MRIQC#
Author: Monika Doerig
Date: 6 May 2025
License:
Note: If this notebook uses neuroimaging tools from Neurocontainers, those tools retain their original licenses. Please see Neurodesk citation guidelines for details.
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
Introduction#
In this notebook, we demonstrate the use of MRIQC for automated MRI quality assessment and include examples of the visual reports generated. By the end of this notebook, you will be able to:
Run MRIQC at the single-participant level
Run MRIQC at the group level
MRIQC is an open-source tool that extracts no-reference image quality metrics (IQMs) from structural (T1w and T2w), functional, and diffusion MRI data. It follows the Brain Imaging Data Structure (BIDS) standard and is built on a modular nipype workflow, integrating tools such as ANTs and AFNI while keeping preprocessing minimal to preserve the integrity of the original data. Reliability is continuously validated against diverse datasets to ensure robustness across varying acquisition parameters and subject populations.
Note: This notebook assumes your data is already in BIDS format. If you are running on an HPC, note that MRIQC has its
$HOMEvariable hardcoded to/home/mriqc, which can cause problems on some systems. Run this before MRIQC:
export neurodesk_singularity_opts="--home $HOME:/home"
Load MRIQC and import python libraries#
%%capture
! pip install beautifulsoup4
from bs4 import BeautifulSoup
from IPython.display import HTML, display
import os
import module
await module.load('mriqc/24.0.2')
await module.list()
['mriqc/24.0.2']
!mriqc -h
usage: mriqc [-h] [--version] [-v] [--species {human,rat}]
[--participant-label PARTICIPANT_LABEL [PARTICIPANT_LABEL ...]]
[--bids-filter-file PATH] [--session-id [SESSION_ID ...]]
[--run-id [RUN_ID ...]] [--task-id [TASK_ID ...]]
[-m [{T1w,T2w,bold,dwi} ...]] [--dsname DSNAME]
[--bids-database-dir PATH] [--bids-database-wipe]
[--no-datalad-get] [--nprocs NPROCS]
[--omp-nthreads OMP_NTHREADS] [--mem MEMORY_GB] [--testing] [-f]
[--pdb] [-w WORK_DIR] [--verbose-reports] [--reports-only]
[--write-graph] [--dry-run] [--resource-monitor]
[--use-plugin USE_PLUGIN] [--crashfile-format {txt,pklz}]
[--no-sub] [--email EMAIL] [--webapi-url WEBAPI_URL]
[--webapi-port WEBAPI_PORT] [--upload-strict] [--notrack]
[--ants-float] [--ants-settings ANTS_SETTINGS]
[--min-dwi-length MIN_LEN_DWI] [--min-bold-length MIN_LEN_BOLD]
[--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 24.1.0.dev0+gd5b13cb5.d20240826 Automated Quality Control and visual
reports for Quality Assessment 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.
options:
-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)
--bids-filter-file PATH
a JSON file describing custom BIDS input filter using
pybids {<suffix>:{<entity>:<filter>,...},...}
(https://github.com/bids-standard/pybids/blob/master/b
ids/layout/config/bids.json) (default: None)
--session-id [SESSION_ID ...]
Filter input dataset by session ID. (default: None)
--run-id [RUN_ID ...]
DEPRECATED - This argument will be disabled. Use
``--bids-filter-file`` instead. (default: None)
--task-id [TASK_ID ...]
Filter input dataset by task ID. (default: None)
-m [{T1w,T2w,bold,dwi} ...], --modalities [{T1w,T2w,bold,dwi} ...]
Filter input dataset by MRI type. (default: ('T1w',
'T2w', 'bold', 'dwi'))
--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)
--bids-database-wipe Wipe out previously existing BIDS indexing caches,
forcing re-indexing. (default: False)
--no-datalad-get Disable attempting to get remote files in DataLad
datasets. (default: True)
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
performance). (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
--reports-only
--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)
--crashfile-format {txt,pklz}
Nipype crashfile format (default: txt)
--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)
--notrack Opt-out of sending tracking information of this run to
the NiPreps developers. This information helps to
improve MRIQC and provides an indicator of real world
usage crucial for obtaining funding. (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)
Diffusion MRI workflow configuration:
--min-dwi-length MIN_LEN_DWI
Drop DWI runs with fewer orientations than this
threshold. (default: 7)
Functional MRI workflow configuration:
--min-bold-length MIN_LEN_BOLD
Drop BOLD runs with fewer time points than this
threshold. (default: 5)
--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-03/a .. 3_T1w.nii.gz: 0%| | 0.00/10.7M [00:00<?, ? Bytes/s]
Total: 72%|████████████████████ | 147M/204M [00:18<00:07, 8.07M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 0%| | 0.00/28.8M [00:00<?, ? Bytes/s]
Get sub-03/f .. _bold.nii.gz: 11%|▎ | 3.15M/28.8M [00:00<00:01, 15.0M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 16%|▍ | 4.69M/28.8M [00:00<00:01, 12.2M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 25%|▋ | 7.18M/28.8M [00:00<00:01, 12.0M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 30%|▉ | 8.59M/28.8M [00:00<00:01, 12.5M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 35%|█ | 10.0M/28.8M [00:00<00:01, 12.7M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 40%|█▏ | 11.5M/28.8M [00:00<00:01, 13.2M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 47%|█▍ | 13.5M/28.8M [00:01<00:01, 11.6M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 56%|█▋ | 16.0M/28.8M [00:01<00:01, 11.7M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 64%|█▉ | 18.3M/28.8M [00:01<00:00, 11.4M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 72%|██▏| 20.7M/28.8M [00:01<00:00, 11.4M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 80%|██▍| 23.1M/28.8M [00:01<00:00, 11.3M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 88%|██▋| 25.4M/28.8M [00:02<00:00, 11.1M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 97%|██▉| 27.9M/28.8M [00:02<00:00, 11.4M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 0%| | 0.00/28.8M [00:00<?, ? Bytes/s]
Get sub-03/f .. _bold.nii.gz: 0%| | 0.00/28.8M [00:00<?, ? Bytes/s]
Get sub-03/f .. _bold.nii.gz: 10%|▎ | 2.95M/28.8M [00:00<00:01, 14.8M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 16%|▍ | 4.59M/28.8M [00:00<00:02, 11.0M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 21%|▋ | 6.14M/28.8M [00:00<00:01, 12.3M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 30%|▉ | 8.58M/28.8M [00:00<00:01, 11.9M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 36%|█ | 10.3M/28.8M [00:00<00:01, 10.5M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 43%|█▎ | 12.4M/28.8M [00:01<00:01, 10.2M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 51%|█▌ | 14.6M/28.8M [00:01<00:01, 10.3M Bytes/s]
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Get sub-03/f .. _bold.nii.gz: 65%|█▉ | 18.6M/28.8M [00:01<00:01, 9.89M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 73%|██▏| 20.9M/28.8M [00:01<00:00, 10.2M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 81%|██▍| 23.2M/28.8M [00:02<00:00, 10.5M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 89%|██▋| 25.8M/28.8M [00:02<00:00, 10.9M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 97%|██▉| 28.0M/28.8M [00:02<00:00, 9.70M Bytes/s]
Get sub-03/f .. _bold.nii.gz: 0%| | 0.00/28.8M [00:00<?, ? Bytes/s]
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-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-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-02 (directory)
get(ok): sub-01 (directory)
get(ok): sub-03 (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
------------------------------------------------------------------
Running MRIQC version 24.1.0.de
v0+gd5b13cb5.d20240826
----------------------------------------------------------------
NOTICE
Copyright © The NiPreps Developers.
This product includes software developed by
the NiPrep
s Community (https://nipreps.org/).
Portions of this software were developed at the Department
of
Psychology at Stanford University, Stanford, CA, US.
This software contains code ultimatel
y derived from the
PCP Quality Assessment Protocol (QAP;
http://preprocessed-connectomes-project
.org/quality-assessment-protocol)
by C. Craddock, S. Giavasis, D. Clark, Z. Shezhad, and J. Pellma
n.
This software is also distributed as a Docker container image.
The bootstrapping file for
the image ("Dockerfile") is licensed
under the MIT License.
-----------------------------------
-----------------------------
* BIDS dataset path: /home/jovyan/workspace/books/examples/workflow
s/ds000102.
* Output folder: MRIQC.
* Analysis levels: ['participant'].
------------------------
------------------------------------------
2026-04-09 04:08:09 | IMPORTANT | mriqc | DataLad dataset
identified, attempting to `datalad get` unavailable files.
action summary:
get (notneeded: 9)
2026-04-09 04:08:11 | IMPORTANT | mriqc
| Extracting metadata and entities for 3 input runs of modality 't1w'...
2026-04-09 04:08:11 | IMPORTANT | mriqc | File size ('t1w
'): 0.01|0.01 GB [maximum|average].
2026-04-09 04:08:11 | IMPORTANT | mriqc | Extracting meta
data and entities for 6 input runs of modality 'bold'...
2026-04-09 04:08:11 | IMPORTANT | mriqc | File size ('bol
d'): 0.03|0.03 GB [maximum|average].
2026-04-09 04:08:11 | INFO | mriqc | MRIQC config fil
e: /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/config-20260409-040805_d56f53c2-160
c-443a-a4e4-37924383d38b.toml.
2026-04-09 04:08:23 | INFO | matplotlib.font_manager | generated
new fontManager
2026-04-09 04:08:28 | IMPORTANT | mriqc | Building MRIQC'
s workflows...
2026-04-09 04:08:30 | INFO | nipype.workflow | Building functio
nal MRIQC workflow for 6 BOLD runs..
2026-04-09 04:08:32 | INFO | nipype.workflow | Building anatomi
cal MRIQC workflow for 3 NIfTI files..
2026-04-09 04:08:40 | IMPORTANT | mriqc | Workflow buildi
ng finished (exit code 0).
2026-04-09 04:08:47 | INFO | nipype.workflow | Workflow mriqc_w
f settings: ['check', 'execution', 'logging', 'monitoring']
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.conform" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mri
qc_wf/anatMRIQC/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.
009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/conform".
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.conform" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mri
qc_wf/anatMRIQC/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.
00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/conform".
2026-04-09 04:08:48 | INFO
| nipype.workflow | [Node] Setting-up "mriqc_wf.anatMRIQC.conform" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/_entities_subject03
.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflo
ws..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.
NumberOfVolumes1/conform".
2026-04-09 04:08:48 | INFO | nipype.workflow
| [Node] Executing "conform" <mriqc.interfaces.common.conform_image.ConformImage>
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-u
p "_provenance0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/provenance/mapflow/_provenance0".
2026-04
-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-up "mriq
c_wf.funcMRIQC.pick_echo" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf
/funcMRIQC/638fdb324f8e2f95caebb232802d9e85ac60de52/pick_echo".
2026-04-09 04:08:48 | IN
FO | nipype.workflow | [Node] Executing "_provenance0" <mriqc.interface
s.reports.AddProvenance>
2026-04-09 04:08:48 | INFO | nipype.workflow
[0m| [Node] Executing "conform" <mriqc.interfaces.common.conform_image.ConformImage>
202
6-04-09 04:08:48 | INFO | nipype.workflow | [Node] Executing "c
onform" <mriqc.interfaces.common.conform_image.ConformImage>
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Executing
"pick_echo" <mriqc.interfaces.functional.SelectEcho>
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Finished
"pick_echo", elapsed time 0.000835s.
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Finished
"_provenance0", elapsed time 0.090058s.
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-u
p "_provenance0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/provenance/mapflow/_provenance0".
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.pick_echo" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/881c1637a95c5470a9299f17894e4fc970c98b2a/pick_echo".
2026-04-09 04:08:48 |34
;20m INFO | nipype.workflow | [Node] Executing "_provenance0" <mriqc.in
terfaces.reports.AddProvenance>
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Executing
"pick_echo" <mriqc.interfaces.functional.SelectEcho>
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Finished
"pick_echo", elapsed time 0.000615s.
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Finished
"_provenance0", elapsed time 0.078086s.
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.pick_echo" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/f726dd545bccfac02a8ae8e2a462a8ed07117e50/pick_echo".
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Executing
"pick_echo" <mriqc.interfaces.functional.SelectEcho>
2026-04-09 04:08:48 | INFO | nipype.workflow | [Node] Finished
"pick_echo", elapsed time 0.000476s.
2026-04-09 04:08:49 | INFO | nipype.workflow | [Node] Finished
"conform", elapsed time 0.739039s.
2026-04-09 04:08:49 | INFO | nipype.workflow | [Node] Finished
"conform", elapsed time 1.124644s.
2026-04-09 04:08:49 | INFO | nipype.workflow | [Node] Finished
"conform", elapsed time 1.240238s.
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Setting-u
p "_provenance0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/provenance/mapflow/_provenance0".
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Executing
"_provenance0" <mriqc.interfaces.reports.AddProvenance>
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Finished
"_provenance0", elapsed time 0.095238s.
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.pick_echo" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/pick_echo".
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Setting-u
p "_provenance0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/provenance/mapflow/_provenance0".
2026-04
-09 04:08:50 | INFO | nipype.workflow | [Node] Executing "_prov
enance0" <mriqc.interfaces.reports.AddProvenance>
2026-04-09 04:08:50 | INFO |
34;20m nipype.workflow | [Node] Executing "pick_echo" <mriqc.interfaces.functional.Sele
ctEcho>
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Finished
"pick_echo", elapsed time 0.000399s.
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Finished
"_provenance0", elapsed time 0.098997s.
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.pick_echo" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/84d3c8fd70b53d5d7c4675069f5b41664a443c63/pick_echo".
2026-04-09 04:08:50 |34
;20m INFO | nipype.workflow | [Node] Setting-up "_provenance0" in "/hom
e/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/84d3c8fd70b
53d5d7c4675069f5b41664a443c63/provenance/mapflow/_provenance0".
2026-04-09 04:08:50 | IN
FO | nipype.workflow | [Node] Executing "_provenance0" <mriqc.interface
s.reports.AddProvenance>
2026-04-09 04:08:50 | INFO | nipype.workflow
[0m| [Node] Executing "pick_echo" <mriqc.interfaces.functional.SelectEcho>
2026-04-09 04
:08:50 | INFO | nipype.workflow | [Node] Finished "pick_echo",
elapsed time 0.000203s.
2026-04-09 04:08:50 | INFO | nipype.workflow | [Node] Finished
"_provenance0", elapsed time 0.06699s.
2026-04-09 04:08:51 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.pick_echo" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/ef8adc97cda9d7f01da8d4442209d91cc6b20159/pick_echo".
2026-04-09 04:08:51 | INFO | nipype.workflow | [Node] Setting-u
p "_provenance0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/provenance/mapflow/_provenance0".
2026-04
-09 04:08:51 | INFO | nipype.workflow | [Node] Executing "pick_
echo" <mriqc.interfaces.functional.SelectEcho>
2026-04-09 04:08:51 | INFO |34;
20m nipype.workflow | [Node] Executing "_provenance0" <mriqc.interfaces.reports.AddProv
enance>
2026-04-09 04:08:51 | INFO | nipype.workflow | [Nod
e] Finished "pick_echo", elapsed time 0.000141s.
2026-04-09 04:08:51 | INFO | nipype.workflow | [Node] Finished
"_provenance0", elapsed time 0.057046s.
2026-04-09 04:08:51 | INFO | nipype.workflow | [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/_entities_subject01.suffixT1w.datatypeanat.extension.ni
i.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T
1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/pre_clip".
2026-04-09 04:08:51 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.AirMaskWorkflow.RotationMask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_entities_subject01.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..
sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/RotationMas
k".
2026-04-09 04:08:51 | INFO | nipype.workflow | [Node] S
etting-up "mriqc_wf.anatMRIQC.anat_report_wf.PlotMosaicNoise" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatype
anat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-0
1..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/Pl
otMosaicNoise".
2026-04-09 04:08:51 | INFO | nipype.workflow |34;
20m [Node] Executing "pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:08:51 | INFO | nipype.workflow | [Node] Executing
"RotationMask" <mriqc.interfaces.anatomical.RotationMask>
2026-04-09 04:08:51 | INFO
| nipype.workflow | [Node] Executing "PlotMosaicNoise" <nireports.interfa
ces.mosaic.PlotMosaic>
2026-04-09 04:08:52 | INFO | nipype.workflow | [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/_entities_subject02.suffixT1w.datatypeanat.extension.ni
i.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T
1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/pre_clip".
2026-
04-09 04:08:52 | INFO | nipype.workflow | [Node] Setting-up "mr
iqc_wf.anatMRIQC.AirMaskWorkflow.RotationMask" in "/home/jovyan/workspace/books/examples/workflows/M
RIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_entities_subject02.suffixT1w.datatypeanat.extension
.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-0
2_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/RotationMask".0
m
2026-04-09 04:08:52 | INFO | nipype.workflow | [Node] Setting
-up "mriqc_wf.anatMRIQC.anat_report_wf.PlotMosaicNoise" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..ana
t..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotMosai
cNoise".
2026-04-09 04:08:52 | INFO | nipype.workflow | [Node] Executing
"RotationMask" <mriqc.interfaces.anatomical.RotationMask>
2026-04-09 04:08:52 | INFO
| nipype.workflow | [Node] Executing "PlotMosaicNoise" <nireports.interfa
ces.mosaic.PlotMosaic>
2026-04-09 04:08:52 | INFO | nipype.workflow 0
m| [Node] Executing "pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:08:53 | INFO | nipype.workflow | [Node] Finished
"RotationMask", elapsed time 2.003925s.
2026-04-09 04:08:53 | INFO | nipype.workflow | [Node] Finished
"RotationMask", elapsed time 1.206985s.
2026-04-09 04:08:54 | INFO | nipype.workflow | [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/_entities_subject03.suffixT1w.datatypeanat.extension.ni
i.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T
1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/pre_clip".
2026-04-09 04:08:54 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.AirMaskWorkflow.RotationMask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_entities_subject03.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..
sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/RotationMas
k".
2026-04-09 04:08:54 | INFO | nipype.workflow | [Node] Executing
"RotationMask" <mriqc.interfaces.anatomical.RotationMask>
2026-04-09 04:08:54 | INFO | nipype.workflow | [Node] Executing
"pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:08:56 | INFO | nipype.workflow | [Node] Finished
"RotationMask", elapsed time 1.8775309999999998s.
2026-04-09 04:08:58 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotMosaicNoise" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.ext
ension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat.
.sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotMosaic
Noise".
2026-04-09 04:08:58 | INFO | nipype.workflow | [Node] Executing
"PlotMosaicNoise" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:09:00 | INFO | nipype.workflow | [Node] Finished
"PlotMosaicNoise", elapsed time 8.937045s.
2026-04-09 04:09:00 | INFO | nipype.workflow | [Node] Finished
"PlotMosaicNoise", elapsed time 8.526607s.
