHeadmask".
260118-05:56:16,86 nipype.workflow INFO:
[Node] Executing "PlotHeadmask" <mriqc.interfaces.viz.Plo
tContours>
260118-05:56:16,89 nipype.workflow INFO:
[Node] Executing "subtract_mask" <niworkflows.interfaces.
morphology.BinarySubtraction>
260118-05:56:16,143 nipype.workflow INFO:
[Node] Finished "subtract_mask", elapsed time 0.051926s.
260118-05:56:18,156 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otHeadmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat.
.sub-03_T1w.nii.gz/PlotHeadmask".
260118-05:56:18,160 nipype.workflow INFO:
[Node] Executing "PlotHeadmask" <mriqc.interfaces.viz.Pl
otContours>
260118-05:56:28,488 nipype.workflow INFO:
[Node] Finished "PlotHeadmask", elapsed time 12.405836s.
260118-05:56:29,334 nipype.workflow INFO:
[Node] Finished "PlotHeadmask", elapsed time 13.246527s.
260118-05:56:30,10 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.datasin
k" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task-
flanker_run-1_bold.nii.gz/datasink".
260118-05:56:30,65 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFil
eSink>
260118-05:56:30,76 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.005878s.
260118-05:56:30,403 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-01_task
-flanker_run-2_bold.nii.gz/datasink".
260118-05:56:30,403 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.pa
rcels" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-
01_task-flanker_run-1_bold.nii.gz/parcels".
260118-05:56:30,407 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wr
appers.Function>
260118-05:56:30,434 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-05:56:30,438 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.001171s.
260118-05:56:30,477 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.068385s.
260118-05:56:30,707 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.pa
rcels" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-
01_task-flanker_run-2_bold.nii.gz/parcels".
260118-05:56:30,712 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wr
appers.Function>
260118-05:56:30,767 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.053967s.
260118-05:56:32,6 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.datasink
" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/_
in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task-f
lanker_run-1_bold.nii.gz/datasink".
260118-05:56:32,22 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFil
eSink>
260118-05:56:32,24 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.001133s
.
260118-05:56:32,270 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02_task
-flanker_run-2_bold.nii.gz/datasink".
260118-05:56:32,278 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.pa
rcels" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-
02_task-flanker_run-1_bold.nii.gz/parcels".
260118-05:56:32,285 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wr
appers.Function>
260118-05:56:32,287 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-05:56:32,289 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.000851s.
260118-05:56:32,386 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.094432s.
260118-05:56:32,577 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-1_bold.nii.gz/datasink".
260118-05:56:32,603 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-05:56:32,605 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.000946s.
260118-05:56:32,847 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-03_task
-flanker_run-2_bold.nii.gz/datasink".
260118-05:56:32,862 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-05:56:32,864 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.00102s.
260118-05:56:33,88 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Big
Plot" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWo
rkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-0
1_task-flanker_run-1_bold.nii.gz/BigPlot".
260118-05:56:33,94 nipype.workflow INFO:
[Node] Executing "BigPlot" <niworkflows.interfaces.plotti
ng.FMRISummary>
260118-05:56:33,932 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Bi
gPlot" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-
01_task-flanker_run-2_bold.nii.gz/BigPlot".
260118-05:56:33,945 nipype.workflow INFO:
[Node] Executing "BigPlot" <niworkflows.interfaces.plott
ing.FMRISummary>
260118-05:56:37,64 nipype.workflow INFO:
[Node] Finished "PlotHeadmask", elapsed time 18.902691s.
260118-05:56:37,317 nipype.workflow INFO:
[Node] Finished "BigPlot", elapsed time 4.221007s.
260118-05:56:38,4 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.BigP
lot" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWor
kflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-02
_task-flanker_run-1_bold.nii.gz/BigPlot".
260118-05:56:38,10 nipype.workflow INFO:
[Node] Executin
g "BigPlot" <niworkflows.interfaces.plotting.FMRISummary>
260118-05:56:38,11 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.MergePlots" in "/home/jovyan/workspace/books/
examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspa
ce..books..examples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.gz/MergeP
lots".
260118-05:56:38,32 nipype.workflow INFO:
[Node] Finished "BigPlot", elapsed time 4.08529s.
260118-05:56:38,47 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility.
base.Merge>
260118-05:56:38,50 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time 0.000312s.
260118-05:56:39,996 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Me
rgePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..s
ub-01_task-flanker_run-2_bold.nii.gz/MergePlots".
260118-05:56:40,9 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility.b
ase.Merge>
260118-05:56:40,19 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time 0.000409s.
260118-05:56:40,20 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Gen
erateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func
..sub-01_task-flanker_run-1_bold.nii.gz/GenerateReport".
260118-05:56:40,27 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.repor
ts.IndividualReport>
260118-05:56:40,63 cli WARNING:
Building bold report: no exclude index was found
260118-05:56:40,339 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-1_bold.nii.gz/GenerateReport/sub-
01_task-flanker_run-1_bold.html
260118-05:56:40,340 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.312195s
.
260118-05:56:40,972 nipype.workflow INFO:
[Node] Finished "BigPlot", elapsed time 2.960381s.
260118-05:56:41,993 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-
01_task-flanker_run-1_bold.nii.gz/dsplots".
260118-05:56:42,5 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSink>
260118-05:56:42,10 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000826s.
260118-05:56:42,11 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Mer
gePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Report
sWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..su
b-02_task-flanker_run-1_bold.nii.gz/MergePlots".
260118-05:56:42,15 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Gen
erateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func
..sub-01_task-flanker_run-2_bold.nii.gz/GenerateReport".
260118-05:56:42,20 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.repor
ts.IndividualReport>
260118-05:56:42,21 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipyp
e.interfaces.utility.base.Merge>
260118-05:56:42,21 cli WARNING:
Building bold report: no exclude
index was found
260118-05:56:42,22 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed tim
e 0.000246s.
260118-05:56:42,87 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..exa
mples..workflows..ds000102..sub-01..func..sub-01_task-flanker_run-2_bold.nii.gz/GenerateReport/sub-0
1_task-flanker_run-2_bold.html
260118-05:56:42,89 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.068397s.
260118-05:56:43,860 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..func..sub-
01_task-flanker_run-2_bold.nii.gz/dsplots".
260118-05:56:43,862 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Ge
nerateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..fun
c..sub-02_task-flanker_run-1_bold.nii.gz/GenerateReport".
260118-05:56:43,865 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSin
k>
260118-05:56:43,866 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.r
eports.IndividualReport>
260118-05:56:43,866 nipype.workflow INFO:
[Node] Finished "dsplots", elap
sed time 0.000449s.
260118-05:56:43,923 cli WARNING:
Building bold report: no exclude index was found
260118-05:56:44,144 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-1_bold.nii.gz/GenerateReport/sub-
02_task-flanker_run-1_bold.html
260118-05:56:44,145 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.27902s.
260118-05:56:45,888 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-
02_task-flanker_run-1_bold.nii.gz/dsplots".
260118-05:56:45,894 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSin
k>
260118-05:56:45,896 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000514s.
260118-05:56:53,607 nipype.workflow INFO:
[Node] Finished "EPI2MNI", elapsed time 161.958956s.
260118-05:56:53,949 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.SpatialNormalizati
on.SpatialNormalization" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
anatMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000
102..sub-01..anat..sub-01_T1w.nii.gz/SpatialNormalization".
260118-05:56:53,950 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.ResampleSegmentation" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000
102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/ResampleSegmentation".
260118-05:56:53,953 nipype.workflow INFO:
[Node] Executing "SpatialNormalization" <niworkflows.int
erfaces.reportlets.registration.SpatialNormalizationRPT>
260118-05:56:53,957 nipype.workflow INFO:
[Node] Executing "ResampleSegmentation" <nipype.interfac
es.ants.resampling.ApplyTransforms>
260118-05:56:56,504 nipype.workflow INFO:
[Node] Finished "ResampleSegmentation", elapsed time 2.5
4498s.
260118-05:56:58,92 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.par
cels" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWo
rkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-0
2_task-flanker_run-2_bold.nii.gz/parcels".
260118-05:56:58,95 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wra
ppers.Function>
260118-05:56:58,154 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.053967s.
260118-05:56:59,949 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Bi
gPlot" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-
02_task-flanker_run-2_bold.nii.gz/BigPlot".
260118-05:56:59,961 nipype.workflow INFO:
[Node] Executing "BigPlot" <niworkflows.interfaces.plott
ing.FMRISummary>
260118-05:57:03,804 nipype.workflow INFO:
[Node] Finished "BigPlot", elapsed time 3.842486s.
260118-05:57:06,41 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Mer
gePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Report
sWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..su
b-02_task-flanker_run-2_bold.nii.gz/MergePlots".
260118-05:57:06,49 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility.
base.Merge>
260118-05:57:06,50 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time 0.000306s.
260118-05:57:08,2 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Gene
rateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Rep
ortsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func.
.sub-02_task-flanker_run-2_bold.nii.gz/GenerateReport".
260118-05:57:08,9 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.report
s.IndividualReport>
260118-05:57:08,13 cli WARNING:
Building bold report: no exclude index was found
260118-05:57:08,62 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..exa
mples..workflows..ds000102..sub-02..func..sub-02_task-flanker_run-2_bold.nii.gz/GenerateReport/sub-0
2_task-flanker_run-2_bold.html
260118-05:57:08,74 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.061466s.
260118-05:57:09,237 nipype.workflow INFO:
[Node] Finished "EPI2MNI", elapsed time 111.238805s.
260118-05:57:09,968 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..func..sub-
02_task-flanker_run-2_bold.nii.gz/dsplots".
260118-05:57:09,968 nipype.workflow INFO:
[Node] Setti
ng-up "mriqc_wf.anatMRIQC.SpatialNormalization.SpatialNormalization" in "/home/jovyan/workspace/book
s/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/SpatialNormalizatio
n".
260118-05:57:09,969 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizati
on.ResampleSegmentation" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000
102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/ResampleSegmentation".
260118-05:57:09,972
nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSink>
260118-05:57:09,973 nipype.workflow INFO:
[Node] Executing "SpatialNormalization" <niworkflows.int
erfaces.reportlets.registration.SpatialNormalizationRPT>
260118-05:57:09,973 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.00044s.