2026-04-09 04:09:02 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/638fdb324f8e2f95caebb232802d9e85ac60de52/non_steady_state_detector
".
2026-04-09 04:09:02 | INFO | nipype.workflow | [Node] Se
tting-up "mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/881c1637a95c5470a9299f17894e4fc970c98b2a/non_steady_state_d
etector".
2026-04-09 04:09:02 | INFO | nipype.workflow | [Node] Executing
"non_steady_state_detector" <nipype.algorithms.confounds.NonSteadyStateDetector>
2026-04-09 04:
09:02 | INFO | nipype.workflow | [Node] Executing "non_steady_s
tate_detector" <nipype.algorithms.confounds.NonSteadyStateDetector>
2026-04-09 04:09:02 | INFO | nipype.workflow | [Node] Finished
"non_steady_state_detector", elapsed time 0.421775s.
2026-04-09 04:09:02 | INFO | nipype.workflow | [Node] Finished
"non_steady_state_detector", elapsed time 0.443433s.
2026-04-09 04:09:04 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/f726dd545bccfac02a8ae8e2a462a8ed07117e50/non_steady_state_detector
".
2026-04-09 04:09:04 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/non_steady_state_detector
".
2026-04-09 04:09:04 | INFO | nipype.workflow | [Node] Ex
ecuting "non_steady_state_detector" <nipype.algorithms.confounds.NonSteadyStateDetector>
2026-04
-09 04:09:04 | INFO | nipype.workflow | [Node] Executing "non_s
teady_state_detector" <nipype.algorithms.confounds.NonSteadyStateDetector>
2026-04-09 04:09:04 | INFO | nipype.workflow | [Node] Finished
"non_steady_state_detector", elapsed time 0.431486s.
2026-04-09 04:09:04 | INFO | nipype.workflow | [Node] Finished
"non_steady_state_detector", elapsed time 0.431593s.
2026-04-09 04:09:06 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/84d3c8fd70b53d5d7c4675069f5b41664a443c63/non_steady_state_detector
".
2026-04-09 04:09:06 | INFO | nipype.workflow | [Node] Se
tting-up "mriqc_wf.funcMRIQC.non_steady_state_detector" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ef8adc97cda9d7f01da8d4442209d91cc6b20159/non_steady_state_d
etector".
2026-04-09 04:09:06 | INFO | nipype.workflow | [Node] Executing
"non_steady_state_detector" <nipype.algorithms.confounds.NonSteadyStateDetector>
2026-04-09 04:
09:06 | INFO | nipype.workflow | [Node] Executing "non_steady_s
tate_detector" <nipype.algorithms.confounds.NonSteadyStateDetector>
2026-04-09 04:09:06 | INFO | nipype.workflow | [Node] Finished
"non_steady_state_detector", elapsed time 0.450576s.
2026-04-09 04:09:06 | INFO | nipype.workflow | [Node] Finished
"non_steady_state_detector", elapsed time 0.491812s.
2026-04-09 04:09:07 | INFO | nipype.workflow | [Node] Finished
"PlotMosaicNoise", elapsed time 9.324791s.
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_background" in "/home/jovyan/workspace/books/examples
/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeana
t.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..
anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_re
port_background".
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Executing
"ds_report_background" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Finished
"ds_report_background", elapsed time 0.020604s.
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_background" in "/home/jovyan/workspace/books/examples
/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeana
t.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..
anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_rep
ort_background".
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Executing
"ds_report_background" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Finished
"ds_report_background", elapsed time 0.010083s.
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_background" in "/home/jovyan/workspace/books/examples
/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeana
t.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..
anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_re
port_background".
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Executing
"ds_report_background" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Finished
"ds_report_background", elapsed time 0.014785s.
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Setting-u
p "_sanitize0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
638fdb324f8e2f95caebb232802d9e85ac60de52/sanitize/mapflow/_sanitize0".
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Executing
"_sanitize0" <niworkflows.interfaces.header.SanitizeImage>
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Setting-u
p "_sanitize0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
881c1637a95c5470a9299f17894e4fc970c98b2a/sanitize/mapflow/_sanitize0".
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Executing
"_sanitize0" <niworkflows.interfaces.header.SanitizeImage>
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Setting-u
p "_sanitize0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
f726dd545bccfac02a8ae8e2a462a8ed07117e50/sanitize/mapflow/_sanitize0".
2026-04-09 04:09:08 | INFO | nipype.workflow | [Node] Executing
"_sanitize0" <niworkflows.interfaces.header.SanitizeImage>
2026-04-09 04:09:09 | INFO | nipype.workflow | [Node] Finished
"_sanitize0", elapsed time 0.097251s.
2026-04-09 04:09:10 | INFO | nipype.workflow | [Node] Setting-u
p "_sanitize0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/sanitize/mapflow/_sanitize0".
2026-04-09 04:09:10 | INFO | nipype.workflow | [Node] Executing
"_sanitize0" <niworkflows.interfaces.header.SanitizeImage>
2026-04-09 04:09:10 | INFO | nipype.workflow | [Node] Finished
"_sanitize0", elapsed time 0.092885s.
2026-04-09 04:09:11 | INFO | nipype.workflow | [Node] Finished
"_sanitize0", elapsed time 2.14437s.
2026-04-09 04:09:11 | INFO | nipype.workflow | [Node] Finished
"_sanitize0", elapsed time 2.422106s.
2026-04-09 04:09:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.estimate_hm" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/638fdb324f8e2f95caebb232802d9e85ac60de52/estimate_hm".
2026-04-09 04:09:12 | INFO | nipype.workflow | [Node] Setting-u
p "_sanitize0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
84d3c8fd70b53d5d7c4675069f5b41664a443c63/sanitize/mapflow/_sanitize0".
2026-04-09 04:09:12 |34
;20m INFO | nipype.workflow | [Node] Setting-up "_sanitize0" in "/home/
jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ef8adc97cda9d7f01da8d4442
209d91cc6b20159/sanitize/mapflow/_sanitize0".
2026-04-09 04:09:12 | INFO | nipype.workflow | [Node] Executing
"_sanitize0" <niworkflows.interfaces.header.SanitizeImage>
2026-04-09 04:09:12 | INFO
| nipype.workflow | [Node] Executing "_sanitize0" <niworkflows.interface
s.header.SanitizeImage>
2026-04-09 04:09:12 | INFO | nipype.workflow
0m| [Node] Executing "estimate_hm" <nipype.interfaces.afni.preprocess.Volreg>
2026-04-09 04:09:13 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 22.599847s.
2026-04-09 04:09:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject01.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w
.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/pre_n4".
2026-04-09 04:09:14 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:09:14 | INFO | nipype.workflow | [Node] Finished
"_sanitize0", elapsed time 1.9671720000000001s.
2026-04-09 04:09:14 | INFO | nipype.workflow | [Node] Finished
"_sanitize0", elapsed time 2.068089s.
2026-04-09 04:09:15 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 23.107915s.
2026-04-09 04:09:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject02.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w
.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/pre_n4".
2026-04-0
9 04:09:16 | INFO | nipype.workflow | [Node] Setting-up "mriqc_
wf.funcMRIQC.fMRI_HMC.estimate_hm" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir
/mriqc_wf/funcMRIQC/fMRI_HMC/881c1637a95c5470a9299f17894e4fc970c98b2a/estimate_hm".
2026-04-09 04:09:16 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/SpikesMask/mapflow/_SpikesMask0".
2026
-04-09 04:09:16 | INFO | nipype.workflow | [Node] Executing "pr
e_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:09:16 |
INFO | nipype.workflow | [Node] Executing "_SpikesMask0" <nipype.interf
aces.utility.wrappers.Function>
2026-04-09 04:09:16 | INFO | nipype.work
flow | [Node] Executing "estimate_hm" <nipype.interfaces.afni.preprocess.Volreg>
2026-04-09 04:09:17 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 23.511279000000002s.
2026-04-09 04:09:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject03.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w
.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/pre_n4".
2026-04-09 04:09:18 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:09:18 | INFO | nipype.workflow | [Node] Finished
"_SpikesMask0", elapsed time 2.281687s.
2026-04-09 04:09:20 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/SpikesMask/mapflow/_SpikesMask0".
2026-04-09 04:09:20 | INFO | nipype.workflow | [Node] Executing
"_SpikesMask0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:09:22 | INFO | nipype.workflow | [Node] Finished
"_SpikesMask0", elapsed time 2.185031s.
2026-04-09 04:09:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.estimate_hm" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/f726dd545bccfac02a8ae8e2a462a8ed07117e50/estimate_hm".
2026-04-09 04:09:24 | INFO | nipype.workflow | [Node] Executing
"estimate_hm" <nipype.interfaces.afni.preprocess.Volreg>
2026-04-09 04:11:26 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 131.213576s.
2026-04-09 04:11:26 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject01.suffixT1w.datatypeanat.extension.
nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01
_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/synthstrip".
2026-04-09 04:11:26 | INFO | nipype.workflow | [Node] Executing
"synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:11:26 | INFO | nipype.workflow | [Node] Finished
"estimate_hm", elapsed time 134.358451s.
2026-04-09 04:11:28 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/SpikesMask/mapflow/_SpikesMask0".
2026-04-09 04:11:28 | INFO | nipype.workflow | [Node] Executing
"_SpikesMask0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:11:28 | INFO | nipype.workflow | [Node] Finished
"estimate_hm", elapsed time 124.352752s.
2026-04-09 04:11:30 | INFO | nipype.workflow | [Node] Finished
"_SpikesMask0", elapsed time 1.947787s.
2026-04-09 04:11:30 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.estimate_hm" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/estimate_hm".
2026-04-09 04:11:30 | INFO | nipype.workflow | [Node] Executing
"estimate_hm" <nipype.interfaces.afni.preprocess.Volreg>
2026-04-09 04:11:30 | INFO | nipype.workflow | [Node] Finished
"estimate_hm", elapsed time 134.121592s.
2026-04-09 04:11:32 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 135.167686s.
2026-04-09 04:11:32 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.estimate_hm" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/84d3c8fd70b53d5d7c4675069f5b41664a443c63/estimate_hm".
2026-04-09 04:11:32 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/SpikesMask/mapflow/_SpikesMask0".
2026-04-09 04:11:32 | INFO | nipype.workflow | [Node] Executing
"_SpikesMask0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:11:32 | INFO
| nipype.workflow | [Node] Executing "estimate_hm" <nipype.interfaces.
afni.preprocess.Volreg>
2026-04-09 04:11:33 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 135.165007s.
2026-04-09 04:11:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject02.suffixT1w.datatypeanat.extension.
nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02
_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/synthstrip".
2
026-04-09 04:11:34 | INFO | nipype.workflow | [Node] Setting-up
"mriqc_wf.anatMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/M
RIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject03.suffixT1w.datatypeanat.extension.n
ii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_
T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/synthstrip".
2
026-04-09 04:11:34 | INFO | nipype.workflow | [Node] Executing
"synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:11:34 | INFO 0
m| nipype.workflow | [Node] Executing "synthstrip" <mriqc.interfaces.synthstrip
.SynthStrip>
2026-04-09 04:11:34 | INFO | nipype.workflow | [Node] Finished
"_SpikesMask0", elapsed time 2.1844580000000002s.
2026-04-09 04:11:36 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/SpikesMask/mapflow/_SpikesMask0".
2026-04-09 04:11:36 | INFO | nipype.workflow | [Node] Executing
"_SpikesMask0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:11:38 | INFO | nipype.workflow | [Node] Finished
"_SpikesMask0", elapsed time 1.7191100000000001s.
2026-04-09 04:11:38 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.estimate_hm" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/ef8adc97cda9d7f01da8d4442209d91cc6b20159/estimate_hm".
2026-04-09 04:11:38 | INFO | nipype.workflow | [Node] Executing
"estimate_hm" <nipype.interfaces.afni.preprocess.Volreg>
2026-04-09 04:12:40 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 66.291115s.
2026-04-09 04:12:41 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 67.553142s.
2026-04-09 04:12:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject02.suffixT1w.datatypeanat.extension.nii
.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1
w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/post_n4".
2026-04
-09 04:12:42 | INFO | nipype.workflow | [Node] Setting-up "_Spi
kesMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_
report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/SpikesMask/mapflow/_SpikesMask0".
2026-04-09 04:12:42 | INFO | nipype.workflow | [Node] Executing
"_SpikesMask0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:12:42 | INFO
| nipype.workflow | [Node] Executing "post_n4" <nipype.interfaces.ants
.segmentation.N4BiasFieldCorrection>
2026-04-09 04:12:43 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 76.754585s.
2026-04-09 04:12:44 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject01.suffixT1w.datatypeanat.extension.nii
.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1
w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/post_n4".
2026-0
4-09 04:12:44 | INFO | nipype.workflow | [Node] Executing "post
_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:12:44 | INFO | nipype.workflow | [Node] Finished
"_SpikesMask0", elapsed time 2.487377s.
2026-04-09 04:12:46 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.smoothness" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject01.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w
.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/smoothness".
2026-04-09 04:12:46 | INFO | nipype.workflow | [Node] Executing
"smoothness" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:12:54 | INFO | nipype.workflow | [Node] Finished
"smoothness", elapsed time 7.765049s.
2026-04-09 04:12:54 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotMosaicZoomed" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat
..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/PlotMosai
cZoomed".
2026-04-09 04:12:54 | INFO | nipype.workflow | [Node] Executing
"PlotMosaicZoomed" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:13:01 | INFO | nipype.workflow | [Node] Finished
"PlotMosaicZoomed", elapsed time 7.521s.
2026-04-09 04:13:02 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.exten
sion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..s
ub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/PlotBrainmas
k".
2026-04-09 04:13:02 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:13:07 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 4.682438s.
2026-04-09 04:13:08 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.smoothness" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject02.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w
.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/smoothness".
2026-04-09 04:13:08 | INFO | nipype.workflow | [Node] Executing
"smoothness" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:13:14 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 31.677634s.
2026-04-09 04:13:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotMosaicZoomed" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat
..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotMosaic
Zoomed".
2026-04-09 04:13:14 | INFO | nipype.workflow | [Node] Executing
"PlotMosaicZoomed" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:13:16 | INFO | nipype.workflow | [Node] Finished
"smoothness", elapsed time 7.5884730000000005s.
2026-04-09 04:13:16 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 31.915182s.
2026-04-09 04:13:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.exten
sion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..s
ub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotBrainmask
".
2026-04-09 04:13:16 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:13:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject03.suffixT1w.datatypeanat.extension.nii
.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1
w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/post_n4".
2026-04-09 04:13:18 | INFO | nipype.workflow | [Node] Executing
"post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:13:20 | INFO | nipype.workflow | [Node] Finished
"PlotMosaicZoomed", elapsed time 6.591002s.
2026-04-09 04:13:21 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 5.067692s.
2026-04-09 04:13:22 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotMosaicZoomed" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat
..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotMosai
cZoomed".
2026-04-09 04:13:22 | INFO | nipype.workflow | [N
ode] Setting-up "mriqc_wf.anatMRIQC.ComputeIQMs.smoothness" in "/home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject03.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..an
at..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/smoothn
ess".
2026-04-09 04:13:22 | INFO | nipype.workflow | [Node] Executing
"PlotMosaicZoomed" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:13:22 | INFO
| nipype.workflow | [Node] Executing "smoothness" <nipype.interfaces.af
ni.utils.FWHMx>
2026-04-09 04:13:29 | INFO | nipype.workflow | [Node] Finished
"smoothness", elapsed time 6.605902s.
2026-04-09 04:13:29 | INFO | nipype.workflow | [Node] Finished
"PlotMosaicZoomed", elapsed time 6.990244s.
2026-04-09 04:13:30 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.exten
sion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..s
ub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotBrainmas
k".
2026-04-09 04:13:30 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/fMRI_HMC/638fdb324f8e2f95caebb232802d9e85ac60de52/ComputeFD".
2026-04
-09 04:13:30 | INFO | nipype.workflow | [Node] Executing "PlotB
rainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:13:30 | INFO | nipype.workflow | [Node] Executing
"ComputeFD" <nipype.algorithms.confounds.FramewiseDisplacement>
2026-04-09 04:13:30 | I
NFO | nipype.workflow | [Node] Finished "ComputeFD", elapsed time 0.002
499s.
2026-04-09 04:13:32 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesFinderBgMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/SpikesFinderBgMask/mapflow/_Spikes
FinderBgMask0".
2026-04-09 04:13:32 | INFO | nipype.workflow | [Node] Executing
"_SpikesFinderBgMask0" <mriqc.interfaces.functional.Spikes>
2026-04-09 04:13:33 | INFO | nipype.workflow | [Node] Finished
"_SpikesFinderBgMask0", elapsed time 0.764506s.
2026-04-09 04:13:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/fMRI_HMC/881c1637a95c5470a9299f17894e4fc970c98b2a/ComputeFD".
2026-04-09 04:13:34 | INFO | nipype.workflow | [Node] Executing
"ComputeFD" <nipype.algorithms.confounds.FramewiseDisplacement>
2026-04-09 04:13:34 | INFO | nipype.workflow | [Node] Finished
"ComputeFD", elapsed time 0.002331s.
2026-04-09 04:13:34 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 4.316264s.
2026-04-09 04:13:36 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesFinderBgMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/SpikesFinderBgMask/mapflow/_Spikes
FinderBgMask0".
2026-04-09 04:13:36 | INFO | nipype.workflow |34;
20m [Node] Setting-up "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/fMRI_HMC/f726dd545bccfac02a8ae8e2a462a8ed07117e50/Com
puteFD".
2026-04-09 04:13:36 | INFO | nipype.workflow | [No
de] Executing "_SpikesFinderBgMask0" <mriqc.interfaces.functional.Spikes>
2026-04-09 04:13:36 |
[34;20m INFO | nipype.workflow | [Node] Executing "ComputeFD" <nipype.a
lgorithms.confounds.FramewiseDisplacement>
2026-04-09 04:13:36 | INFO | nipype.workflow | [Node] Finished
"ComputeFD", elapsed time 0.016711s.
2026-04-09 04:13:37 | INFO | nipype.workflow | [Node] Finished
"_SpikesFinderBgMask0", elapsed time 0.643932s.
2026-04-09 04:13:38 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesFinderBgMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/SpikesFinderBgMask/mapflow/_Spikes
FinderBgMask0".
2026-04-09 04:13:38 | INFO | nipype.workflow |34;
20m [Node] Setting-up "_SpikesFinderBgMask0" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/SpikesFinderBg
Mask/mapflow/_SpikesFinderBgMask0".
2026-04-09 04:13:38 | INFO | nipype.
workflow | [Node] Executing "_SpikesFinderBgMask0" <mriqc.interfaces.functional.Spikes>
2026-04-09 04:13:38 | INFO | nipype.workflow | [Node] Exec
uting "_SpikesFinderBgMask0" <mriqc.interfaces.functional.Spikes>
2026-04-09 04:13:39 | INFO | nipype.workflow | [Node] Finished
"_SpikesFinderBgMask0", elapsed time 0.878988s.
2026-04-09 04:13:39 | INFO | nipype.workflow | [Node] Finished
"_SpikesFinderBgMask0", elapsed time 0.994415s.
2026-04-09 04:13:40 | INFO | nipype.workflow | [Node] Setting-u
p "_SpikesFinderBgMask0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/SpikesFinderBgMask/mapflow/_Spikes
FinderBgMask0".
2026-04-09 04:13:40 | INFO | nipype.workflow | [Node] Executing
"_SpikesFinderBgMask0" <mriqc.interfaces.functional.Spikes>
2026-04-09 04:13:40 | INFO
| nipype.workflow | [Node] Setting-up "_SpikesFinderBgMask0" in "/home/
jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70
b53d5d7c4675069f5b41664a443c63/SpikesFinderBgMask/mapflow/_SpikesFinderBgMask0".
2026-04-09 04:13:40 | INFO | nipype.workflow | [Node] Executing
"_SpikesFinderBgMask0" <mriqc.interfaces.functional.Spikes>
2026-04-09 04:13:41 | INFO | nipype.workflow | [Node] Finished
"_SpikesFinderBgMask0", elapsed time 1.080724s.
2026-04-09 04:13:41 | INFO | nipype.workflow | [Node] Finished
"_SpikesFinderBgMask0", elapsed time 1.124728s.
2026-04-09 04:13:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject01.suffixT1w.datatypeanat.extensio
n.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-
01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/final_masked".
[0m
2026-04-09 04:13:42 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:13:42 | INFO
| nipype.workflow | [Node] Setting-up "mriqc_wf.anatMRIQC.SpatialNormaliz
ation.SpatialNormalization" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_
wf/anatMRIQC/SpatialNormalization/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_fil
e_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_m
etadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization".
202
6-04-09 04:13:42 | INFO | nipype.workflow | [Node] Executing "S
patialNormalization" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
2026-04-09 04:13:43 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.784206s.
2026-04-09 04:13:44 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Finished
"estimate_hm", elapsed time 134.17119s.
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_zoomed" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat
..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_report
_zoomed".
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Executing
"ds_report_zoomed" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Finished
"ds_report_zoomed", elapsed time 0.012613s.
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.ext
ension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat.
.sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_report_
bmask".
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:13:44 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.009743s.
2026-04-09 04:13:45 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject02.suffixT1w.datatypeanat.extensio
n.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-
02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/final_masked".
0m
2026-04-09 04:13:45 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:13:46 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.827972s.
2026-04-09 04:13:46 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/fMRI_HMC/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ComputeFD".
2026-04-09 04:13:46 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.SpatialNormalization.SpatialNormalization" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject02.suffixT1w
.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds0001
02..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVol
umes1/SpatialNormalization".
2026-04-09 04:13:46 | INFO | nipype.workflo
w | [Node] Executing "ComputeFD" <nipype.algorithms.confounds.FramewiseDisplacement>0
m
2026-04-09 04:13:46 | INFO | nipype.workflow | [Node] Executi
ng "SpatialNormalization" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
0m
2026-04-09 04:13:46 | INFO | nipype.workflow | [Node] Finish
ed "ComputeFD", elapsed time 0.006483s.
2026-04-09 04:13:47 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_zoomed" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat
..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_report_
zoomed".
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Executing
"ds_report_zoomed" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Finished
"ds_report_zoomed", elapsed time 0.012871s.
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.ext
ension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat.
.sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_report_b
mask".
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.007382s.
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_zoomed" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat
..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_report
_zoomed".
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Executing
"ds_report_zoomed" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Finished
"ds_report_zoomed", elapsed time 0.007423s.
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.ext
ension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat.
.sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_report_
bmask".
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:13:48 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.008647s.
2026-04-09 04:13:50 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 32.134641s.
2026-04-09 04:13:51 | INFO | nipype.workflow | [Node] Finished
"estimate_hm", elapsed time 133.200533s.
2026-04-09 04:13:52 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/fMRI_HMC/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ComputeFD".
2026-04
-09 04:13:52 | INFO | nipype.workflow | [Node] Setting-up "mriq
c_wf.anatMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflows/MRIQC
_workdir/mriqc_wf/anatMRIQC/synthstrip_wf/_entities_subject03.suffixT1w.datatypeanat.extension.nii.g
z_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.
nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/final_masked".
202
6-04-09 04:13:52 | INFO | nipype.workflow | [Node] Setting-up "
mriqc_wf.anatMRIQC.SpatialNormalization.SpatialNormalization" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject03.suffixT1w.da
tatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102.
.sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolum
es1/SpatialNormalization".
2026-04-09 04:13:52 | INFO | nipype.workflow | [Node] Executing
"ComputeFD" <nipype.algorithms.confounds.FramewiseDisplacement>
2026-04-09 04:13:52 | I
NFO | nipype.workflow | [Node] Executing "SpatialNormalization" <niwork
flows.interfaces.reportlets.registration.SpatialNormalizationRPT>
2026-04-09 04:13:52 |
INFO | nipype.workflow | [Node] Executing "final_masked" <niworkflows.i
nterfaces.nibabel.ApplyMask>
2026-04-09 04:13:52 | INFO | nipype.workflo
w | [Node] Finished "ComputeFD", elapsed time 0.014011s.
2026-04-09 04:13:53 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.758232s.
2026-04-09 04:13:53 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:13:55 | INFO | nipype.workflow | [Node] Finished
"estimate_hm", elapsed time 142.859441s.
2026-04-09 04:13:56 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.fMRI_HMC.ComputeFD" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/fMRI_HMC/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ComputeFD".
2026-04
-09 04:13:56 | INFO | nipype.workflow | [Node] Executing "Compu
teFD" <nipype.algorithms.confounds.FramewiseDisplacement>
2026-04-09 04:13:56 | INFO | nipype.workflow | [Node] Finished
"ComputeFD", elapsed time 0.006938s.
2026-04-09 04:15:12 | INFO | niworkflows | Loading settings
from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/t1w-mni_registration_testing_000
.json.
2026-04-09 04:15:12 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Spati
alNormalization/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.
009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/transform.mat, 0 ] --initia
lize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ ants_t1_to_mni, ants_t1_t
o_mni_Warped.nii.gz ] --transform Rigid[ 1.0 ] --metric Mattes[ /home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject01.suffixT1w.data
typeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..s
ub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes
1/SpatialNormalization/fixed_masked.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_wo
rkdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject01.suffixT1w.datatypeanat.extension.n
ii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_
T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalizati
on/moving_masked.nii.gz, 1, 56, Random, 0.2 ] --convergence [ 20, 1e-07, 15 ] --smoothing-sigmas 4.0
vox --shrink-factors 2 --use-histogram-matching 0 --transform Affine[ 1.0 ] --metric Mattes[ /home/j
ovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_enti
ties_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..exa
mples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.Fi
leSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/fixed_masked.nii.gz, /home/jovyan/workspace/book
s/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject01.suffi
xT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds
000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.Number
OfVolumes1/SpatialNormalization/moving_masked.nii.gz, 1, 56, Random, 0.1 ] --convergence [ 15, 1e-08
, 5 ] --smoothing-sigmas 2.0vox --shrink-factors 1 --use-histogram-matching 1 --winsorize-image-inte
nsities [ 0.005, 0.995 ] --write-composite-transform 1
2026-04-09 04:15:18 | INFO | niworkflows | Terminal outputs
of initialization saved (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/ana
tMRIQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadat
a_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/stderr.nipype-i
nit).
2026-04-09 04:15:18 | INFO | niworkflows | Loadin
g settings from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/t1w-mni_registration_t
esting_000.json.
2026-04-09 04:15:18 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Spati
alNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.
009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/transform.mat, 0 ] --initia
lize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ ants_t1_to_mni, ants_t1_t
o_mni_Warped.nii.gz ] --transform Rigid[ 1.0 ] --metric Mattes[ /home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject03.suffixT1w.data
typeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..s
ub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes
1/SpatialNormalization/fixed_masked.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_wo
rkdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.n
ii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_
T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalizati
on/moving_masked.nii.gz, 1, 56, Random, 0.2 ] --convergence [ 20, 1e-07, 15 ] --smoothing-sigmas 4.0
vox --shrink-factors 2 --use-histogram-matching 0 --transform Affine[ 1.0 ] --metric Mattes[ /home/j
ovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_enti
ties_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..exa
mples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.Fi
leSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/fixed_masked.nii.gz, /home/jovyan/workspace/book
s/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject03.suffi
xT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds
000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.Number
OfVolumes1/SpatialNormalization/moving_masked.nii.gz, 1, 56, Random, 0.1 ] --convergence [ 15, 1e-08
, 5 ] --smoothing-sigmas 2.0vox --shrink-factors 1 --use-histogram-matching 1 --winsorize-image-inte
nsities [ 0.005, 0.995 ] --write-composite-transform 1
2026-04-09 04:15:19 | INFO | niworkflows | Loading settings
from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/t1w-mni_registration_testing_000
.json.
2026-04-09 04:15:19 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Spati
alNormalization/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.
00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/transform.mat, 0 ] --initial
ize-transforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ ants_t1_to_mni, ants_t1_to
_mni_Warped.nii.gz ] --transform Rigid[ 1.0 ] --metric Mattes[ /home/jovyan/workspace/books/examples
/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject02.suffixT1w.datat
ypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..su
b-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/
SpatialNormalization/fixed_masked.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_work
dir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject02.suffixT1w.datatypeanat.extension.nii
.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1
w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/
moving_masked.nii.gz, 1, 56, Random, 0.2 ] --convergence [ 20, 1e-07, 15 ] --smoothing-sigmas 4.0vox
--shrink-factors 2 --use-histogram-matching 0 --transform Affine[ 1.0 ] --metric Mattes[ /home/jovy
an/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entitie
s_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..exampl
es..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSi
zeUnitsGB.NumberOfVolumes1/SpatialNormalization/fixed_masked.nii.gz, /home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject02.suffixT1w
.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds0001
02..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVol
umes1/SpatialNormalization/moving_masked.nii.gz, 1, 56, Random, 0.1 ] --convergence [ 15, 1e-08, 5 ]
--smoothing-sigmas 2.0vox --shrink-factors 1 --use-histogram-matching 1 --winsorize-image-intensiti
es [ 0.005, 0.995 ] --write-composite-transform 1
2026-04-09 04:15:33 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:15:35 | INFO | niworkflows | Report - setting
fixed (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNorm
alization/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..worksp
ace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854
432195425034.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/fixed_masked.nii.gz) and moving (
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalizatio
n/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..boo
ks..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.00985443219542
5034.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/ants_t1_to_mni_Warped.nii.gz) images
2026-04-09 04:15:35 | INFO | niworkflows | Generating visua
l report
2026-04-09 04:15:38 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:15:40 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:15:40 | INFO | niworkflows | Report - setting
fixed (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNorm
alization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..worksp
ace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971
695020794868.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/fixed_masked.nii.gz) and moving (
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalizatio
n/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..boo
ks..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.00997169502079
4868.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/ants_t1_to_mni_Warped.nii.gz) images
2026-04-09 04:15:40 | INFO | niworkflows | Generating visua
l report
2026-04-09 04:15:42 | INFO | niworkflows | Report - setting
fixed (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNorm
alization/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..worksp
ace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.009999
72503632307.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/fixed_masked.nii.gz) and moving (/
home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization
/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..book
s..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.009999725036323
07.FileSizeUnitsGB.NumberOfVolumes1/SpatialNormalization/ants_t1_to_mni_Warped.nii.gz) images
2026-04-09 04:15:42 | INFO | niworkflows | Generating visua
l report
2026-04-09 04:16:03 | INFO | nipype.workflow | [Node] Finished
"SpatialNormalization", elapsed time 140.51186s.
2026-04-09 04:16:04 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..
sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_report_n
orm".
2026-04-09 04:16:04 | INFO | nipype.workflow | [Node] Executing
"ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:16:04 | INFO | nipype.workflow | [Node] Finished
"SpatialNormalization", elapsed time 132.043773s.
2026-04-09 04:16:04 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.01333s.
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..
sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_report_n
orm".
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Executing
"ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.005886s.
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w1" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_F
ileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w1".
0m
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Settin
g-up "_tpms_std2t1w0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/ana
tMRIQC/SpatialNormalization/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadat
a_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w0"
.
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Set
ting-up "_tpms_std2t1w2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/
anatMRIQC/SpatialNormalization/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_.
.home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_meta
data_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1
w2".
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node]
Executing "_tpms_std2t1w2" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04
:16:06 | INFO | nipype.workflow | [Node] Executing "_tpms_std2t
1w1" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:06 | INFO
| nipype.workflow | [Node] Executing "_tpms_std2t1w0" <niworkflows.inte
rfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:06 | INFO | nipype.workflow | [Node] Finished
"SpatialNormalization", elapsed time 140.435096s.
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..
sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_report_no
rm".
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Executing
"ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.010901s.
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_F
ileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w0".
0m
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_F
ileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w2".
0m
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Settin
g-up "_tpms_std2t1w1" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/ana
tMRIQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadat
a_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w1"
.
2026-04-09 04:16:08 | INFO | nipype.workflow | [Node] Executing
"_tpms_std2t1w0" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:08 |
[34;20m INFO | nipype.workflow | [Node] Executing "_tpms_std2t1w2" <niw
orkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:08 | INFO |
nipype.workflow | [Node] Executing "_tpms_std2t1w1" <niworkflows.interfaces.fi
xes.FixHeaderApplyTransforms>
2026-04-09 04:16:17 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w0", elapsed time 11.333641s.
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w2", elapsed time 11.224893s.
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w1", elapsed time 9.722346s.
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_F
ileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w0".0
m
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w1" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_F
ileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w1".0
m
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Executing
"_tpms_std2t1w0" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Executing
"_tpms_std2t1w1" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w1", elapsed time 11.624518s.
2026-04-09 04:16:18 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w2", elapsed time 10.289004s.
2026-04-09 04:16:19 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w0", elapsed time 11.110706s.
2026-04-09 04:16:20 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_F
ileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w0".
0m
2026-04-09 04:16:20 | INFO | nipype.workflow | [Node] Cached "_
tpms_std2t1w0" - collecting precomputed outputs
2026-04-09 04:16:20 | INFO |34
;20m nipype.workflow | [Node] "_tpms_std2t1w0" found cached.
2026-04-09 04:16:20 |
[34;20m INFO | nipype.workflow | [Node] Setting-up "_tpms_std2t1w0" in
"/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalizati
on/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..bo
oks..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.0098544321954
25034.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w0".
2026-04-09 04:16:20
| INFO | nipype.workflow | [Node] Setting-up "_tpms_std2t1w1"
in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormaliz
ation/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace.
.books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.0099716950
20794868.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w1".
2026-04-09 04:16
:20 | INFO | nipype.workflow | [Node] Cached "_tpms_std2t1w1" -
collecting precomputed outputs
2026-04-09 04:16:20 | INFO | nipype.work
flow | [Node] "_tpms_std2t1w1" found cached.
2026-04-09 04:16:20 | INFO
| nipype.workflow | [Node] Cached "_tpms_std2t1w0" - collecting precompute
d outputs
2026-04-09 04:16:20 | INFO | nipype.workflow | [N
ode] "_tpms_std2t1w0" found cached.
2026-04-09 04:16:20 | INFO | nipype.workflow | [Node] Setting-u
p "_tpms_std2t1w2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMR
IQC/SpatialNormalization/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home.
.jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_F
ileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w2".
0m
2026-04-09 04:16:20 | INFO | nipype.workflow | [Node] Settin
g-up "_tpms_std2t1w2" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/ana
tMRIQC/SpatialNormalization/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..ho
me..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadat
a_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w2".
2026-04-09 04:16:20 | INFO | nipype.workflow | [Node] Cach
ed "_tpms_std2t1w2" - collecting precomputed outputs
2026-04-09 04:16:20 | INFO
| nipype.workflow | [Node] "_tpms_std2t1w2" found cached.
2026-04-09 04:16:
20 | INFO | nipype.workflow | [Node] Executing "_tpms_std2t1w2"
<niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
2026-04-09 04:16:20 | INFO
| nipype.workflow | [Node] Setting-up "_tpms_std2t1w1" in "/home/jovyan/wor
kspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subj
ect01.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..wo
rkflows..ds000102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUni
tsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w1".
2026-04-09 04:16:20 | INFO
| nipype.workflow | [Node] Cached "_tpms_std2t1w1" - collecting precompu
ted outputs
2026-04-09 04:16:20 | INFO | nipype.workflow |
[Node] "_tpms_std2t1w1" found cached.
2026-04-09 04:16:20 | INFO | nipyp
e.workflow | [Node] Setting-up "_tpms_std2t1w2" in "/home/jovyan/workspace/books/exampl
es/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject01.suffixT1w.dat
atypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..
sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolume
s1/tpms_std2t1w/mapflow/_tpms_std2t1w2".
2026-04-09 04:16:20 | INFO | ni
pype.workflow | [Node] Cached "_tpms_std2t1w2" - collecting precomputed outputs
2026-04-09 04:16:20 | INFO | nipype.workflow | [Node] "_tpms_st
d2t1w2" found cached.
2026-04-09 04:16:22 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.Enhance" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject01.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub
-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/Enhance".
2026-04-09 04:16:22 | INFO | nipype.workflow | [Node] Executing
"Enhance" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:22 | INFO
| nipype.workflow | [Node] Setting-up "mriqc_wf.anatMRIQC.brain_tissue_segm
entation.format_tpm_names" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/anatMRIQC/brain_tissue_segmentation/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz_in
_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.nii.
gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/format_tpm_names".
2026-04-09 04:16:22 | INFO | nipype.workflow | [Node] Executing
"format_tpm_names" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:22 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.Enhance" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject03.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub
-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/Enhance".
2026-04-09 04:16:22 | INFO | nipype.workflow | [Node] Executing
"Enhance" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:24 | INFO | nipype.workflow | [Node] Finished
"Enhance", elapsed time 2.184298s.
2026-04-09 04:16:24 | INFO | nipype.workflow | [Node] Finished
"Enhance", elapsed time 2.275589s.
2026-04-09 04:16:25 | INFO | nipype.workflow | [Node] Finished
"format_tpm_names", elapsed time 2.765432s.
2026-04-09 04:16:26 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.brain_tissue_segmentation.format_tpm_names" in "/home/jovyan/workspace/books/e
xamples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/brain_tissue_segmentation/_entities_subject03.suf
fixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..
ds000102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.Numb
erOfVolumes1/format_tpm_names".