260118-05:57:09,974 nipype.workflow INFO:
[Node] Executing "ResampleSegmentation" <nipype.interfac
es.ants.resampling.ApplyTransforms>
260118-05:57:12,18 nipype.workflow INFO:
[Node] Finished "ResampleSegmentation", elapsed time 2.04
261s.
260118-05:57:13,994 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.pa
rcels" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-
03_task-flanker_run-1_bold.nii.gz/parcels".
260118-05:57:13,998 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wr
appers.Function>
260118-05:57:14,35 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.033349s.
260118-05:57:16,144 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Bi
gPlot" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-
03_task-flanker_run-1_bold.nii.gz/BigPlot".
260118-05:57:16,161 nipype.workflow INFO:
[Node] Executing "BigPlot" <niworkflows.interfaces.plott
ing.FMRISummary>
260118-05:57:19,436 nipype.workflow INFO:
[Node] Finished "BigPlot", elapsed time 3.274371s.
260118-05:57:20,10 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Mer
gePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Report
sWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..su
b-03_task-flanker_run-1_bold.nii.gz/MergePlots".
260118-05:57:20,19 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility.
base.Merge>
260118-05:57:20,20 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time 0.000274s.
260118-05:57:21,977 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Ge
nerateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..fun
c..sub-03_task-flanker_run-1_bold.nii.gz/GenerateReport".
260118-05:57:21,981 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.repo
rts.IndividualReport>
260118-05:57:21,984 cli WARNING:
Building bold report: no exclude index was found
260118-05:57:22,45 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..exa
mples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-1_bold.nii.gz/GenerateReport/sub-0
3_task-flanker_run-1_bold.html
260118-05:57:22,46 nipype.workflow INFO:
[Node] Finished "GenerateR
eport", elapsed time 0.063593s.
260118-05:57:24,36 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.dsp
lots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWo
rkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-0
3_task-flanker_run-1_bold.nii.gz/dsplots".
260118-05:57:24,39 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSink
>
260118-05:57:24,47 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000548s.
260118-05:57:57,723 nipype.workflow INFO:
[Node] Finished "EPI2MNI", elapsed time 141.748264s.
260118-05:57:58,12 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.SpatialNormalizatio
n.SpatialNormalization" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/a
natMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds0001
02..sub-03..anat..sub-03_T1w.nii.gz/SpatialNormalization".
260118-05:57:58,14 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalizatio
n.ResampleSegmentation" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/f
uncMRIQC/SpatialNormalization/_in_file_..home..jovyan..workspace..books..examples..workflows..ds0001
02..sub-03..func..sub-03_task-flanker_run-2_bold.nii.gz/ResampleSegmentation".
260118-05:57:58,17 nipype.workflow INFO:
[Node] Executing "SpatialNormalization" <niworkflows.inte
rfaces.reportlets.registration.SpatialNormalizationRPT>
260118-05:57:58,20 nipype.workflow INFO:
[Node] Executing "ResampleSegmentation" <nipype.interface
s.ants.resampling.ApplyTransforms>
260118-05:57:59,873 nipype.workflow INFO:
[Node] Finished "ResampleSegmentation", elapsed time 1.8
516110000000001s.
260118-05:58:02,114 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.pa
rcels" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-
03_task-flanker_run-2_bold.nii.gz/parcels".
260118-05:58:02,118 nipype.workflow INFO:
[Node] Executing "parcels" <nipype.interfaces.utility.wr
appers.Function>
260118-05:58:02,162 nipype.workflow INFO:
[Node] Finished "parcels", elapsed time 0.041776s.
260118-05:58:04,176 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Bi
gPlot" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-
03_task-flanker_run-2_bold.nii.gz/BigPlot".
260118-05:58:04,186 nipype.workflow INFO:
[Node] Execu
ting "BigPlot" <niworkflows.interfaces.plotting.FMRISummary>
260118-05:58:08,496 nipype.workflow INFO:
[Node] Finished "BigPlot", elapsed time 4.308955s.
260118-05:58:10,67 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Mer
gePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Report
sWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..su
b-03_task-flanker_run-2_bold.nii.gz/MergePlots".
260118-05:58:10,73 nipype.workflow INFO:
[Node] E
xecuting "MergePlots" <nipype.interfaces.utility.base.Merge>
260118-05:58:10,75 nipype.workflow INFO
:
[Node] Finished "MergePlots", elapsed time 0.0003s.
260118-05:58:12,75 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.Gen
erateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Re
portsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func
..sub-03_task-flanker_run-2_bold.nii.gz/GenerateReport".
260118-05:58:12,80 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.repor
ts.IndividualReport>
260118-05:58:12,81 cli WARNING:
Building bold report: no exclude index was fo
und
260118-05:58:12,140 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-03..func..sub-03_task-flanker_run-2_bold.nii.gz/GenerateReport/sub-
03_task-flanker_run-2_bold.html
260118-05:58:12,141 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.060234s
.
260118-05:58:14,83 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.funcMRIQC.ReportsWorkflow.dsp
lots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ReportsWo
rkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..func..sub-0
3_task-flanker_run-2_bold.nii.gz/dsplots".
260118-05:58:14,112 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSin
k>
260118-05:58:14,114 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000545s.
260118-05:58:38,518 nipype.workflow INFO:
[Node] Finished "SpatialNormalization", elapsed time 104
.563636s.
260118-05:58:40,210 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.in
vert_xfm" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMa
skWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..s
ub-01_T1w.nii.gz/invert_xfm".
260118-05:58:40,214 nipype.workflow INFO:
[Node] Executing "invert_xfm" <nipype.interfaces.ants.re
sampling.ApplyTransforms>
260118-05:58:42,193 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t10" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t10".
260118-05:58:42,193 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t11" in "/home
/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..h
ome..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/MNItpm
s2t1/mapflow/_MNItpms2t11".
260118-05:58:42,193 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2
t12" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQM
s/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w
.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12".
260118-05:58:42,196 nipype.workflow INFO:
[Node] Executi
ng "_MNItpms2t10" <nipype.interfaces.ants.resampling.ApplyTransforms>
260118-05:58:42,196 nipype.wor
kflow INFO:
[Node] Executing "_MNItpms2t11" <nipype.interfaces.ants.resampling.ApplyTransforms>
26
0118-05:58:42,197 nipype.workflow INFO:
[Node] Executing "_MNItpms2t12" <nipype.interfaces.ants.re
sampling.ApplyTransforms>
260118-05:58:45,127 nipype.workflow INFO:
[Node] Finished "_MNItpms2t12", elapsed time 2.928178s.
260118-05:58:45,588 nipype.workflow INFO:
[Node] Finished "_MNItpms2t10", elapsed time 3.390749s.
260118-05:58:45,846 nipype.workflow INFO:
[Node] Finished "_MNItpms2t11", elapsed time 3.648227s.
260118-05:58:46,84 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t10" in "/home/jovyan/workspa
ce/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..wo
rkspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/MNItpms2t1/mapflow/_M
NItpms2t10".
260118-05:58:46,85 nipype.workflow INFO:
[Node] Cached "_MNItpms2t10" - collecting precomputed out
puts
260118-05:58:46,86 nipype.workflow INFO:
[Node] "_MNItpms2t10" found cached.
260118-05:58:46,
86 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t11" in "/home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..
examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11".
260118-05:58:46,87 nipype.workflow INFO:
[Node] Cached "_MNItpms2t11" - collecting precomputed out
puts
260118-05:58:46,87 nipype.workflow INFO:
[Node] "_MNItpms2t11" found cached.
260118-05:58:46,
88 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t12" in "/home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..books..
examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12".
260118-05:58:46,89 nipype.workflow INFO:
[Node] Cached "_MNItpms2t12" - collecting precomputed out
puts
260118-05:58:46,89 nipype.workflow INFO:
[Node] "_MNItpms2t12" found cached.
260118-05:59:09,981 nipype.workflow INFO:
[Node] Finished "SpatialNormalization", elapsed time 120
.006527s.
260118-05:59:12,123 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.segmentation" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jo
vyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/segmentation"
.
260118-05:59:12,124 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.in
vert_xfm" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMa
skWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..s
ub-02_T1w.nii.gz/invert_xfm".
260118-05:59:12,130 nipype.workflow INFO:
[Node] Executing "invert_xfm" <nipype.interfaces.ants.re
sampling.ApplyTransforms>
260118-05:59:12,132 nipype.workflow INFO:
[Node] Executing "segmentation" <nipype.interfaces.fsl.p
reprocess.FAST>
260118-05:59:14,155 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t10" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t10".
260118-05:59:14,158 nipype.workflow INFO:
[Node] Executing "_MNItpms2t10" <nipype.interfaces.ants.
resampling.ApplyTransforms>
260118-05:59:14,162 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t11" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t11".
260118-05:59:14,171 nipype.workflow INFO:
[Node] Executing "_MNItpms2t11" <nipype.interfaces.ants.
resampling.ApplyTransforms>
260118-05:59:16,144 nipype.workflow INFO:
[Node] Finished "_MNItpms2t10", elapsed time 1.984316999
9999999s.
260118-05:59:16,993 nipype.workflow INFO:
[Node] Finished "_MNItpms2t11", elapsed time 2.819883s.
260118-05:59:18,104 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t12" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t12".
260118-05:59:18,109 nipype.workflow INFO:
[Node] Executing "_MNItpms2t12" <nipype.interfaces.ants.
resampling.ApplyTransforms>
260118-05:59:20,33 nipype.workflow INFO:
[Node] Finished "invert_xfm", elapsed time 39.818355s.
260118-05:59:20,608 nipype.workflow INFO:
[Node] Finished "_MNItpms2t12", elapsed time 2.496297s.
260118-05:59:22,143 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.Ar
tifactMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Air
MaskWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat.
.sub-01_T1w.nii.gz/ArtifactMask".
260118-05:59:22,151 nipype.workflow INFO:
[Node] Executing "ArtifactMask" <mriqc.interfaces.anatom
ical.ArtifactMask>
260118-05:59:22,154 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t10" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t10".
260118-05:59:22,157 nipype.workflow INFO:
[Node] Cached "_MNItpms2t10" - collecting precomputed ou
tputs
260118-05:59:22,157 nipype.workflow INFO:
[Node] "_MNItpms2t10" found cached.
260118-05:59:22,159 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t11" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t11".
260118-05:59:22,161 nipype.workflow INFO:
[Node] Cached "_MNItpms2t11" - collecting precomputed ou
tputs
260118-05:59:22,162 nipype.workflow INFO:
[Node] "_MNItpms2t11" found cached.