2026-04-09 04:16:26 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.Grad" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject01.suffixT1w.datatypeanat.extension.
nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01
_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/Grad".
2026-0
4-09 04:16:26 | INFO | nipype.workflow | [Node] Executing "form
at_tpm_names" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:26 | INFO | nipype.workflow | [Node] Executing
"Grad" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:26 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.apply_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject01.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..
sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/apply_mask"
.
2026-04-09 04:16:26 | INFO | nipype.workflow | [Node] Executing
"apply_mask" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:16:27 | INFO | nipype.workflow | [Node] Finished
"apply_mask", elapsed time 0.818674s.
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w0", elapsed time 9.647281s.
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.Grad" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject03.suffixT1w.datatypeanat.extension.
nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03
_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/Grad".
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.apply_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject03.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..
sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/apply_mask"
.
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Executing
"apply_mask" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Executing
"Grad" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Finished
"format_tpm_names", elapsed time 2.153321s.
2026-04-09 04:16:28 | INFO | nipype.workflow | [Node] Finished
"apply_mask", elapsed time 0.482045s.
2026-04-09 04:16:29 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w1", elapsed time 11.368386s.
2026-04-09 04:16:30 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.brain_tissue_segmentation.segmentation" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/brain_tissue_segmentation/_entities_subject01.suffixT
1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds00
0102..sub-01..anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOf
Volumes1/segmentation".
2026-04-09 04:16:30 | INFO | nipype.workflow | [Node] Executing
"segmentation" <nipype.interfaces.ants.segmentation.Atropos>
2026-04-09 04:16:31 | INFO | nipype.workflow | [Node] Finished
"Grad", elapsed time 5.199717s.
2026-04-09 04:16:32 | INFO | nipype.workflow | [Node] Finished
"_tpms_std2t1w2", elapsed time 11.615255s.
2026-04-09 04:16:32 | INFO | nipype.workflow | [Node] Finished
"Grad", elapsed time 3.81744s.
2026-04-09 04:16:32 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.GradientThreshold" in "/home/jovyan/workspace/books/examples/
workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject01.suffixT1w.datatypean
at.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01.
.anat..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/Grad
ientThreshold".
2026-04-09 04:16:32 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.GradientThreshold" in "/home/jovyan/workspace/books/examples/
workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject03.suffixT1w.datatypean
at.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03.
.anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/Grad
ientThreshold".
2026-04-09 04:16:32 | INFO | nipype.workflow |34;
20m [Node] Executing "GradientThreshold" <nipype.interfaces.utility.wrappers.Function>
2026-04-0
9 04:16:32 | INFO | nipype.workflow | [Node] Setting-up "_tpms_
std2t1w0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/Spati
alNormalization/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..
workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.
00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w0".
2026-04
-09 04:16:32 | INFO | nipype.workflow | [Node] Executing "Gradi
entThreshold" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:32 | INFO
| nipype.workflow | [Node] Cached "_tpms_std2t1w0" - collecting precompu
ted outputs
2026-04-09 04:16:32 | INFO | nipype.workflow |
[Node] "_tpms_std2t1w0" found cached.
2026-04-09 04:16:32 | INFO | nipyp
e.workflow | [Node] Setting-up "_tpms_std2t1w1" in "/home/jovyan/workspace/books/exampl
es/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalization/_entities_subject02.suffixT1w.dat
atypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..
sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes
1/tpms_std2t1w/mapflow/_tpms_std2t1w1".
2026-04-09 04:16:32 | INFO | nipype.workflow | [Node] Cached "_
tpms_std2t1w1" - collecting precomputed outputs
2026-04-09 04:16:32 | INFO |34
;20m nipype.workflow | [Node] "_tpms_std2t1w1" found cached.
2026-04-09 04:16:32 |
[34;20m INFO | nipype.workflow | [Node] Setting-up "_tpms_std2t1w2" in
"/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/SpatialNormalizati
on/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..bo
oks..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.0099997250363
2307.FileSizeUnitsGB.NumberOfVolumes1/tpms_std2t1w/mapflow/_tpms_std2t1w2".
2026-04-09 04:16:32
| INFO | nipype.workflow | [Node] Cached "_tpms_std2t1w2" - col
lecting precomputed outputs
2026-04-09 04:16:32 | INFO | nipype.workflow
| [Node] "_tpms_std2t1w2" found cached.
2026-04-09 04:16:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.Enhance" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject02.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub
-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/Enhance".
2
026-04-09 04:16:34 | INFO | nipype.workflow | [Node] Setting-up
"mriqc_wf.anatMRIQC.brain_tissue_segmentation.format_tpm_names" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/brain_tissue_segmentation/_entities_subject02.suff
ixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..d
s000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.Number
OfVolumes1/format_tpm_names".
2026-04-09 04:16:34 | INFO | nipype.workflow | [Node] Executing
"Enhance" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:34 | INFO
| nipype.workflow | [Node] Executing "format_tpm_names" <nipype.interfaces.
utility.wrappers.Function>
2026-04-09 04:16:35 | INFO | nipype.workflow | [Node] Finished
"Enhance", elapsed time 1.4031609999999999s.
2026-04-09 04:16:36 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.apply_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject02.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..
sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/apply_mask".
2026-04-09 04:16:36 | INFO | nipype.workflow | [Node] Sett
ing-up "mriqc_wf.anatMRIQC.HeadMaskWorkflow.Grad" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject02.suffixT1w.datatypeanat.exten
sion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..s
ub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/Grad".
2026-04-09 04:16:36 | INFO | nipype.workflow | [Node] Executing
"Grad" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:36 | INFO 0
m| nipype.workflow | [Node] Executing "apply_mask" <niworkflows.interfaces.niba
bel.ApplyMask>
2026-04-09 04:16:36 | INFO | nipype.workflow | [Node] Finished
"format_tpm_names", elapsed time 2.276853s.
2026-04-09 04:16:36 | INFO | nipype.workflow | [Node] Finished
"apply_mask", elapsed time 0.468265s.
2026-04-09 04:16:40 | INFO | nipype.workflow | [Node] Finished
"Grad", elapsed time 4.133389s.
2026-04-09 04:16:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.HeadMaskWorkflow.GradientThreshold" in "/home/jovyan/workspace/books/examples/
workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/HeadMaskWorkflow/_entities_subject02.suffixT1w.datatypean
at.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02.
.anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/Gradi
entThreshold".
2026-04-09 04:16:42 | INFO | nipype.workflow | [Node] Executing
"GradientThreshold" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:16:48 | INFO | nipype.workflow | [Node] Finished
"GradientThreshold", elapsed time 16.436881s.
2026-04-09 04:16:50 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.AirMaskWorkflow.ArtifactMask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_entities_subject01.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..
sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ArtifactMas
k".
2026-04-09 04:16:50 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotHeadmask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.extens
ion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..su
b-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/PlotHeadmask"
.
2026-04-09 04:16:50 | INFO | nipype.workflow | [Node] Exe
cuting "ArtifactMask" <mriqc.interfaces.anatomical.ArtifactMask>
2026-04-09 04:16:50 | INFO | nipype.workflow | [Node] Executing
"PlotHeadmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:16:52 | INFO | nipype.workflow | [Node] Finished
"GradientThreshold", elapsed time 20.391029s.
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Finished
"PlotHeadmask", elapsed time 3.819785s.
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_headmask" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..an
at..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_repo
rt_headmask".
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Executing
"ds_report_headmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Finished
"ArtifactMask", elapsed time 4.004175s.
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.AirMaskWorkflow.ArtifactMask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_entities_subject03.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..
sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ArtifactMas
k".
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotHeadmask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.extens
ion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..su
b-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotHeadmask"
.
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Executing
"PlotHeadmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Executing
"ArtifactMask" <mriqc.interfaces.anatomical.ArtifactMask>
2026-04-09 04:16:54 | INFO | nipype.workflow | [Node] Finished
"ds_report_headmask", elapsed time 0.008475s.
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.provenance" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject01.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w
.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/provenance".
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Executing
"provenance" <mriqc.interfaces.reports.AddProvenance>
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Finished
"provenance", elapsed time 0.099389s.
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.ComputeQI2" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject01.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w
.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ComputeQI2".
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotAirmask" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub
-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/PlotAirmask".
[0m
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Execu
ting "ComputeQI2" <mriqc.interfaces.anatomical.ComputeQI2>
2026-04-09 04:16:56 | INFO | nipype.workflow | [Node] Executing
"PlotAirmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:16:57 | INFO | nipype.workflow | [Node] Finished
"GradientThreshold", elapsed time 15.381934s.
2026-04-09 04:16:58 | INFO | nipype.workflow | [Node] Finished
"PlotHeadmask", elapsed time 4.000835s.
2026-04-09 04:16:58 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.AirMaskWorkflow.ArtifactMask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/anatMRIQC/AirMaskWorkflow/_entities_subject02.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..
sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ArtifactMask
".
2026-04-09 04:16:58 | INFO | nipype.workflow | [Node] Executing
"ArtifactMask" <mriqc.interfaces.anatomical.ArtifactMask>
2026-04-09 04:16:59 | INFO | nipype.workflow | [Node] Finished
"ArtifactMask", elapsed time 5.291372s.
2026-04-09 04:17:00 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotHeadmask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.extens
ion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..su
b-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotHeadmask".
2026-04-09 04:17:00 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotArtmask" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub
-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/PlotArtmask".
[0m
2026-04-09 04:17:00 | INFO | nipype.workflow | [Node] Execu
ting "PlotHeadmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:17:00 | INFO | nipype.workflow | [Node] Executing
"PlotArtmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:17:00 | INFO | nipype.workflow | [Node] Finished
"PlotAirmask", elapsed time 3.995297s.
2026-04-09 04:17:02 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.provenance" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject03.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w
.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/provenance".
2026-04-09 04:17:02 | INFO | nipype.workflow | [Node] Executing
"provenance" <mriqc.interfaces.reports.AddProvenance>
2026-04-09 04:17:02 | INFO | nipype.workflow | [Node] Finished
"provenance", elapsed time 0.124364s.
2026-04-09 04:17:02 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.ComputeQI2" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject03.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w
.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ComputeQI2".
2026-04-09 04:17:02 | INFO | nipype.workflow | [Node] Executing
"ComputeQI2" <mriqc.interfaces.anatomical.ComputeQI2>
2026-04-09 04:17:02 | INFO | nipype.workflow | [Node] Finished
"ArtifactMask", elapsed time 4.428295s.
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.provenance" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject02.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w
.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/provenance".
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Executing
"provenance" <mriqc.interfaces.reports.AddProvenance>
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Finished
"PlotArtmask", elapsed time 4.032888s.
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Finished
"provenance", elapsed time 0.106294s.
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.ComputeQI2" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject02.suffixT1w.datatypeanat.extension.nii.
gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w
.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ComputeQI2".
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Executing
"ComputeQI2" <mriqc.interfaces.anatomical.ComputeQI2>
2026-04-09 04:17:04 | INFO | nipype.workflow | [Node] Finished
"PlotHeadmask", elapsed time 4.5196190000000005s.
2026-04-09 04:17:06 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotAirmask" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub
-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotAirmask".
0m
2026-04-09 04:17:06 | INFO | nipype.workflow | [Node] Executing
"PlotAirmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:17:06 | INFO
| nipype.workflow | [Node] Setting-up "mriqc_wf.anatMRIQC.anat_report_wf.P
lotArtmask" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/ana
t_report_wf/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..work
space..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.0099
9972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotArtmask".
2026-04-09 04:17:06 | INFO | nipype.workflow | [Node] Executing
"PlotArtmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:17:10 | INFO | nipype.workflow | [Node] Finished
"PlotArtmask", elapsed time 3.846719s.
2026-04-09 04:17:10 | INFO | nipype.workflow | [Node] Finished
"PlotAirmask", elapsed time 4.068076s.
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_headmask" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..an
at..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_repor
t_headmask".
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Executing
"ds_report_headmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Finished
"ds_report_headmask", elapsed time 0.01519s.
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotAirmask" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub
-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotAirmask".
[0m
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotArtmask" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.extensi
on.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub
-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotArtmask".
[0m
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Execu
ting "PlotAirmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Executing
"PlotArtmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:17:12 | INFO | nipype.workflow | [Node] Finished
"ComputeQI2", elapsed time 16.193628s.
2026-04-09 04:17:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_headmask" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..an
at..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_repo
rt_headmask".
2026-04-09 04:17:14 | INFO | nipype.workflow | [Node] Executing
"ds_report_headmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:14 | INFO | nipype.workflow | [Node] Finished
"ds_report_headmask", elapsed time 0.012315s.
2026-04-09 04:17:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_noisefit" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..an
at..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_repo
rt_noisefit".
2026-04-09 04:17:14 | INFO | nipype.workflow | [Node] Executing
"ds_report_noisefit" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:14 | INFO | nipype.workflow | [Node] Finished
"ds_report_noisefit", elapsed time 0.010004s.
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_airmask" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..ana
t..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_repor
t_airmask".
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Executing
"ds_report_airmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Finished
"ds_report_airmask", elapsed time 0.009057s.
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_artmask" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..ana
t..sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_repor
t_artmask".
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Executing
"ds_report_artmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Finished
"ds_report_artmask", elapsed time 0.012702s.
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_airmask" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..ana
t..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_report
_airmask".
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Executing
"ds_report_airmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Finished
"ds_report_airmask", elapsed time 0.011889s.
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_artmask" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..ana
t..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_report
_artmask".
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Executing
"ds_report_artmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:15 | INFO | nipype.workflow | [Node] Finished
"ds_report_artmask", elapsed time 0.011254s.
2026-04-09 04:17:16 | INFO | nipype.workflow | [Node] Finished
"PlotArtmask", elapsed time 3.794017s.
2026-04-09 04:17:17 | INFO | nipype.workflow | [Node] Finished
"PlotAirmask", elapsed time 4.309649s.
2026-04-09 04:17:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_airmask" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..ana
t..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_repor
t_airmask".
2026-04-09 04:17:18 | INFO | nipype.workflow | [Node] Executing
"ds_report_airmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:18 | INFO | nipype.workflow | [Node] Finished
"ds_report_airmask", elapsed time 0.011245s.
2026-04-09 04:17:19 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_artmask" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.e
xtension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..ana
t..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_repor
t_artmask".
2026-04-09 04:17:19 | INFO | nipype.workflow | [Node] Executing
"ds_report_artmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:19 | INFO | nipype.workflow | [Node] Finished
"ds_report_artmask", elapsed time 0.010457s.
2026-04-09 04:17:20 | INFO | nipype.workflow | [Node] Finished
"ComputeQI2", elapsed time 17.720791s.
2026-04-09 04:17:22 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_noisefit" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..an
at..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_repo
rt_noisefit".
2026-04-09 04:17:22 | INFO | nipype.workflow | [Node] Executing
"ds_report_noisefit" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:17:22 | INFO | nipype.workflow | [Node] Finished
"ds_report_noisefit", elapsed time 0.007716s.
2026-04-09 04:17:24 | INFO | nipype.workflow | [Node] Finished
"ComputeQI2", elapsed time 19.263615s.
2026-04-09 04:17:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.brain_tissue_segmentation.segmentation" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/brain_tissue_segmentation/_entities_subject02.suffixT
1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds00
0102..sub-02..anat..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfV
olumes1/segmentation".
2026-04-09 04:17:24 | INFO | nipype.workflow | [Node] Executing
"segmentation" <nipype.interfaces.ants.segmentation.Atropos>
2026-04-09 04:18:35 | INFO | nipype.workflow | [Node] Finished
"segmentation", elapsed time 125.538643s.
2026-04-09 04:18:36 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.brain_tissue_segmentation.segmentation" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/anatMRIQC/brain_tissue_segmentation/_entities_subject03.suffixT
1w.datatypeanat.extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds00
0102..sub-03..anat..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOf
Volumes1/segmentation".
2026-04-09 04:18:36 | INFO | nipype.workflow
0m| [Node] Executing "segmentation" <nipype.interfaces.ants.segmentation.Atropos>
2026-04-09 04:19:13 | INFO | nipype.workflow | [Node] Finished
"segmentation", elapsed time 109.228678s.
2026-04-09 04:19:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_noisefit" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.
extension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..an
at..sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_repor
t_noisefit".
2026-04-09 04:19:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.harmonize" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject01.suffixT1w.datatypeanat.extension.nii.g
z_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.
nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/harmonize".
2026-0
4-09 04:19:14 | INFO | nipype.workflow | [Node] Setting-up "mri
qc_wf.anatMRIQC.anat_report_wf.PlotSegmentation" in "/home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.extensio
n.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-
01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/PlotSegmentatio
n".
2026-04-09 04:19:14 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.harmonize" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject02.suffixT1w.datatypeanat.extension.nii.g
z_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.
nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/harmonize".
2026-04
-09 04:19:14 | INFO | nipype.workflow | [Node] Setting-up "mriq
c_wf.anatMRIQC.anat_report_wf.PlotSegmentation" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.extension
.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-0
2_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/PlotSegmentation"
.
2026-04-09 04:19:14 | INFO | nipype.workflow | [Node] Exe
cuting "harmonize" <mriqc.interfaces.anatomical.Harmonize>
2026-04-09 04:19:14 | INFO
| nipype.workflow | [Node] Executing "PlotSegmentation" <nireports.interf
aces.mosaic.PlotContours>
2026-04-09 04:19:14 | INFO | nipype.workflow
| [Node] Executing "ds_report_noisefit" <mriqc.interfaces.DerivativesDataSink>
2026-
04-09 04:19:14 | INFO | nipype.workflow | [Node] Executing "har
monize" <mriqc.interfaces.anatomical.Harmonize>
2026-04-09 04:19:14 | INFO |34
;20m nipype.workflow | [Node] Executing "PlotSegmentation" <nireports.interfaces.mosaic
.PlotContours>
2026-04-09 04:19:14 | INFO | nipype.workflow | [Node] Finished
"ds_report_noisefit", elapsed time 0.024983s.
2026-04-09 04:19:16 | INFO | nipype.workflow | [Node] Finished
"harmonize", elapsed time 1.971786s.
2026-04-09 04:19:16 | INFO | nipype.workflow | [Node] Finished
"harmonize", elapsed time 2.11007s.
2026-04-09 04:19:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.measures" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.n
ii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/measures".
2026-04-09 04:19:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.measures" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.n
ii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/measures".
2026-04-09 04:19:18 | INFO | nipype.workflow | [Node] Executing
"measures" <mriqc.interfaces.anatomical.StructuralQC>
2026-04-09 04:19:18 | INFO | nipype.workflow | [Node] Executing
"measures" <mriqc.interfaces.anatomical.StructuralQC>
2026-04-09 04:19:19 | INFO | nipype.workflow | [Node] Finished
"PlotSegmentation", elapsed time 4.363867s.