260118-05:59:22,163 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t12" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t12".
260118-05:59:22,165 nipype.workflow INFO:
[Node] Cached "_MNItpms2t12" - collecting precomputed ou
tputs
260118-05:59:22,166 nipype.workflow INFO:
[Node] "_MNItpms2t12" found cached.
260118-05:59:29,139 nipype.workflow INFO:
[Node] Finished "ArtifactMask", elapsed time 6.986429s.
260118-05:59:29,169 nipype.workflow INFO:
[Node] Finished "SpatialNormalization", elapsed time 91.
15016s.
260118-05:59:30,168 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.in
vert_xfm" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMa
skWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..s
ub-03_T1w.nii.gz/invert_xfm".
260118-05:59:30,177 nipype.workflow INFO:
[Node] Executing "invert_x
fm" <nipype.interfaces.ants.resampling.ApplyTransforms>
260118-05:59:30,180 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1
w.nii.gz/provenance".
260118-05:59:30,186 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-05:59:30,426 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.237602s.
260118-05:59:30,682 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.Comput
eQI2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1
w.nii.gz/ComputeQI2".
260118-05:59:30,683 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMR
IQC.ReportsWorkflow.PlotAirmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds
000102..sub-01..anat..sub-01_T1w.nii.gz/PlotAirmask".
260118-05:59:30,684 nipype.workflow INFO:
[N
ode] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.PlotArtmask" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace
..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/PlotArtmask".
260118-05:59:30,688 nipype.workflow INFO:
[Node] Executing "ComputeQI2" <mriqc.interfaces.anatomic
al.ComputeQI2>
260118-05:59:30,689 nipype.workflow INFO:
[Node] Executing "PlotAirmask" <mriqc.int
erfaces.viz.PlotContours>
260118-05:59:30,690 nipype.workflow INFO:
[Node] Executing "PlotArtmask"
<mriqc.interfaces.viz.PlotContours>
260118-05:59:36,709 nipype.workflow INFO:
[Node] Finished "PlotArtmask", elapsed time 6.016508s.
260118-05:59:38,180 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t10" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t10".
260118-05:59:38,200 nipype.workflow INFO:
[Node] Executing "_MNItpms2t10" <nipype.interfaces.ants.
resampling.ApplyTransforms>
260118-05:59:40,329 nipype.workflow INFO:
[Node] Finished "_MNItpms2t10", elapsed time 2.127062s.
260118-05:59:42,196 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t11" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t11".
260118-05:59:42,204 nipype.workflow INFO:
[Node] Executing "_MNItpms2t11" <nipype.interfaces.ants.
resampling.ApplyTransforms>
260118-05:59:43,991 nipype.workflow INFO:
[Node] Finished "_MNItpms2t11", elapsed time 1.785291s.
260118-05:59:44,120 nipype.workflow INFO:
[Node] Finished "PlotAirmask", elapsed time 13.428855s.
260118-05:59:46,185 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t12" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t12".
260118-05:59:46,192 nipype.workflow INFO:
[Node] Executing "_MNItpms2t12" <nipype.interfaces.ants.
resampling.ApplyTransforms>
260118-05:59:47,566 nipype.workflow INFO:
[Node] Finished "ComputeQI2", elapsed time 16.870485s.
260118-05:59:48,427 nipype.workflow INFO:
[Node] Finished "_MNItpms2t12", elapsed time 2.232234s.
260118-05:59:50,206 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t10" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..w
orkspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/MNItpms2t1/mapflow/_
MNItpms2t10".
260118-05:59:50,208 nipype.workflow INFO:
[Node] Cached "_MNItpms2t10" - collecting precomputed ou
tputs
260118-05:59:50,209 nipype.workflow INFO:
[Node] "_MNItpms2t10" found cached.
260118-05:59:5
0,211 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t11" in "/home/jovyan/workspace/books/exam
ples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..book
s..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t11".
260118-05:59:50,213 nipype.workflow INFO:
[Node] Cached "_MNItpms2t11" - collecting precomputed ou
tputs
260118-05:59:50,213 nipype.workflow INFO:
[Node] "_MNItpms2t11" found cached.
260118-05:59:5
0,215 nipype.workflow INFO:
[Node] Setting-up "_MNItpms2t12" in "/home/jovyan/workspace/books/exam
ples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..home..jovyan..workspace..book
s..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/MNItpms2t1/mapflow/_MNItpms2t12".
260118-05:59:50,217 nipype.workflow INFO:
[Node] Cached "_MNItpms2t12" - collecting precomputed ou
tputs
260118-05:59:50,217 nipype.workflow INFO:
[Node] "_MNItpms2t12" found cached.
260118-05:59:50,642 nipype.workflow INFO:
[Node] Finished "invert_xfm", elapsed time 38.510313s.
260118-05:59:52,188 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.Ar
tifactMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Air
MaskWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat.
.sub-02_T1w.nii.gz/ArtifactMask".
260118-05:59:52,200 nipype.workflow INFO:
[Node] Executing "ArtifactMask" <mriqc.interfaces.anatom
ical.ArtifactMask>
260118-05:59:58,306 nipype.workflow INFO:
[Node] Finished "ArtifactMask", elapsed time 6.105069s.
260118-06:00:00,158 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1
w.nii.gz/provenance".
260118-06:00:00,165 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-06:00:00,386 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.219619s.
260118-06:00:00,592 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.Comput
eQI2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1
w.nii.gz/ComputeQI2".
260118-06:00:00,594 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otAirmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Repo
rtsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..
sub-02_T1w.nii.gz/PlotAirmask".
260118-06:00:00,595 nipype.workflow INFO:
[Node] Setting-up "mriqc
_wf.anatMRIQC.ReportsWorkflow.PlotArtmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC
_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..wor
kflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/PlotArtmask".
260118-06:00:00,598 nipype.workflow INFO:
[Node] Executing "ComputeQI2" <mriqc.interfaces.anatomic
al.ComputeQI2>
260118-06:00:00,598 nipype.workflow INFO:
[Node] Executing "PlotArtmask" <mriqc.int
erfaces.viz.PlotContours>
260118-06:00:00,601 nipype.workflow INFO:
[Node] Executing "PlotAirmask"
<mriqc.interfaces.viz.PlotContours>
260118-06:00:06,235 nipype.workflow INFO:
[Node] Finished "invert_xfm", elapsed time 36.054913s.
260118-06:00:08,145 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.AirMaskWorkflow.Ar
tifactMask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Air
MaskWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat.
.sub-03_T1w.nii.gz/ArtifactMask".
260118-06:00:08,153 nipype.workflow INFO:
[Node] Executing "ArtifactMask" <mriqc.interfaces.anatom
ical.ArtifactMask>
260118-06:00:10,435 nipype.workflow INFO:
[Node] Finished "PlotArtmask", elapsed time 9.83598s.
260118-06:00:14,967 nipype.workflow INFO:
[Node] Finished "PlotAirmask", elapsed time 14.364055s.
260118-06:00:16,627 nipype.workflow INFO:
[Node] Finished "ArtifactMask", elapsed time 8.472541s.
260118-06:00:18,222 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.proven
ance" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1
w.nii.gz/provenance".
260118-06:00:18,230 nipype.workflow INFO:
[Node] Executing "provenance" <mriqc.interfaces.reports.
AddProvenance>
260118-06:00:18,466 nipype.workflow INFO:
[Node] Finished "provenance", elapsed time 0.233777s.
260118-06:00:18,523 nipype.workflow INFO:
[Node] Finished "ComputeQI2", elapsed time 17.922915s.
260118-06:00:18,698 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.Comput
eQI2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQ
Ms/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1
w.nii.gz/ComputeQI2".
260118-06:00:18,705 nipype.workflow INFO:
[Node] Executing "ComputeQI2" <mri
qc.interfaces.anatomical.ComputeQI2>
260118-06:00:18,711 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otAirmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Repo
rtsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..
sub-03_T1w.nii.gz/PlotAirmask".
260118-06:00:18,711 nipype.workflow INFO:
[Node] Setting-up "mriqc
_wf.anatMRIQC.ReportsWorkflow.PlotArtmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC
_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..wor
kflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/PlotArtmask".
260118-06:00:18,718 nipype.workflow
INFO:
[Node] Executing "PlotAirmask" <mriqc.interfaces.viz.PlotContours>
260118-06:00:18,719 nipyp
e.workflow INFO:
[Node] Executing "PlotArtmask" <mriqc.interfaces.viz.PlotContours>
260118-06:00:28,846 nipype.workflow INFO:
[Node] Finished "PlotAirmask", elapsed time 10.126004s.
260118-06:00:32,414 nipype.workflow INFO:
[Node] Finished "PlotArtmask", elapsed time 13.693798s.
260118-06:00:38,286 nipype.workflow INFO:
[Node] Finished "ComputeQI2", elapsed time 19.579033s.
260118-06:00:40,205 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.segmentation" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jo
vyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/segmentation"
.
260118-06:00:40,212 nipype.workflow INFO:
[Node] Executing "segmentation" <nipype.interfaces.fsl
.preprocess.FAST>
260118-06:04:12,318 nipype.workflow INFO:
[Node] Finished "segmentation", elapsed time 300.180606s
.
260118-06:04:14,674 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.segmentation" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_in_file_..home..jo
vyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/segmentation"
.
260118-06:04:14,703 nipype.workflow INFO:
[Node] Executing "segmentation" <nipype.interfaces.fsl.p
reprocess.FAST>
260118-06:05:52,828 nipype.workflow INFO:
[Node] Finished "segmentation", elapsed time 312.612973s
.
260118-06:05:54,771 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.harmon
ize" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQM
s/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w
.nii.gz/harmonize".
260118-06:05:54,773 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otSegmentation" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..a
nat..sub-02_T1w.nii.gz/PlotSegmentation".
260118-06:05:54,773 nipype.workflow INFO:
[Node] Setting
-up "mriqc_wf.anatMRIQC.ReportsWorkflow.PlotSegmentation" in "/home/jovyan/workspace/books/examples/
workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books
..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/PlotSegmentation".
260118-06:05:54,
775 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.harmonize" in "/home/j
ovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_in_file_..hom
e..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/harmoniz
e".