2026-04-09 04:19:19 | INFO | nipype.workflow | [Node] Finished
"PlotSegmentation", elapsed time 4.591427s.
2026-04-09 04:19:20 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_segm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject01.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..
sub-01_T1w.nii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/ds_report_s
egm".
2026-04-09 04:19:20 | INFO | nipype.workflow | [Node] Executing
"ds_report_segm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:19:20 | INFO | nipype.workflow | [Node] Finished
"ds_report_segm", elapsed time 0.005285s.
2026-04-09 04:19:20 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_segm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject02.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..
sub-02_T1w.nii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/ds_report_se
gm".
2026-04-09 04:19:20 | INFO | nipype.workflow | [Node] Executing
"ds_report_segm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:19:20 | INFO
| nipype.workflow | [Node] Finished "ds_report_segm", elapsed time 0.005799
s.
2026-04-09 04:19:23 | WARNING | nipype.interface | Estimated signal
variation in the background was too small (MAD=0.0, sigma=11.7674)
2026-04-09 04:19:23 |93;20
m WARNING | nipype.interface | Estimated signal variation in the background
was too small (MAD=0.0, sigma=11.7674)
2026-04-09 04:19:23 | WARNING | nip
ype.interface | Estimated signal variation in the background was too small (MAD=0.0, sig
ma=11.7674)
2026-04-09 04:19:32 | INFO | nipype.workflow | [Node] Finished
"measures", elapsed time 14.145185s.
2026-04-09 04:19:33 | INFO | nipype.workflow | [Node] Finished
"measures", elapsed time 15.040247s.
2026-04-09 04:19:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.datasink" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject01.suffixT1w.datatypeanat.extension.nii.gz
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-01..anat..sub-01_T1w.n
ii.gz_metadata_FileSize0.009854432195425034.FileSizeUnitsGB.NumberOfVolumes1/datasink".
2026-04-09 04:19:34 | INFO | nipype.workflow | [Node] Executing
"datasink" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:19:34 | INFO | nipype.workflow | [Node] Finished
"datasink", elapsed time 0.002195s.
2026-04-09 04:19:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.datasink" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject02.suffixT1w.datatypeanat.extension.nii.gz
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-02..anat..sub-02_T1w.n
ii.gz_metadata_FileSize0.00999972503632307.FileSizeUnitsGB.NumberOfVolumes1/datasink".
2026-04-09 04:19:34 | INFO | nipype.workflow | [Node] Executing
"datasink" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:19:34 | INFO | nipype.workflow | [Node] Finished
"datasink", elapsed time 0.000616s.
2026-04-09 04:20:28 | INFO | nipype.workflow | [Node] Finished
"segmentation", elapsed time 112.170387s.
2026-04-09 04:20:30 | INFO | nipype.workflow | [Node] Setting-u
p "_apply_hmc0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/fMRI_HMC/638fdb324f8e2f95caebb232802d9e85ac60de52/apply_hmc/mapflow/_apply_hmc0".
2026-04-09 04:20:30 | INFO | nipype.workflow | [Node] Executing
"_apply_hmc0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:20:36 | INFO | nipype.workflow | [Node] Finished
"_apply_hmc0", elapsed time 6.227587s.
2026-04-09 04:20:38 | INFO | nipype.workflow | [Node] Setting-u
p "_apply_hmc0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/fMRI_HMC/881c1637a95c5470a9299f17894e4fc970c98b2a/apply_hmc/mapflow/_apply_hmc0".
2026-04-09 04:20:38 | INFO | nipype.workflow | [Node] Executing
"_apply_hmc0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:20:44 | INFO | nipype.workflow | [Node] Finished
"_apply_hmc0", elapsed time 5.715629s.
2026-04-09 04:20:44 | INFO | nipype.workflow | [Node] Setting-u
p "_apply_hmc0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/fMRI_HMC/f726dd545bccfac02a8ae8e2a462a8ed07117e50/apply_hmc/mapflow/_apply_hmc0".
2026-04-09 04:20:44 | INFO | nipype.workflow | [Node] Executing
"_apply_hmc0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:20:50 | INFO | nipype.workflow | [Node] Finished
"_apply_hmc0", elapsed time 6.322577s.
2026-04-09 04:20:52 | INFO | nipype.workflow | [Node] Setting-u
p "_apply_hmc0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/fMRI_HMC/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/apply_hmc/mapflow/_apply_hmc0".
2026-04-09 04:20:52 | INFO | nipype.workflow | [Node] Executing
"_apply_hmc0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:20:58 | INFO | nipype.workflow | [Node] Finished
"_apply_hmc0", elapsed time 6.419476s.
2026-04-09 04:21:00 | INFO | nipype.workflow | [Node] Setting-u
p "_apply_hmc0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/fMRI_HMC/84d3c8fd70b53d5d7c4675069f5b41664a443c63/apply_hmc/mapflow/_apply_hmc0".
2026-04-09 04:21:00 | INFO | nipype.workflow | [Node] Executing
"_apply_hmc0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:21:06 | INFO | nipype.workflow | [Node] Finished
"_apply_hmc0", elapsed time 5.764996s.
2026-04-09 04:21:06 | INFO | nipype.workflow | [Node] Setting-u
p "_apply_hmc0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC
/fMRI_HMC/ef8adc97cda9d7f01da8d4442209d91cc6b20159/apply_hmc/mapflow/_apply_hmc0".
2026-04-09 04:21:06 | INFO | nipype.workflow | [Node] Executing
"_apply_hmc0" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:21:11 | INFO | nipype.workflow | [Node] Finished
"_apply_hmc0", elapsed time 5.363112s.
2026-04-09 04:21:12 | INFO | nipype.workflow | [Node] Setting-u
p "_quality0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/C
omputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/quality/mapflow/_quality0".
2026-04-09 04:21:12 | INFO | nipype.workflow | [Node] Setting-u
p "_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/638f
db324f8e2f95caebb232802d9e85ac60de52/mean/mapflow/_mean0".
2026-04-09 04:21:12 | INFO
| nipype.workflow | [Node] Executing "_quality0" <nipype.interfaces.afni.
preprocess.QualityIndex>
2026-04-09 04:21:12 | INFO | nipype.workflow
[0m| [Node] Setting-up "_compute_tsnr0" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/638fdb324f8e2f95caebb232802d9e85ac60de52/compute_tsnr/mapflow/_comp
ute_tsnr0".
2026-04-09 04:21:12 | INFO | nipype.workflow | [Node] Executing
"_mean0" <nipype.interfaces.afni.utils.TStat>
2026-04-09 04:21:12 | INFO |34;
20m nipype.workflow | [Node] Executing "_compute_tsnr0" <nipype.algorithms.confounds.TS
NR>
2026-04-09 04:21:12 | INFO | nipype.workflow | [Node] S
etting-up "_compute_tsnr0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/881c1637a95c5470a9299f17894e4fc970c98b2a/compute_tsnr/mapflow/_compute_tsnr0".
2026-
04-09 04:21:12 | INFO | nipype.workflow | [Node] Setting-up "_m
ean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/881c1637a
95c5470a9299f17894e4fc970c98b2a/mean/mapflow/_mean0".
2026-04-09 04:21:12 | INFO 0
m| nipype.workflow | [Node] Setting-up "_quality0" in "/home/jovyan/workspace/b
ooks/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/881c1637a95c5470a9299f17894e4fc
970c98b2a/quality/mapflow/_quality0".
2026-04-09 04:21:12 | INFO | nipyp
e.workflow | [Node] Executing "_compute_tsnr0" <nipype.algorithms.confounds.TSNR>
2
026-04-09 04:21:12 | INFO | nipype.workflow | [Node] Executing
"_mean0" <nipype.interfaces.afni.utils.TStat>
2026-04-09 04:21:12 | INFO |34;2
0m nipype.workflow | [Node] Executing "_quality0" <nipype.interfaces.afni.preprocess.Qu
alityIndex>
2026-04-09 04:21:13 | INFO | nipype.workflow | [Node] Finished
"_compute_tsnr0", elapsed time 0.840673s.
2026-04-09 04:21:13 | INFO | nipype.workflow | [Node] Finished
"_compute_tsnr0", elapsed time 0.94087s.
2026-04-09 04:21:13 | INFO | nipype.workflow | [Node] Finished
"_mean0", elapsed time 1.200127s.
2026-04-09 04:21:13 | INFO | nipype.workflow | [Node] Finished
"_mean0", elapsed time 1.398836s.
2026-04-09 04:21:14 | INFO | nipype.workflow | [Node] Setting-u
p "_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f726
dd545bccfac02a8ae8e2a462a8ed07117e50/mean/mapflow/_mean0".
2026-04-09 04:21:14 | INFO | nipype.workflow | [Node] Setting-u
p "_quality0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/C
omputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/quality/mapflow/_quality0".
2026-04-09 04:21
:14 | INFO | nipype.workflow | [Node] Setting-up "_mean0" in "/
home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/52ac1ed04d2d15315a3f
a8069651cb7a73e1c9ae/mean/mapflow/_mean0".
2026-04-09 04:21:14 | INFO |
nipype.workflow | [Node] Setting-up "_compute_tsnr0" in "/home/jovyan/workspace/books/e
xamples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f726dd545bccfac02a8ae8e2a462a8ed07117e50/compute_
tsnr/mapflow/_compute_tsnr0".
2026-04-09 04:21:14 | INFO | nipype.workflow | [Node] Executing
"_quality0" <nipype.interfaces.afni.preprocess.QualityIndex>
2026-04-09 04:21:14 | INFO
| nipype.workflow | [Node] Executing "_mean0" <nipype.interfaces.afni.
utils.TStat>
2026-04-09 04:21:14 | INFO | nipype.workflow |
[Node] Executing "_mean0" <nipype.interfaces.afni.utils.TStat>
2026-04-09 04:21:14 | IN
FO | nipype.workflow | [Node] Executing "_compute_tsnr0" <nipype.algori
thms.confounds.TSNR>
2026-04-09 04:21:14 | INFO | nipype.workflow | [Node] Finished
"_quality0", elapsed time 2.114801s.
2026-04-09 04:21:15 | INFO | nipype.workflow | [Node] Finished
"_quality0", elapsed time 2.4630929999999998s.
2026-04-09 04:21:15 | INFO | nipype.workflow | [Node] Finished
"_mean0", elapsed time 0.790726s.
2026-04-09 04:21:15 | INFO | nipype.workflow | [Node] Finished
"_mean0", elapsed time 0.829368s.
2026-04-09 04:21:15 | INFO | nipype.workflow | [Node] Finished
"_compute_tsnr0", elapsed time 0.846668s.
2026-04-09 04:21:16 | INFO | nipype.workflow | [Node] Finished
"_quality0", elapsed time 1.495326s.
2026-04-09 04:21:16 | INFO | nipype.workflow | [Node] Setting-u
p "_compute_tsnr0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/compute_tsnr/mapflow/_compute_tsnr0".
2026-04-09 04:21:16 | INFO | nipype.workflow | [Node] Setting-u
p "_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/84d3
c8fd70b53d5d7c4675069f5b41664a443c63/mean/mapflow/_mean0".
2026-04-09 04:21:16 | INFO
| nipype.workflow | [Node] Executing "_compute_tsnr0" <nipype.algorithms.
confounds.TSNR>
2026-04-09 04:21:16 | INFO | nipype.workflow |34;
20m [Node] Setting-up "_quality0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/
mriqc_wf/funcMRIQC/ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/quality/mapflow/_quality0".
[0m
2026-04-09 04:21:16 | INFO | nipype.workflow | [Node] Execu
ting "_quality0" <nipype.interfaces.afni.preprocess.QualityIndex>
2026-04-09 04:21:16 |
INFO | nipype.workflow | [Node] Executing "_mean0" <nipype.interfaces.a
fni.utils.TStat>
2026-04-09 04:21:16 | INFO | nipype.workflow |34
;20m [Node] Setting-up "_compute_tsnr0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_wo
rkdir/mriqc_wf/funcMRIQC/84d3c8fd70b53d5d7c4675069f5b41664a443c63/compute_tsnr/mapflow/_compute_tsnr
0".
2026-04-09 04:21:16 | INFO | nipype.workflow | [Node] S
etting-up "_quality0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/quality/mapflow/_quality0".
2026-04-09 04:21:16 | INFO | nipype.workflow | [Node] Executing
"_quality0" <nipype.interfaces.afni.preprocess.QualityIndex>
2026-04-09 04:21:16 | INFO
| nipype.workflow | [Node] Setting-up "_mean0" in "/home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ef8adc97cda9d7f01da8d4442209d91cc6b201
59/mean/mapflow/_mean0".
2026-04-09 04:21:16 | INFO | nipype.workflow
[0m| [Node] Executing "_mean0" <nipype.interfaces.afni.utils.TStat>
2026-04-09 04:21:16
| INFO | nipype.workflow | [Node] Executing "_compute_tsnr0" <n
ipype.algorithms.confounds.TSNR>
2026-04-09 04:21:17 | INFO | nipype.workflow | [Node] Finished
"_compute_tsnr0", elapsed time 0.879812s.
2026-04-09 04:21:17 | INFO | nipype.workflow | [Node] Finished
"_compute_tsnr0", elapsed time 1.111914s.
2026-04-09 04:21:17 | INFO | nipype.workflow | [Node] Finished
"_mean0", elapsed time 1.20736s.
2026-04-09 04:21:17 | INFO | nipype.workflow | [Node] Finished
"_mean0", elapsed time 1.295868s.
2026-04-09 04:21:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/pre_clip".
2026-04-09 04:21:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/638fdb324f8e2f95caebb232802d9e85ac60de5
2/SharpenEPI".
2026-04-09 04:21:18 | INFO | nipype.workflow |34;2
0m [Node] Setting-up "_quality0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/m
riqc_wf/funcMRIQC/ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/quality/mapflow/_quality0".
0m
2026-04-09 04:21:18 | INFO | nipype.workflow | [Node] Settin
g-up "_compute_tsnr0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/ef8adc97cda9d7f01da8d4442209d91cc6b20159/compute_tsnr/mapflow/_compute_tsnr0".
2026-04-09
04:21:18 | INFO | nipype.workflow | [Node] Executing "_quality
0" <nipype.interfaces.afni.preprocess.QualityIndex>
2026-04-09 04:21:18 | INFO |
nipype.workflow | [Node] Executing "_compute_tsnr0" <nipype.algorithms.confoun
ds.TSNR>
2026-04-09 04:21:18 | INFO | nipype.workflow | [No
de] Executing "SharpenEPI" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:18 | INFO | nipype.workflow | [Node] Executing
"pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:21:18 | INFO | nipype.workflow | [Node] Finished
"_quality0", elapsed time 2.16595s.
2026-04-09 04:21:18 | INFO | nipype.workflow | [Node] Finished
"_quality0", elapsed time 2.373506s.
2026-04-09 04:21:19 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 0.44532s.
2026-04-09 04:21:19 | INFO | nipype.workflow | [Node] Finished
"_compute_tsnr0", elapsed time 0.533886s.
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/pre_clip".
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicMean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/PlotMosaicMean/mapflow/_PlotMosaicMean
0".
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Executing
"pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:21:20 | INFO
| nipype.workflow | [Node] Executing "_PlotMosaicMean0" <nireports.interf
aces.mosaic.PlotMosaic>
2026-04-09 04:21:20 | INFO | nipype.workflow
0m| [Node] Setting-up "_PlotMosaicNoise0" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/PlotMosai
cNoise/mapflow/_PlotMosaicNoise0".
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicNoise0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicSD0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/PlotMosaicSD/mapflow/_PlotMosaicSD0".0
m
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicSD0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:20 | INFO | nipype.workflow | [Node] Finished
"_quality0", elapsed time 2.053795s.
2026-04-09 04:21:21 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 0.658985s.
2026-04-09 04:21:21 | INFO | nipype.workflow | [Node] Finished
"SharpenEPI", elapsed time 3.216483s.
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicNoise0", elapsed time 1.847577s.
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicSD0", elapsed time 1.844098s.
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicMean0", elapsed time 1.951422s.
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/881c1637a95c5470a9299f17894e4fc970c98b2
a/SharpenEPI".
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Executing
"SharpenEPI" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicMean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/PlotMosaicMean/mapflow/_PlotMosaicMean
0".
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicNoise0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/PlotMosaicNoise/mapflow/_PlotMosaicNo
ise0".
2026-04-09 04:21:22 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicNoise0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:22 | INFO
| nipype.workflow | [Node] Executing "_PlotMosaicMean0" <nireports.int
erfaces.mosaic.PlotMosaic>
2026-04-09 04:21:23 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicMean0", elapsed time 1.41035s.
2026-04-09 04:21:24 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicNoise0", elapsed time 1.647705s.
2026-04-09 04:21:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/pre_clip".
2026-04-09 04:21:24 | INFO | nipype.workflow | [Node] Setting-
up "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/f726dd545bccfac02a8ae8e2a462a8ed07117e
50/SharpenEPI".
2026-04-09 04:21:24 | INFO | nipype.workflow | [Node] Executing
"pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:21:24 | INFO
| nipype.workflow | [Node] Executing "SharpenEPI" <nipype.interfaces.ants
.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:24 | INFO | nipype
.workflow | [Node] Setting-up "_PlotMosaicSD0" in "/home/jovyan/workspace/books/example
s/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a
/PlotMosaicSD/mapflow/_PlotMosaicSD0".
2026-04-09 04:21:24 | INFO | nipy
pe.workflow | [Node] Setting-up "_PlotMosaicNoise0" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed071
17e50/PlotMosaicNoise/mapflow/_PlotMosaicNoise0".
2026-04-09 04:21:24 | INFO |
34;20m nipype.workflow | [Node] Executing "_PlotMosaicNoise0" <nireports.interfaces.mos
aic.PlotMosaic>
2026-04-09 04:21:24 | INFO | nipype.workflow |34;
20m [Node] Setting-up "_PlotMosaicMean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_w
orkdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/PlotMosaicMean/map
flow/_PlotMosaicMean0".
2026-04-09 04:21:24 | INFO | nipype.workflow
0m| [Node] Executing "_PlotMosaicSD0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-0
9 04:21:24 | INFO | nipype.workflow | [Node] Executing "_PlotMo
saicMean0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:24 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 0.360928s.
2026-04-09 04:21:25 | INFO | nipype.workflow | [Node] Finished
"SharpenEPI", elapsed time 2.864437s.
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicNoise0", elapsed time 1.900248s.
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicSD0", elapsed time 1.91089s.
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicMean0", elapsed time 1.9469699999999999s.
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/pre_clip".
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicSD0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/PlotMosaicSD/mapflow/_PlotMosaicSD0".0
m
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Executi
ng "pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicSD0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:26 | INFO | nipype.workflow | [Node] Finished
"SharpenEPI", elapsed time 2.284303s.