260118-06:05:54,785 nipype.workflow INFO:
[Node] Executing "PlotSegmentation" <mriqc.interfaces.vi
z.PlotContours>
260118-06:05:54,795 nipype.workflow INFO:
[Node] Executing "PlotSegmentation" <mriqc.interfaces.vi
z.PlotContours>
260118-06:05:54,795 nipype.workflow INFO:
[Node] Executing "harmonize" <mriqc.interfaces.anatomica
l.Harmonize>
260118-06:05:54,798 nipype.workflow INFO:
[Node] Executing "harmonize" <mriqc.interfaces.anatomica
l.Harmonize>
260118-06:05:56,975 nipype.workflow INFO:
[Node] Finished "harmonize", elapsed time 2.177248s.
260118-06:05:57,80 nipype.workflow INFO:
[Node] Finished "harmonize", elapsed time 2.280159s.
260118-06:05:58,694 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.
nii.gz/measures".
260118-06:05:58,697 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.
nii.gz/measures".
260118-06:05:58,710 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.anatomical
.StructuralQC>
260118-06:05:58,720 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.anatomical
.StructuralQC>
260118-06:06:07,254 nipype.workflow INFO:
[Node] Finished "PlotSegmentation", elapsed time 12.4663
86s.
260118-06:06:08,57 nipype.workflow INFO:
[Node] Finished "PlotSegmentation", elapsed time 13.25888
3s.
260118-06:06:08,693 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Me
rgePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..s
ub-01_T1w.nii.gz/MergePlots".
260118-06:06:08,701 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Me
rgePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..s
ub-02_T1w.nii.gz/MergePlots".
260118-06:06:08,714 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility
.base.Merge>
260118-06:06:08,716 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time 0.000781s.
260118-06:06:08,724 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility
.base.Merge>
260118-06:06:08,726 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time 0.000394s.
260118-06:06:12,735 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 14.021987s.
260118-06:06:14,696 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.
nii.gz/datasink".
260118-06:06:14,716 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-06:06:14,721 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.002211s.
260118-06:06:16,688 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Ge
nerateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..ana
t..sub-01_T1w.nii.gz/GenerateReport".
260118-06:06:16,702 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.repo
rts.IndividualReport>
260118-06:06:17,16 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 18.292529s.
260118-06:06:17,151 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz/GenerateReport/sub-01_T1w.html
260118-06:06:17,154 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.448233s
.
260118-06:06:18,740 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.
nii.gz/datasink".
260118-06:06:18,758 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-06:06:18,762 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.001742s.
260118-06:06:18,961 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-
01_T1w.nii.gz/dsplots".
260118-06:06:18,970 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSin
k>
260118-06:06:18,972 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000813s.
260118-06:06:20,738 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Ge
nerateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..ana
t..sub-02_T1w.nii.gz/GenerateReport".
260118-06:06:20,747 nipype.workflow INFO:
[Node] Executing "
GenerateReport" <mriqc.interfaces.reports.IndividualReport>
260118-06:06:21,11 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..exa
mples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz/GenerateReport/sub-02_T1w.html
260118-06:06:21,13 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.264578s.
260118-06:06:22,690 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-
02_T1w.nii.gz/dsplots".
260118-06:06:22,696 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSin
k>
260118-06:06:22,697 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000626s.
260118-06:09:26,45 nipype.workflow INFO:
[Node] Finished "segmentation", elapsed time 311.336605s.
260118-06:09:26,880 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.harmon
ize" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQM
s/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w
.nii.gz/harmonize".
260118-06:09:26,881 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Pl
otSegmentation" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC
/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..a
nat..sub-03_T1w.nii.gz/PlotSegmentation".
260118-06:09:26,893 nipype.workflow INFO:
[Node] Executing "PlotSegmentation" <mriqc.interfaces.vi
z.PlotContours>
260118-06:09:26,894 nipype.workflow INFO:
[Node] Executing "harmonize" <mriqc.interfaces.anatomica
l.Harmonize>
260118-06:09:29,86 nipype.workflow INFO:
[Node] Finished "harmonize", elapsed time 2.189968s.
260118-06:09:30,950 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.measur
es" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.
nii.gz/measures".
260118-06:09:30,968 nipype.workflow INFO:
[Node] Executing "measures" <mriqc.interfaces.anatomical
.StructuralQC>
260118-06:09:38,642 nipype.workflow INFO:
[Node] Finished "PlotSegmentation", elapsed time 11.7475
94s.
260118-06:09:38,893 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Me
rgePlots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Repor
tsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..s
ub-03_T1w.nii.gz/MergePlots".
260118-06:09:38,908 nipype.workflow INFO:
[Node] Executing "MergePlots" <nipype.interfaces.utility
.base.Merge>
260118-06:09:38,910 nipype.workflow INFO:
[Node] Finished "MergePlots", elapsed time
0.000479s.
260118-06:09:46,367 nipype.workflow INFO:
[Node] Finished "measures", elapsed time 15.397302s.
260118-06:09:46,896 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.datasi
nk" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs
/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.
nii.gz/datasink".
260118-06:09:46,906 nipype.workflow INFO:
[Node] Executing "datasink" <mriqc.interfaces.bids.IQMFi
leSink>
260118-06:09:46,908 nipype.workflow INFO:
[Node] Finished "datasink", elapsed time 0.001041s.
260118-06:09:48,899 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.Ge
nerateReport" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/R
eportsWorkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..ana
t..sub-03_T1w.nii.gz/GenerateReport".
260118-06:09:48,910 nipype.workflow INFO:
[Node] Executing "GenerateReport" <mriqc.interfaces.repo
rts.IndividualReport>
260118-06:09:49,116 cli INFO:
Generated individual log: /home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsWorkflow/_in_file_..home..jovyan..workspace..books..ex
amples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz/GenerateReport/sub-03_T1w.html
260118-06:09:49,118 nipype.workflow INFO:
[Node] Finished "GenerateReport", elapsed time 0.205568s
.
260118-06:09:50,899 nipype.workflow INFO:
[Node] Setting-up "mriqc_wf.anatMRIQC.ReportsWorkflow.ds
plots" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ReportsW
orkflow/_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-
03_T1w.nii.gz/dsplots".
260118-06:09:50,903 nipype.workflow INFO:
[Node] Executing "dsplots" <nipype.interfaces.io.DataSin
k>
260118-06:09:50,905 nipype.workflow INFO:
[Node] Finished "dsplots", elapsed time 0.000418s.
260118-06:09:52,915 cli IMPORTANT:
Participant level finished successfully.
260118-06:09:52,915 cl
i INFO:
Generating BIDS derivatives metadata.
260118-06:09:52,916 cli INFO:
MRIQC completed.
You are using MRIQC v22.0.6, and a newer version is available: 24.0.2.
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Group-level Analysis#
%%bash
# Exit immediately if a command fails
set -e
mriqc ds000102 \
MRIQC \
group \
--no-sub \
--work-dir MRIQC_workdir \
--nprocs 6 \
--mem-gb 10 \
--verbose-reports \
-v
You are using MRIQC v22.0.6, and a newer version is available: 24.0.2.
MRIQC Visual Reports#
MRIQC automatically generates individual and group-level reports to support the quality assessment of MRI data.
Individual reports include mosaic views of anatomical or functional images along various cutting planes, along with overlays like segmentation contours or motion estimates. These visuals help quickly screen for artifacts or other issues. They are especially useful for reviewing images that may have been flagged as low-quality by the automated classifier.
Group reports compile quality metrics across all subjects and display interactive scatter plots for each image quality metric (IQM). These plots make it easy to spot outliers—clicking on any point in the scatter plot refers to the corresponding individual report for that subject.
These embedded reports offer an intuitive way to explore quality metrics and support decisions about excluding or further examining specific runs or subjects.
Anatomical Report#
%%capture
! pip install beautifulsoup4
from bs4 import BeautifulSoup, element, Doctype
from IPython.display import HTML, display
with open('./MRIQC/sub-01_T1w.html') as f:
soup = BeautifulSoup(f, 'html.parser')
# Remove scripts and interactive elements
for tag in soup(['script', 'style', 'button', 'nav', 'head']):
tag.decompose()
with open("./soup.txt", "w") as f:
f.write(str(soup))
# print(str(soup))
display(HTML(str(soup)))
MRIQC: individual T1w report
Summary
- BIDS filename: sub-01_T1w.
- Date and time: 2026-01-18, 06:06.
- MRIQC version: 22.0.6.
- Workflow details:
- Detected a zero-filled frame, has the original image been rotated?
Visual reports
Zoomed-in (brain mask)
Background noise
Approximate spatial normalization
Brain mask
Brain tissue segmentation
Artifacts in background
Head outline
"Hat" mask
Distribution of the noise in the background
Other
For details on the IQMs (image quality metrics) and further information on the enclosed plots, please read the documentation.
Functional Report#
with open('./MRIQC/sub-02_task-flanker_run-1_bold.html') as f:
soup = BeautifulSoup(f, 'html.parser')
for tag in soup(['script', 'style', 'button', 'nav', 'head']):
tag.decompose()
display(HTML(str(soup)))
MRIQC: individual bold report
Summary
- BIDS filename: sub-02_task-flanker_run-1_bold.
- Date and time: 2026-01-18, 05:56.
- MRIQC version: 22.0.6.
- Workflow details:
- Framewise Displacement was computed using
3dvolreg(AFNI) - Framewise Displacement threshold was defined at 0.200000 mm
- Framewise Displacement was computed using
Visual reports
BOLD average
Standard deviation map
FMRI summary plot
Zoomed-in BOLD average
Background noise
Calculated brain mask
Approximate spatial normalization
Other
For details on the IQMs (image quality metrics) and further information on the enclosed plots, please read the documentation.
Group functional report#
with open('./MRIQC/group_bold.html', 'r') as f:
html = f.read()
display(HTML(html))
MRIQC: group bold report
Summary
- Date and time: 2026-01-18, 06:10.
- MRIQC version: 22.0.6.
Dependencies in Jupyter/Python#
Using the package watermark to document system environment and software versions used in this notebook
%load_ext watermark
%watermark
%watermark --iversions
Last updated: 2026-01-18T06:10:08.227432+00:00
Python implementation: CPython
Python version : 3.13.9
IPython version : 9.7.0
Compiler : GCC 14.3.0
OS : Linux
Release : 5.15.0-151-generic
Machine : x86_64
Processor : x86_64
CPU cores : 32
Architecture: 64bit
IPython: 9.7.0
bs4 : 4.14.3