2026-04-09 04:21:27 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 0.668302s.
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicSD0", elapsed time 1.6610909999999999s.
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9a
e/SharpenEPI".
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Executing
"SharpenEPI" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/pre_clip".
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Setting-
up "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/wo
rkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b41664a443c
63/SharpenEPI".
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Executing
"pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:21:28 | INFO
| nipype.workflow | [Node] Setting-up "_PlotMosaicMean0" in "/home/jovyan
/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d1531
5a3fa8069651cb7a73e1c9ae/PlotMosaicMean/mapflow/_PlotMosaicMean0".
2026-04-09 04:21:28 |
INFO | nipype.workflow | [Node] Executing "SharpenEPI" <nipype.interfa
ces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:28 | INFO |34;20
m nipype.workflow | [Node] Setting-up "_PlotMosaicNoise0" in "/home/jovyan/workspace/bo
oks/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651c
b7a73e1c9ae/PlotMosaicNoise/mapflow/_PlotMosaicNoise0".
2026-04-09 04:21:28 | INFO
[0m| nipype.workflow | [Node] Setting-up "_PlotMosaicSD0" in "/home/jovyan/work
space/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa
8069651cb7a73e1c9ae/PlotMosaicSD/mapflow/_PlotMosaicSD0".
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicSD0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:28 | INFO
| nipype.workflow | [Node] Executing "_PlotMosaicNoise0" <nireports.inter
faces.mosaic.PlotMosaic>
2026-04-09 04:21:28 | INFO | nipype.workflow
[0m| [Node] Executing "_PlotMosaicMean0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:28 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 0.375028s.
2026-04-09 04:21:29 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicSD0", elapsed time 1.351302s.
2026-04-09 04:21:30 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicNoise0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/PlotMosaicNoise/mapflow/_PlotMosaicNo
ise0".
2026-04-09 04:21:30 | INFO | nipype.workflow | [Node
] Setting-up "_PlotMosaicMean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mr
iqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/PlotMosaicMean/mapflow/_Plo
tMosaicMean0".
2026-04-09 04:21:30 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicMean0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:30 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicNoise0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:30 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicMean0", elapsed time 1.99999s.
2026-04-09 04:21:30 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicNoise0", elapsed time 2.218284s.
2026-04-09 04:21:31 | INFO | nipype.workflow | [Node] Finished
"SharpenEPI", elapsed time 2.848934s.
2026-04-09 04:21:31 | INFO | nipype.workflow | [Node] Finished
"SharpenEPI", elapsed time 3.139699s.
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicNoise0", elapsed time 1.707569s.
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicSD0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/PlotMosaicSD/mapflow/_PlotMosaicSD0".0
m
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicSD0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.SharpenEPI" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/ef8adc97cda9d7f01da8d4442209d91cc6b2015
9/SharpenEPI".
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_clip" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/pre_clip".
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Executing
"SharpenEPI" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Executing
"pre_clip" <niworkflows.interfaces.nibabel.IntensityClip>
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicMean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/PlotMosaicMean/mapflow/_PlotMosaicMean
0".
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicNoise0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/PlotMosaicNoise/mapflow/_PlotMosaicNo
ise0".
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node
] Executing "_PlotMosaicMean0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:32 |3
4;20m INFO | nipype.workflow | [Node] Executing "_PlotMosaicNoise0" <ni
reports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:32 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicMean0", elapsed time 2.249042s.
2026-04-09 04:21:33 | INFO | nipype.workflow | [Node] Finished
"pre_clip", elapsed time 0.628396s.
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicNoise0", elapsed time 1.505335s.
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicMean0", elapsed time 1.635791s.
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicSD0", elapsed time 1.847992s.
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/pre_n4".
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicSD0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/PlotMosaicSD/mapflow/_PlotMosaicSD0".0
m
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicSD0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:21:34 | INFO
| nipype.workflow | [Node] Setting-up "_ds_report_mean0" in "/home/jovyan
/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95
caebb232802d9e85ac60de52/ds_report_mean/mapflow/_ds_report_mean0".
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Executing
"_ds_report_mean0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Finished
"_ds_report_mean0", elapsed time 0.012903s.
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_background0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_report_background/mapflow/_ds
_report_background0".
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Executing
"_ds_report_background0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:34 | INFO | nipype.workflow | [Node] Finished
"_ds_report_background0", elapsed time 0.011269s.
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_stdev0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_report_stdev/mapflow/_ds_report_st
dev0".
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Executing
"_ds_report_stdev0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Finished
"_ds_report_stdev0", elapsed time 0.010971s.
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/pre_n4".
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_report_mean/mapflow/_ds_report_mean
0".
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Executing
"_ds_report_mean0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Finished
"_ds_report_mean0", elapsed time 0.010286s.
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Finished
"SharpenEPI", elapsed time 3.1431649999999998s.
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_background0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_report_background/mapflow/_ds
_report_background0".
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Executing
"_ds_report_background0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:35 | INFO | nipype.workflow | [Node] Finished
"_ds_report_background0", elapsed time 0.012445s.
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicSD0", elapsed time 1.473039s.
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_stdev0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_report_stdev/mapflow/_ds_report_st
dev0".
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Executing
"_ds_report_stdev0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Finished
"_ds_report_stdev0", elapsed time 0.011223s.
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/pre_n4".
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_report_mean/mapflow/_ds_report_mean
0".
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Executing
"_ds_report_mean0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Finished
"_ds_report_mean0", elapsed time 0.011039s.
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_background0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_report_background/mapflow/_ds
_report_background0".
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Executing
"_ds_report_background0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Finished
"_ds_report_background0", elapsed time 0.011871s.
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 2.394242s.
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_stdev0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_report_stdev/mapflow/_ds_report_st
dev0".
2026-04-09 04:21:36 | INFO | nipype.workflow | [Node] Executing
"_ds_report_stdev0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Finished
"_ds_report_stdev0", elapsed time 0.008397s.
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/pre_n4".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_report_mean/mapflow/_ds_report_mean
0".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Executing
"_ds_report_mean0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:37 | INFO
| nipype.workflow | [Node] Executing "pre_n4" <nipype.interfaces.ants.seg
mentation.N4BiasFieldCorrection>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Finished
"_ds_report_mean0", elapsed time 0.007055s.
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_background0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_report_background/mapflow/_ds
_report_background0".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Executing
"_ds_report_background0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Finished
"_ds_report_background0", elapsed time 0.006874s.
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_stdev0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_report_stdev/mapflow/_ds_report_st
dev0".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Executing
"_ds_report_stdev0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Finished
"_ds_report_stdev0", elapsed time 0.0065s.
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/pre_n4".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_report_mean/mapflow/_ds_report_mean
0".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Executing
"_ds_report_mean0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Finished
"_ds_report_mean0", elapsed time 0.005644s.
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_background0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_report_background/mapflow/_ds
_report_background0".
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Executing
"_ds_report_background0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:37 | INFO | nipype.workflow | [Node] Finished
"_ds_report_background0", elapsed time 0.011071s.
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_stdev0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_report_stdev/mapflow/_ds_report_st
dev0".
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Executing
"_ds_report_stdev0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Finished
"_ds_report_stdev0", elapsed time 0.010795s.
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.pre_n4" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/pre_n4".
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Executing
"pre_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 2.727178s.
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_mean0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/func
MRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_report_mean/mapflow/_ds_report_mean
0".
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Executing
"_ds_report_mean0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Finished
"_ds_report_mean0", elapsed time 0.010816s.
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_background0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_w
f/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_report_background/mapflow/_ds
_report_background0".
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Executing
"_ds_report_background0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Finished
"_ds_report_background0", elapsed time 0.010761s.
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_stdev0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_report_stdev/mapflow/_ds_report_st
dev0".
2026-04-09 04:21:38 | INFO | nipype.workflow | [Node] Executing
"_ds_report_stdev0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:21:39 | INFO | nipype.workflow | [Node] Finished
"_ds_report_stdev0", elapsed time 0.009106s.
2026-04-09 04:21:39 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 2.813149s.
2026-04-09 04:21:39 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/synthstrip".
2026-04-09 04:21:39 | INFO | nipype.workflow | [Node] Executing
"synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 2.836923s.
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/synthstrip".
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Executing
"synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/synthstrip".
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Sett
ing-up "mriqc_wf.funcMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/synthst
rip".
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Executing
"synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:21:40 | INFO
0m| nipype.workflow | [Node] Executing "synthstrip" <mriqc.interfaces.synthstri
p.SynthStrip>
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 2.859831s.
2026-04-09 04:21:40 | INFO | nipype.workflow | [Node] Finished
"pre_n4", elapsed time 2.3555289999999998s.
2026-04-09 04:21:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/synthstrip".
2026-04-09 04:21:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.synthstrip" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/synthstrip".
2026-04-09 04:21:42 | INFO | nipype.workflow | [Node] Exec
uting "synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:21:42 | INFO | nipype.workflow | [Node] Executing
"synthstrip" <mriqc.interfaces.synthstrip.SynthStrip>
2026-04-09 04:22:10 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 30.152953s.
2026-04-09 04:22:11 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 30.93799s.
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 32.988226s.
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/post_n4".
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/638fdb324f8e2f95caebb232802d9e85ac60de52/E
PI2MNI".
2026-04-09 04:22:12 | INFO | nipype.workflow | [No
de] Executing "post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Executing
"EPI2MNI" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
2026-04-09 0
4:22:12 | INFO | niworkflows | Estimating initial transform
using AffineInitializer
2026-04-09 04:22:12 | INFO | nipype.workflow
[0m| [Node] Setting-up "_ComputeDVARS0" in "/home/jovyan/workspace/books/examples/workflows/
MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/ComputeDVARS/m
apflow/_ComputeDVARS0".
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Executing
"_ComputeDVARS0" <nipype.algorithms.confounds.ComputeDVARS>
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 32.343444s.
2026-04-09 04:22:12 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 30.390473s.
2026-04-09 04:22:14 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 1.580282s.
2026-04-09 04:22:14 | INFO | nipype.workflow | [Node] Finished
"synthstrip", elapsed time 31.9749s.
2026-04-09 04:22:14 | INFO | nipype.workflow | [Node] Setting-u
p "_smoothness0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/smoothness/mapflow/_smoothness0".
2026-04-09 04:22:14 | INFO | nipype.workflow | [Node] Setting-u
p "_outliers0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/outliers/mapflow/_outliers0".
2026-04-09 04
:22:14 | INFO | nipype.workflow | [Node] Setting-up "_gcor0" in
"/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/638fd
b324f8e2f95caebb232802d9e85ac60de52/gcor/mapflow/_gcor0".
2026-04-09 04:22:14 | INFO | nipype.workflow | [Node] Executing
"_gcor0" <mriqc.interfaces.transitional.GCOR>
2026-04-09 04:22:14 | INFO |34;
20m nipype.workflow | [Node] Executing "_outliers0" <nipype.interfaces.afni.preprocess.
OutlierCount>
2026-04-09 04:22:14 | INFO | nipype.workflow | [Node] Executing
"_smoothness0" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:22:15 | INFO | nipype.workflow | [Node] Finished
"_smoothness0", elapsed time 0.423796s.
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Finished
"_outliers0", elapsed time 1.416568s.
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.dilated_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/dilated_
mask".
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/PlotBra
inmask".
2026-04-09 04:22:16 | INFO | nipype.workflow | [No
de] Executing "dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:22:16 | INFO
| nipype.workflow | [Node] Setting-up "_PlotMosaicZoomed0" in "/home/jov
yan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2
f95caebb232802d9e85ac60de52/PlotMosaicZoomed/mapflow/_PlotMosaicZoomed0".
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicZoomed0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Finished
"dilated_mask", elapsed time 0.032305s.
2026-04-09 04:22:16 | INFO | nipype.workflow | [Node] Finished
"_gcor0", elapsed time 2.360474s.
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicZoomed0", elapsed time 1.543385s.
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 1.605734s.
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/post_n4".
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/881c1637a95c5470a9299f17894e4fc970c98b2a/E
PI2MNI".
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Executing
"post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Executing
"EPI2MNI" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
2026-04-09 04:22:18 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Setting-u
p "_smoothness0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/smoothness/mapflow/_smoothness0".
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Setting-u
p "_ComputeDVARS0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/ComputeDVARS/mapflow/_ComputeDVARS0".
2026-04-09 04:22:18 | INFO | nipype.workflow | [Node] Executing
"_smoothness0" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:22:18 | INFO
| nipype.workflow | [Node] Executing "_ComputeDVARS0" <nipype.algorithms.confou
nds.ComputeDVARS>
2026-04-09 04:22:19 | INFO | nipype.workflow | [Node] Finished
"_smoothness0", elapsed time 0.642059s.
2026-04-09 04:22:19 | INFO | nipype.workflow | [Node] Finished
"_ComputeDVARS0", elapsed time 7.383583s.
2026-04-09 04:22:20 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 1.814602s.
2026-04-09 04:22:20 | INFO | nipype.workflow | [Node] Setting-u
p "_outliers0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/outliers/mapflow/_outliers0".
2026-04-09 04:22:20 | INFO | nipype.workflow | [Node] Setting-u
p "_gcor0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Comp
uteIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/gcor/mapflow/_gcor0".
2026-04-09 04:22:20 |34
;20m INFO | nipype.workflow | [Node] Executing "_outliers0" <nipype.int
erfaces.afni.preprocess.OutlierCount>
2026-04-09 04:22:20 | INFO | nipyp
e.workflow | [Node] Executing "_gcor0" <mriqc.interfaces.transitional.GCOR>
2026-04-09 04:22:22 | INFO | nipype.workflow | [Node] Finished
"_outliers0", elapsed time 1.6135009999999999s.
2026-04-09 04:22:22 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.dilated_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/dilated_
mask".
2026-04-09 04:22:22 | INFO | nipype.workflow | [Node
] Executing "dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
2026-04-09 04:22:2
2 | INFO | nipype.workflow | [Node] Setting-up "_PlotMosaicZoom
ed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_repor
t_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/PlotMosaicZoomed/mapflow/_PlotMosaicZoomed0".
2026
-04-09 04:22:22 | INFO | nipype.workflow | [Node] Executing "_P
lotMosaicZoomed0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:22:22 | INFO | nipype.workflow | [Node] Finished
"dilated_mask", elapsed time 0.021373s.
2026-04-09 04:22:22 | INFO | nipype.workflow | [Node] Finished
"_gcor0", elapsed time 2.125587s.
2026-04-09 04:22:23 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicZoomed0", elapsed time 1.380119s.
2026-04-09 04:22:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/PlotBra
inmask".
2026-04-09 04:22:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/post_n4".
2026-04-09 04:22:24 | INFO | nipype.workflow | [Node] Executing
"post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:22:24 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:22:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/f726dd545bccfac02a8ae8e2a462a8ed07117e50/E
PI2MNI".
2026-04-09 04:22:24 | INFO | nipype.workflow | [Node] Executing
"EPI2MNI" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
2026-04-09 04:22:24 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:22:25 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 1.07214s.
2026-04-09 04:22:26 | INFO | nipype.workflow | [Node] Finished
"_ComputeDVARS0", elapsed time 7.670798s.
2026-04-09 04:22:26 | INFO | nipype.workflow | [Node] Setting-u
p "_ComputeDVARS0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ComputeDVARS/mapflow/_ComputeDVARS0".
2026-04-09 04:22:26 | INFO | nipype.workflow | [Node] Executing
"_ComputeDVARS0" <nipype.algorithms.confounds.ComputeDVARS>
2026-04-09 04:22:26 | INFO | nipype.workflow | [Node] Setting-u
p "_smoothness0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/smoothness/mapflow/_smoothness0".
2026-04-09 04:22:26 | INFO | nipype.workflow | [Node] Executing
"_smoothness0" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:22:26 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 2.008292s.
2026-04-09 04:22:27 | INFO | nipype.workflow | [Node] Finished
"_smoothness0", elapsed time 0.551818s.
2026-04-09 04:22:28 | INFO | nipype.workflow | [Node] Setting-u
p "_gcor0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Comp
uteIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/gcor/mapflow/_gcor0".
2026-04-09 04:22:28 | INFO | nipype.workflow | [Node] Setting-u
p "_outliers0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/outliers/mapflow/_outliers0".
2026-04-09 04:22:28 | INFO | nipype.workflow | [Node] Executing
"_outliers0" <nipype.interfaces.afni.preprocess.OutlierCount>
2026-04-09 04:22:28 | INFO | nipype.workflow | [Node] Executing
"_gcor0" <mriqc.interfaces.transitional.GCOR>
2026-04-09 04:22:30 | INFO | nipype.workflow | [Node] Finished
"_outliers0", elapsed time 1.628044s.
2026-04-09 04:22:30 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.dilated_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/dilated_
mask".
2026-04-09 04:22:30 | INFO | nipype.workflow | [Node] Executing
"dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
2026-04-09 04:22:30 | INFO | nipype.workflow | [Node] Finished
"dilated_mask", elapsed time 0.024065s.
2026-04-09 04:22:31 | INFO | nipype.workflow | [Node] Finished
"_gcor0", elapsed time 2.544871s.
2026-04-09 04:22:32 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/PlotBra
inmask".
2026-04-09 04:22:32 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicZoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/PlotMosaicZoomed/mapflow/_PlotMosaic
Zoomed0".
2026-04-09 04:22:32 | INFO | nipype.workflow | [N
ode] Executing "_PlotMosaicZoomed0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:22:32 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Finished
"_ComputeDVARS0", elapsed time 7.582591s.
2026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicZoomed0", elapsed time 1.61647s.
2026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 1.811169s.
2026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/post_n4".
2026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Setting-u
p "_ComputeDVARS0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ComputeDVARS/mapflow/_ComputeDVARS0".
2
026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Executing
"_ComputeDVARS0" <nipype.algorithms.confounds.ComputeDVARS>
2026-04-09 04:22:34 | INFO | nipype.workflow | [Node] Executing
"post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:22:35 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 1.224443s.
2026-04-09 04:22:36 | INFO | nipype.workflow | [Node] Setting-u
p "_outliers0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/outliers/mapflow/_outliers0".
2026-04-09 04:22:36 | INFO | nipype.workflow | [Node] Setting-u
p "_smoothness0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/smoothness/mapflow/_smoothness0".
2026-04-09 04:22:36 | INFO | nipype.workflow | [Node] Executing
"_smoothness0" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:22:36 | INFO | nipype.workflow | [Node] Executing
"_outliers0" <nipype.interfaces.afni.preprocess.OutlierCount>
2026-04-09 04:22:37 | INFO | nipype.workflow | [Node] Finished
"_smoothness0", elapsed time 0.605809s.
2026-04-09 04:22:38 | INFO | nipype.workflow | [Node] Finished
"_outliers0", elapsed time 1.49376s.
2026-04-09 04:22:38 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.dilated_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/dilated_
mask".
2026-04-09 04:22:38 | INFO | nipype.workflow | [Node] Setting-u
p "_gcor0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Comp
uteIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/gcor/mapflow/_gcor0".
2026-04-09 04:22:38 | INFO | nipype.workflow | [Node] Executing
"_gcor0" <mriqc.interfaces.transitional.GCOR>
2026-04-09 04:22:38 | INFO | nipype.workflow | [Node] Executing
"dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
2026-04-09 04:22:38 | INFO | nipype.workflow | [Node] Finished
"dilated_mask", elapsed time 0.03053s.
2026-04-09 04:22:40 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicZoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/PlotMosaicZoomed/mapflow/_PlotMosaic
Zoomed0".
2026-04-09 04:22:40 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicZoomed0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:22:40 | INFO | nipype.workflow | [Node] Finished
"_gcor0", elapsed time 2.209832s.
2026-04-09 04:22:41 | INFO | nipype.workflow | [Node] Finished
"_ComputeDVARS0", elapsed time 6.86371s.
2026-04-09 04:22:41 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicZoomed0", elapsed time 1.373933s.
2026-04-09 04:22:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/PlotBra
inmask".
2026-04-09 04:22:42 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/post_n4".
2
026-04-09 04:22:42 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:22:42 | INFO
| nipype.workflow | [Node] Setting-up "_ComputeDVARS0" in "/home/jovyan/w
orkspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/84d3c8fd70b53d5d7c467
5069f5b41664a443c63/ComputeDVARS/mapflow/_ComputeDVARS0".
2026-04-09 04:22:42 | INFO | nipype.workflow | [Node] Executing
"_ComputeDVARS0" <nipype.algorithms.confounds.ComputeDVARS>
2026-04-09 04:22:42 | INFO | nipype.workflow | [Node] Executing
"post_n4" <nipype.interfaces.ants.segmentation.N4BiasFieldCorrection>
2026-04-09 04:22:44 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 1.6881s.
2026-04-09 04:22:44 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 1.849553s.
2026-04-09 04:22:44 | INFO | nipype.workflow | [Node] Setting-u
p "_smoothness0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/smoothness/mapflow/_smoothness0".
2026-04-09 04:22:44 | INFO | nipype.workflow | [Node] Executing
"_smoothness0" <nipype.interfaces.afni.utils.FWHMx>
2026-04-09 04:22:45 | INFO | nipype.workflow | [Node] Finished
"_smoothness0", elapsed time 0.572912s.
2026-04-09 04:22:46 | INFO | nipype.workflow | [Node] Setting-u
p "_outliers0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/outliers/mapflow/_outliers0".
2026-04-09 04:22:46 | INFO | nipype.workflow | [Node] Executing
"_outliers0" <nipype.interfaces.afni.preprocess.OutlierCount>
2026-04-09 04:22:46 | INFO | nipype.workflow | [Node] Setting-u
p "_gcor0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Comp
uteIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/gcor/mapflow/_gcor0".
2026-04-09 04:22:46 | INFO | nipype.workflow | [Node] Executing
"_gcor0" <mriqc.interfaces.transitional.GCOR>
2026-04-09 04:22:48 | INFO | nipype.workflow | [Node] Finished
"_outliers0", elapsed time 1.605524s.
2026-04-09 04:22:48 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.dilated_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/dilated_
mask".
2026-04-09 04:22:48 | INFO | nipype.workflow | [Node] Executing
"dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
2026-04-09 04:22:48 | INFO | nipype.workflow | [Node] Finished
"dilated_mask", elapsed time 0.018288s.
2026-04-09 04:22:48 | INFO | nipype.workflow | [Node] Finished
"_ComputeDVARS0", elapsed time 6.228182s.
2026-04-09 04:22:48 | INFO | niworkflows | Terminal outputs
of initialization saved (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/SpatialNormalization/638fdb324f8e2f95caebb232802d9e85ac60de52/EPI2MNI/stderr.nipype-init).0
m
2026-04-09 04:22:48 | INFO | niworkflows | Loading settin
gs from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/boldref-mni_registration_preci
se_000.json.
2026-04-09 04:22:48 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spati
alNormalization/638fdb324f8e2f95caebb232802d9e85ac60de52/EPI2MNI/transform.mat, 0 ] --initialize-tra
nsforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii
.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLi
n2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/638fdb324f8e2f95caebb232802d9e85ac60de52/SharpenEP
I/sub-01_task-flanker_run-1_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ]
--convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x
1 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym
_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_
wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/synthstrip/clipped_corrected_des
c-brain_mask.nii.gz ] --transform Affine[ 0.08 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cA
sym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/exampl
es/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/638fdb324f8e2f95caebb232802d9e85a
c60de52/SharpenEPI/sub-01_task-flanker_run-1_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56
, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrin
k-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI15
2NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/synthstrip/clipped
_corrected_desc-brain_mask.nii.gz ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-
MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/638fdb324f8e2f95c
aebb232802d9e85ac60de52/SharpenEPI/sub-01_task-flanker_run-1_bold_desc-realigned_valid_tstat_correct
ed.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox
--shrink-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tp
l-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/synthstrip/
clipped_corrected_desc-brain_mask.nii.gz ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-c
omposite-transform 1
2026-04-09 04:22:49 | INFO | nipype.workflow | [Node] Finished
"_gcor0", elapsed time 2.607789s.
2026-04-09 04:22:50 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/PlotBra
inmask".
2026-04-09 04:22:50 | INFO | nipype.workflow | [No
de] Setting-up "mriqc_wf.funcMRIQC.synthstrip_wf.post_n4" in "/home/jovyan/workspace/books/examples/
workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/po
st_n4".
2026-04-09 04:22:50 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:22:50 | INFO
| nipype.workflow | [Node] Executing "post_n4" <nipype.interfaces.ants.s
egmentation.N4BiasFieldCorrection>
2026-04-09 04:22:50 | INFO | nipype.w
orkflow | [Node] Setting-up "_PlotMosaicZoomed0" in "/home/jovyan/workspace/books/examp
les/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c
63/PlotMosaicZoomed/mapflow/_PlotMosaicZoomed0".
2026-04-09 04:22:50 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicZoomed0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:22:52 | INFO | nipype.workflow | [Node] Finished
"post_n4", elapsed time 1.8124609999999999s.
2026-04-09 04:22:52 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 1.873325s.
2026-04-09 04:22:52 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicZoomed0", elapsed time 2.135538s.
2026-04-09 04:22:53 | INFO | niworkflows | Loading settings
from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/boldref-mni_registration_precise
_000.json.
2026-04-09 04:22:53 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spati
alNormalization/881c1637a95c5470a9299f17894e4fc970c98b2a/EPI2MNI/transform.mat, 0 ] --initialize-tra
nsforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii
.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLi
n2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/881c1637a95c5470a9299f17894e4fc970c98b2a/SharpenEP
I/sub-01_task-flanker_run-2_desc-realigned_bold_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ] --con
vergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --us
e-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-0
2_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/synthstrip/clipped_corrected_desc-brai
n_mask.nii.gz ] --transform Affine[ 0.08 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tp
l-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/881c1637a95c5470a9299f17894e4fc970c98b2
a/SharpenEPI/sub-01_task-flanker_run-2_desc-realigned_bold_tstat_corrected.nii.gz, 1, 56, Regular, 0
.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x
4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAs
ym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriq
c_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/synthstrip/clipped_corrected_d
esc-brain_mask.nii.gz ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-MNI152NLin20
09cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/881c1637a95c5470a9299f17894e4
fc970c98b2a/SharpenEPI/sub-01_task-flanker_run-2_desc-realigned_bold_tstat_corrected.nii.gz, 1, 4, N
one, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8
x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cA
sym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mri
qc_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/synthstrip/clipped_corrected_
desc-brain_mask.nii.gz ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform
1
2026-04-09 04:22:54 | INFO | nipype.workflow | [Node] Setting-u
p "_ComputeDVARS0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMR
IQC/ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ComputeDVARS/mapflow/_ComputeDVARS0".
2026-04-09 04:22:54 | INFO | nipype.workflow | [Node] Setting-u
p "_smoothness0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/smoothness/mapflow/_smoothness0".
2026-04
-09 04:22:54 | INFO | nipype.workflow | [Node] Setting-up "_out
liers0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Compute
IQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/outliers/mapflow/_outliers0".
2026-04-09 04:22:54 | INFO | nipype.workflow | [Node] Executing
"_outliers0" <nipype.interfaces.afni.preprocess.OutlierCount>
2026-04-09 04:22:54 | INF
O | nipype.workflow | [Node] Executing "_smoothness0" <nipype.interface
s.afni.utils.FWHMx>
2026-04-09 04:22:54 | INFO | nipype.workflow |
[34;20m [Node] Executing "_ComputeDVARS0" <nipype.algorithms.confounds.ComputeDVARS>
2026-04-09 04:22:55 | INFO | nipype.workflow | [Node] Finished
"_smoothness0", elapsed time 0.460663s.
2026-04-09 04:22:56 | INFO | nipype.workflow | [Node] Finished
"_outliers0", elapsed time 1.612114s.
2026-04-09 04:22:56 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.dilated_mask" in "/home/jovyan/workspace/books/examples/workflo
ws/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/dilated_
mask".
2026-04-09 04:22:56 | INFO | nipype.workflow | [Node] Executing
"dilated_mask" <niworkflows.interfaces.morphology.BinaryDilation>
2026-04-09 04:22:56 | INFO | nipype.workflow | [Node] Setting-u
p "_gcor0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Comp
uteIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/gcor/mapflow/_gcor0".
2026-04-09 04:22:56 | INFO | nipype.workflow | [Node] Executing
"_gcor0" <mriqc.interfaces.transitional.GCOR>
2026-04-09 04:22:56 | INFO | nipype.workflow | [Node] Finished
"dilated_mask", elapsed time 0.017256s.
2026-04-09 04:22:58 | INFO | nipype.workflow | [Node] Setting-u
p "_PlotMosaicZoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/PlotMosaicZoomed/mapflow/_PlotMosaic
Zoomed0".
2026-04-09 04:22:58 | INFO | nipype.workflow | [Node] Executing
"_PlotMosaicZoomed0" <nireports.interfaces.mosaic.PlotMosaic>
2026-04-09 04:22:58 | INFO | nipype.workflow | [Node] Finished
"_gcor0", elapsed time 2.408977s.
2026-04-09 04:23:00 | INFO | nipype.workflow | [Node] Finished
"_PlotMosaicZoomed0", elapsed time 1.77216s.
2026-04-09 04:23:00 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.PlotBrainmask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/PlotBra
inmask".
2026-04-09 04:23:00 | INFO | nipype.workflow | [Node] Executing
"PlotBrainmask" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:23:01 | INFO | nipype.workflow | [Node] Finished
"_ComputeDVARS0", elapsed time 7.338153s.
2026-04-09 04:23:02 | INFO | nipype.workflow | [Node] Finished
"PlotBrainmask", elapsed time 1.52954s.
2026-04-09 04:23:02 | INFO | niworkflows | Terminal outputs
of initialization saved (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/SpatialNormalization/f726dd545bccfac02a8ae8e2a462a8ed07117e50/EPI2MNI/stderr.nipype-init).0
m
2026-04-09 04:23:02 | INFO | niworkflows | Loading settin
gs from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/boldref-mni_registration_preci
se_000.json.
2026-04-09 04:23:02 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spati
alNormalization/f726dd545bccfac02a8ae8e2a462a8ed07117e50/EPI2MNI/transform.mat, 0 ] --initialize-tra
nsforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii
.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLi
n2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/f726dd545bccfac02a8ae8e2a462a8ed07117e50/SharpenEP
I/sub-02_task-flanker_run-1_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ]
--convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x
1 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym
_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_
wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/synthstrip/clipped_corrected_des
c-brain_mask.nii.gz ] --transform Affine[ 0.08 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cA
sym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/exampl
es/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/f726dd545bccfac02a8ae8e2a462a8ed0
7117e50/SharpenEPI/sub-02_task-flanker_run-1_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56
, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrin
k-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI15
2NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/synthstrip/clipped
_corrected_desc-brain_mask.nii.gz ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-
MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/f726dd545bccfac02
a8ae8e2a462a8ed07117e50/SharpenEPI/sub-02_task-flanker_run-1_bold_desc-realigned_valid_tstat_correct
ed.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox
--shrink-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tp
l-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/synthstrip/
clipped_corrected_desc-brain_mask.nii.gz ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-c
omposite-transform 1
2026-04-09 04:23:02 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.harmonize" in "/home/jovyan/workspace/books/examples/workflows/MRI
QC_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject03.suffixT1w.datatypeanat.extension.nii.g
z_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.
nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/harmonize".
2026-04-09 04:23:02 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.PlotSegmentation" in "/home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.ex
tension.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat
..sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/PlotSegme
ntation".
2026-04-09 04:23:02 | INFO | nipype.workflow | [N
ode] Setting-up "mriqc_wf.funcMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/exa
mples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/638fdb324f8e2f95caebb232802d9e85ac60d
e52/final_masked".
2026-04-09 04:23:02 | INFO | nipype.workflow |
34;20m [Node] Executing "harmonize" <mriqc.interfaces.anatomical.Harmonize>
2026-04-09 04:23:02 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:23:02 | INFO | nipype.workflow | [Node] Executing
"PlotSegmentation" <nireports.interfaces.mosaic.PlotContours>
2026-04-09 04:23:02 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.038143s.
2026-04-09 04:23:04 | INFO | nipype.workflow | [Node] Finished
"harmonize", elapsed time 2.02501s.
2026-04-09 04:23:04 | INFO | nipype.workflow | [Node] Setting-u
p "_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/timeseries/mapflow/_timeseries0".
2026-04-09 04:23:04 | INFO | nipype.workflow | [Node] Executing
"_timeseries0" <mriqc.interfaces.functional.GatherTimeseries>
2026-04-09 04:23:04 | INFO | nipype.workflow | [Node] Finished
"_timeseries0", elapsed time 0.065676s.
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.subtract_mask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/subtrac
t_mask".
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_zoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_report_zoomed/mapflow/_ds_report_
zoomed0".
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Executing
"_ds_report_zoomed0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Executing
"subtract_mask" <niworkflows.interfaces.morphology.BinarySubtraction>
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Finished
"_ds_report_zoomed0", elapsed time 0.014478s.
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Finished
"subtract_mask", elapsed time 0.021538s.
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_re
port_bmask".
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:06 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.012455s.
2026-04-09 04:23:07 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/final_mask
ed".
2026-04-09 04:23:07 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:23:07 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.045869s.
2026-04-09 04:23:07 | INFO | nipype.workflow | [Node] Finished
"PlotSegmentation", elapsed time 5.142836s.
2026-04-09 04:23:08 | INFO | nipype.workflow | [Node] Setting-u
p "_measures0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/measures/mapflow/_measures0".
2026-04-09 04:23:08 | INFO | nipype.workflow | [Node] Executing
"_measures0" <mriqc.interfaces.functional.FunctionalQC>
2026-04-09 04:23:09 | INFO | nipype.workflow | [Node] Finished
"_measures0", elapsed time 0.464718s.
2026-04-09 04:23:10 | INFO | nipype.workflow | [Node] Setting-u
p "_measures0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/measures/mapflow/_measures0".
2026-04-09 04:23:10 | INFO | nipype.workflow | [Node] Executing
"_measures0" <mriqc.interfaces.functional.FunctionalQC>
2026-04-09 04:23:11 | INFO | nipype.workflow | [Node] Finished
"_measures0", elapsed time 0.696377s.
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.subtract_mask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/subtrac
t_mask".
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_zoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_report_zoomed/mapflow/_ds_report_
zoomed0".
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Executing
"_ds_report_zoomed0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:12 | INFO
| nipype.workflow | [Node] Setting-up "_timeseries0" in "/home/jovyan/w
orkspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/881c1637a95c5470a9299
f17894e4fc970c98b2a/timeseries/mapflow/_timeseries0".
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Executing
"_timeseries0" <mriqc.interfaces.functional.GatherTimeseries>
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Finished
"_ds_report_zoomed0", elapsed time 0.007407s.
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Executing
"subtract_mask" <niworkflows.interfaces.morphology.BinarySubtraction>
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Finished
"_timeseries0", elapsed time 0.021644s.
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Finished
"subtract_mask", elapsed time 0.011036s.
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_re
port_bmask".
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.006461s.
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/final_mask
ed".
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:23:12 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.034719s.
2026-04-09 04:23:14 | INFO | nipype.workflow | [Node] Setting-u
p "_measures0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/measures/mapflow/_measures0".
2026-04-09 04:23:14 | INFO | nipype.workflow | [Node] Executing
"_measures0" <mriqc.interfaces.functional.FunctionalQC>
2026-04-09 04:23:15 | INFO | nipype.workflow | [Node] Finished
"_measures0", elapsed time 0.459496s.
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.subtract_mask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/subtrac
t_mask".
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_zoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_report_zoomed/mapflow/_ds_report_
zoomed0".
2026-04-09 04:23:16 | INFO | nipype.workflow | [N
ode] Executing "_ds_report_zoomed0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:16 |
INFO | nipype.workflow | [Node] Setting-up "_timeseries0" in "
/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/f726dd5
45bccfac02a8ae8e2a462a8ed07117e50/timeseries/mapflow/_timeseries0".
2026-04-09 04:23:16 |34;20
m INFO | nipype.workflow | [Node] Executing "subtract_mask" <niworkflow
s.interfaces.morphology.BinarySubtraction>
2026-04-09 04:23:16 | INFO |
nipype.workflow | [Node] Executing "_timeseries0" <mriqc.interfaces.functional.GatherTi
meseries>
2026-04-09 04:23:16 | INFO | nipype.workflow | [N
ode] Finished "_ds_report_zoomed0", elapsed time 0.00657s.
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Finished
"subtract_mask", elapsed time 0.018404s.
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Finished
"_timeseries0", elapsed time 0.026059s.
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_re
port_bmask".
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.006405s.
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/final_mask
ed".
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:23:16 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.034288s.
2026-04-09 04:23:18 | INFO | nipype.workflow | [Node] Setting-u
p "_measures0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/measures/mapflow/_measures0".
2026-04-09 04:23:18 | INFO | nipype.workflow | [Node] Executing
"_measures0" <mriqc.interfaces.functional.FunctionalQC>
2026-04-09 04:23:19 | INFO | nipype.workflow | [Node] Finished
"_measures0", elapsed time 0.505986s.
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_zoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_report_zoomed/mapflow/_ds_report_
zoomed0".
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.subtract_mask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/subtrac
t_mask".
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Executing
"_ds_report_zoomed0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:20 | INFO
| nipype.workflow | [Node] Executing "subtract_mask" <niworkflows.inter
faces.morphology.BinarySubtraction>
2026-04-09 04:23:20 | INFO | nipype.
workflow | [Node] Setting-up "_timeseries0" in "/home/jovyan/workspace/books/examples/w
orkflows/MRIQC_workdir/mriqc_wf/funcMRIQC/ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/times
eries/mapflow/_timeseries0".
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Executing
"_timeseries0" <mriqc.interfaces.functional.GatherTimeseries>
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Finished
"_ds_report_zoomed0", elapsed time 0.011716s.
2026-04-09 04:23:20 | INFO |34;2
0m nipype.workflow | [Node] Finished "subtract_mask", elapsed time 0.012193s.
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Finished
"_timeseries0", elapsed time 0.015629s.
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_re
port_bmask".
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:20 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.010041s.
2026-04-09 04:23:21 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/final_mask
ed".
2026-04-09 04:23:21 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:23:21 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.042991s.
2026-04-09 04:23:22 | INFO | nipype.workflow | [Node] Setting-u
p "_measures0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/measures/mapflow/_measures0".
2026-04-09 04:23:22 | INFO | nipype.workflow | [Node] Executing
"_measures0" <mriqc.interfaces.functional.FunctionalQC>
2026-04-09 04:23:23 | INFO | nipype.workflow | [Node] Finished
"_measures0", elapsed time 0.834739s.
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_zoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_report_zoomed/mapflow/_ds_report_
zoomed0".
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.subtract_mask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/subtrac
t_mask".
2026-04-09 04:23:24 | INFO | nipype.workflow | [No
de] Setting-up "_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriq
c_wf/funcMRIQC/ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/timeseries/mapflow/_timeseries0"
.
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Exe
cuting "_ds_report_zoomed0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:24 |
INFO | nipype.workflow | [Node] Executing "_timeseries0" <mriqc.interf
aces.functional.GatherTimeseries>
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Executing
"subtract_mask" <niworkflows.interfaces.morphology.BinarySubtraction>
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Finished
"_ds_report_zoomed0", elapsed time 0.010874s.
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Finished
"_timeseries0", elapsed time 0.01656s.
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Finished
"subtract_mask", elapsed time 0.016878s.
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_re
port_bmask".
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:24 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.010778s.
2026-04-09 04:23:25 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.synthstrip_wf.final_masked" in "/home/jovyan/workspace/books/examples/workflow
s/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/final_mask
ed".
2026-04-09 04:23:25 | INFO | nipype.workflow | [Node] Executing
"final_masked" <niworkflows.interfaces.nibabel.ApplyMask>
2026-04-09 04:23:25 | INFO | nipype.workflow | [Node] Finished
"final_masked", elapsed time 0.031335s.
2026-04-09 04:23:26 | INFO | nipype.workflow | [Node] Setting-u
p "_measures0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/measures/mapflow/_measures0".
2026-04-09 04:23:26 | INFO | nipype.workflow | [Node] Executing
"_measures0" <mriqc.interfaces.functional.FunctionalQC>
2026-04-09 04:23:27 | INFO | nipype.workflow | [Node] Finished
"_measures0", elapsed time 0.816451s.
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Setting-u
p "_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQ
C/ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/timeseries/mapflow/_timeseries0".
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Executing
"_timeseries0" <mriqc.interfaces.functional.GatherTimeseries>
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_zoomed0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_report_zoomed/mapflow/_ds_report_
zoomed0".
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.subtract_mask" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/subtrac
t_mask".
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Executing
"_ds_report_zoomed0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Executing
"subtract_mask" <niworkflows.interfaces.morphology.BinarySubtraction>
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Finished
"_timeseries0", elapsed time 0.020143s.
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Finished
"_ds_report_zoomed0", elapsed time 0.010917s.
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Finished
"subtract_mask", elapsed time 0.020308s.
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_bmask" in "/home/jovyan/workspace/books/examples/work
flows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_re
port_bmask".
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Executing
"ds_report_bmask" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:28 | INFO | nipype.workflow | [Node] Finished
"ds_report_bmask", elapsed time 0.011729s.
2026-04-09 04:23:29 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.measures" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.n
ii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/measures".
2026-04-09 04:23:29 | INFO | nipype.workflow | [Node] Executing
"measures" <mriqc.interfaces.anatomical.StructuralQC>
2026-04-09 04:23:30 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.anat_report_wf.ds_report_segm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/anatMRIQC/anat_report_wf/_entities_subject03.suffixT1w.datatypeanat.exte
nsion.nii.gz_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..
sub-03_T1w.nii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/ds_report_s
egm".
2026-04-09 04:23:30 | INFO | nipype.workflow | [Node] Executing
"ds_report_segm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:30 | INFO | nipype.workflow | [Node] Finished
"ds_report_segm", elapsed time 0.007986s.
2026-04-09 04:23:30 | INFO | nipype.workflow | [Node] Setting-u
p "_datasink0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/datasink/mapflow/_datasink0".
2026-04-09 04:23:30 | INFO | nipype.workflow | [Node] Executing
"_datasink0" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:30 | INFO | nipype.workflow | [Node] Finished
"_datasink0", elapsed time 0.000516s.
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcM
RIQC/ComputeIQMs/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_timeseries/mapflow/_ds_timeseries0".0
m
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Executing
"_ds_timeseries0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Finished
"_ds_timeseries0", elapsed time 0.009009s.
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Setting-u
p "_datasink0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/datasink/mapflow/_datasink0".
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Executing
"_datasink0" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Finished
"_datasink0", elapsed time 0.000745s.
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcM
RIQC/ComputeIQMs/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_timeseries/mapflow/_ds_timeseries0".0
m
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Executing
"_ds_timeseries0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Finished
"_ds_timeseries0", elapsed time 0.010936s.
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Setting-u
p "_datasink0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/datasink/mapflow/_datasink0".
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Executing
"_datasink0" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Finished
"_datasink0", elapsed time 0.000604s.
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcM
RIQC/ComputeIQMs/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_timeseries/mapflow/_ds_timeseries0".0
m
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Executing
"_ds_timeseries0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:31 | INFO | nipype.workflow | [Node] Finished
"_ds_timeseries0", elapsed time 0.006778s.
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Setting-u
p "_datasink0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/datasink/mapflow/_datasink0".
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Executing
"_datasink0" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Finished
"_datasink0", elapsed time 0.000402s.
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcM
RIQC/ComputeIQMs/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_timeseries/mapflow/_ds_timeseries0".0
m
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Executing
"_ds_timeseries0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Finished
"_ds_timeseries0", elapsed time 0.004736s.
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Setting-u
p "_datasink0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/datasink/mapflow/_datasink0".
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Executing
"_datasink0" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Finished
"_datasink0", elapsed time 0.000454s.
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcM
RIQC/ComputeIQMs/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_timeseries/mapflow/_ds_timeseries0".0
m
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Executing
"_ds_timeseries0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Finished
"_ds_timeseries0", elapsed time 0.005261s.
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Setting-u
p "_datasink0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/datasink/mapflow/_datasink0".
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Executing
"_datasink0" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Finished
"_datasink0", elapsed time 0.000398s.
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_timeseries0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcM
RIQC/ComputeIQMs/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_timeseries/mapflow/_ds_timeseries0".0
m
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Executing
"_ds_timeseries0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:23:32 | INFO | nipype.workflow | [Node] Finished
"_ds_timeseries0", elapsed time 0.00476s.
2026-04-09 04:23:44 | INFO | nipype.workflow | [Node] Finished
"measures", elapsed time 15.081947s.
2026-04-09 04:23:45 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.anatMRIQC.ComputeIQMs.datasink" in "/home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/anatMRIQC/ComputeIQMs/_entities_subject03.suffixT1w.datatypeanat.extension.nii.gz
_in_file_..home..jovyan..workspace..books..examples..workflows..ds000102..sub-03..anat..sub-03_T1w.n
ii.gz_metadata_FileSize0.009971695020794868.FileSizeUnitsGB.NumberOfVolumes1/datasink".
2026-04-09 04:23:45 | INFO | nipype.workflow | [Node] Executing
"datasink" <mriqc.interfaces.bids.IQMFileSink>
2026-04-09 04:23:45 | INFO | nipype.workflow | [Node] Finished
"datasink", elapsed time 0.001071s.
2026-04-09 04:24:10 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:24:10 | INFO | niworkflows | Report - setting
fixed (/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.n
ii.gz) and moving (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/881c1637a95c5470a9299f17894e4fc970c98b2a/EPI2MNI/epi_to_mni_Warped.nii.gz) imag
es
2026-04-09 04:24:10 | INFO | niworkflows | Generatin
g visual report
2026-04-09 04:24:16 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:24:16 | INFO | niworkflows | Report - setting
fixed (/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.n
ii.gz) and moving (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/638fdb324f8e2f95caebb232802d9e85ac60de52/EPI2MNI/epi_to_mni_Warped.nii.gz) imag
es
2026-04-09 04:24:16 | INFO | niworkflows | Generatin
g visual report
2026-04-09 04:24:23 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:24:23 | INFO | niworkflows | Report - setting
fixed (/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.n
ii.gz) and moving (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/f726dd545bccfac02a8ae8e2a462a8ed07117e50/EPI2MNI/epi_to_mni_Warped.nii.gz) imag
es
2026-04-09 04:24:23 | INFO | niworkflows | Generatin
g visual report
2026-04-09 04:24:38 | INFO | nipype.workflow | [Node] Finished
"EPI2MNI", elapsed time 139.983756s.
2026-04-09 04:24:39 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_rep
ort_norm".
2026-04-09 04:24:39 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/E
PI2MNI".
2026-04-09 04:24:39 | INFO | nipype.workflow | [No
de] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/works
pace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/881c1637a95c5470
a9299f17894e4fc970c98b2a/ResampleSegmentation".
2026-04-09 04:24:39 | INFO |34
;20m nipype.workflow | [Node] Executing "ds_report_norm" <mriqc.interfaces.DerivativesD
ataSink>
2026-04-09 04:24:39 | INFO | nipype.workflow | [Node] Executing
"EPI2MNI" <niworkflows.interfaces.reportlets.registration.SpatialNormalizationRPT>
2026-04-09 0
4:24:39 | INFO | nipype.workflow | [Node] Executing "ResampleSe
gmentation" <nipype.interfaces.ants.resampling.ApplyTransforms>
2026-04-09 04:24:39 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:24:39 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.007698s.
2026-04-09 04:24:41 | INFO | nipype.workflow | [Node] Finished
"ResampleSegmentation", elapsed time 1.834159s.
2026-04-09 04:24:41 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.parcels" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/parcels".
2026-04-09 04:24:41 | INFO | nipype.workflow | [Node] Executin
g "parcels" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:24:41 | INFO | nipype.workflow | [Node] Finished
"parcels", elapsed time 0.020503s.
2026-04-09 04:24:43 | INFO | nipype.workflow | [Node] Setting-u
p "_BigPlot0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f
unc_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/BigPlot/mapflow/_BigPlot0".
2026-04-09 04:24:43 | INFO | nipype.workflow | [Node] Executing
"_BigPlot0" <nireports.interfaces.fmri.FMRISummary>
2026-04-09 04:24:45 | INFO | nipype.workflow | [Node] Finished
"_BigPlot0", elapsed time 2.444599s.
2026-04-09 04:24:46 | INFO | nipype.workflow | [Node] Finished
"EPI2MNI", elapsed time 153.539327s.
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_rep
ort_norm".
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b41664a443c63/E
PI2MNI".
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/638fdb324f8e2f95caebb232802d9
e85ac60de52/ResampleSegmentation".
2026-04-09 04:24:47 | INFO | nipype.w
orkflow | [Node] Executing "EPI2MNI" <niworkflows.interfaces.reportlets.registration.Sp
atialNormalizationRPT>
2026-04-09 04:24:47 | INFO | nipype.workflow 0
m| [Node] Executing "ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 0
4:24:47 | INFO | niworkflows | Estimating initial transform
using AffineInitializer
2026-04-09 04:24:47 | INFO | nipype.workflow
[0m| [Node] Executing "ResampleSegmentation" <nipype.interfaces.ants.resampling.ApplyTransfo
rms>
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.011643s.
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_carpet0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/881c1637a95c5470a9299f17894e4fc970c98b2a/ds_report_carpet/mapflow/_ds_report_
carpet0".
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Executing
"_ds_report_carpet0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:24:47 | INFO | nipype.workflow | [Node] Finished
"_ds_report_carpet0", elapsed time 0.007792s.
2026-04-09 04:24:50 | INFO | nipype.workflow | [Node] Finished
"ResampleSegmentation", elapsed time 2.750961s.
2026-04-09 04:24:51 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.parcels" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/parcels".
2026-04-09 04:24:51 | INFO | nipype.workflow | [Node] Executin
g "parcels" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:24:51 | INFO | nipype.workflow | [Node] Finished
"parcels", elapsed time 0.014256s.
2026-04-09 04:24:53 | INFO | nipype.workflow | [Node] Setting-u
p "_BigPlot0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f
unc_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/BigPlot/mapflow/_BigPlot0".
2026-04-09 04:24:53 | INFO | nipype.workflow | [Node] Executing
"_BigPlot0" <nireports.interfaces.fmri.FMRISummary>
2026-04-09 04:24:54 | INFO | nipype.workflow | [Node] Finished
"EPI2MNI", elapsed time 150.139033s.
2026-04-09 04:24:55 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.EPI2MNI" in "/home/jovyan/workspace/books/examples/workfl
ows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/ef8adc97cda9d7f01da8d4442209d91cc6b20159/E
PI2MNI".
2026-04-09 04:24:55 | INFO | nipype.workflow | [No
de] Setting-up "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/works
pace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/f726dd545bccfac0
2a8ae8e2a462a8ed07117e50/ResampleSegmentation".
2026-04-09 04:24:55 | INFO |34
;20m nipype.workflow | [Node] Executing "EPI2MNI" <niworkflows.interfaces.reportlets.re
gistration.SpatialNormalizationRPT>
2026-04-09 04:24:55 | INFO | nipype.
workflow | [Node] Executing "ResampleSegmentation" <nipype.interfaces.ants.resampling.A
pplyTransforms>
2026-04-09 04:24:55 | INFO | niworkflows | Estimating initi
al transform using AffineInitializer
2026-04-09 04:24:56 | INFO | nipype.workflow | [Node] Finished
"_BigPlot0", elapsed time 3.268967s.
2026-04-09 04:24:56 | INFO | nipype.workflow | [Node] Finished
"ResampleSegmentation", elapsed time 1.5375830000000001s.
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_rep
ort_norm".
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Executing
"ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.005914s.
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_carpet0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/638fdb324f8e2f95caebb232802d9e85ac60de52/ds_report_carpet/mapflow/_ds_report_
carpet0".
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.parcels" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/parcels".
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Executing
"_ds_report_carpet0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Executing
"parcels" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Finished
"_ds_report_carpet0", elapsed time 0.00548s.
2026-04-09 04:24:57 | INFO | nipype.workflow | [Node] Finished
"parcels", elapsed time 0.028231s.
2026-04-09 04:24:59 | INFO | nipype.workflow | [Node] Setting-u
p "_BigPlot0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f
unc_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/BigPlot/mapflow/_BigPlot0".
2026-04-09 04:24:59 | INFO | nipype.workflow | [Node] Executing
"_BigPlot0" <nireports.interfaces.fmri.FMRISummary>
2026-04-09 04:25:01 | INFO | nipype.workflow | [Node] Finished
"_BigPlot0", elapsed time 1.961172s.
2026-04-09 04:25:03 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_carpet0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/f726dd545bccfac02a8ae8e2a462a8ed07117e50/ds_report_carpet/mapflow/_ds_report_
carpet0".
2026-04-09 04:25:03 | INFO | nipype.workflow | [Node] Executing
"_ds_report_carpet0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:25:03 | INFO | nipype.workflow | [Node] Finished
"_ds_report_carpet0", elapsed time 0.011155s.
2026-04-09 04:25:19 | INFO | niworkflows | Terminal outputs
of initialization saved (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/EPI2MNI/stderr.nipype-init).0
m
2026-04-09 04:25:19 | INFO | niworkflows | Loading settings
from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/boldref-mni_registration_precise
_000.json.
2026-04-09 04:25:19 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spati
alNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/EPI2MNI/transform.mat, 0 ] --initialize-tra
nsforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii
.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLi
n2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/SharpenEP
I/sub-02_task-flanker_run-2_desc-realigned_bold_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ] --con
vergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x1 --us
e-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-0
2_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/synthstrip/clipped_corrected_desc-brai
n_mask.nii.gz ] --transform Affine[ 0.08 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tp
l-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/wor
kflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9a
e/SharpenEPI/sub-02_task-flanker_run-2_desc-realigned_bold_tstat_corrected.nii.gz, 1, 56, Regular, 0
.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 8x
4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAs
ym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriq
c_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/synthstrip/clipped_corrected_d
esc-brain_mask.nii.gz ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-MNI152NLin20
09cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651c
b7a73e1c9ae/SharpenEPI/sub-02_task-flanker_run-2_desc-realigned_bold_tstat_corrected.nii.gz, 1, 4, N
one, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox --shrink-factors 8
x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cA
sym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mri
qc_wf/funcMRIQC/synthstrip_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/synthstrip/clipped_corrected_
desc-brain_mask.nii.gz ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-composite-transform
1
2026-04-09 04:25:24 | INFO | niworkflows | Terminal outputs
of initialization saved (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fun
cMRIQC/SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b41664a443c63/EPI2MNI/stderr.nipype-init).0
m
2026-04-09 04:25:24 | INFO | niworkflows | Loading settin
gs from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/boldref-mni_registration_preci
se_000.json.
2026-04-09 04:25:24 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spati
alNormalization/84d3c8fd70b53d5d7c4675069f5b41664a443c63/EPI2MNI/transform.mat, 0 ] --initialize-tra
nsforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii
.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLi
n2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b41664a443c63/SharpenEP
I/sub-03_task-flanker_run-1_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ]
--convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x
1 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym
_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_
wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/synthstrip/clipped_corrected_des
c-brain_mask.nii.gz ] --transform Affine[ 0.08 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cA
sym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/exampl
es/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b41664
a443c63/SharpenEPI/sub-03_task-flanker_run-1_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56
, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrin
k-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI15
2NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/synthstrip/clipped
_corrected_desc-brain_mask.nii.gz ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-
MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/84d3c8fd70b53d5d7
c4675069f5b41664a443c63/SharpenEPI/sub-03_task-flanker_run-1_bold_desc-realigned_valid_tstat_correct
ed.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox
--shrink-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tp
l-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/synthstrip/
clipped_corrected_desc-brain_mask.nii.gz ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-c
omposite-transform 1
2026-04-09 04:25:33 | INFO | niworkflows | Loading settings
from file /opt/conda/lib/python3.11/site-packages/niworkflows/data/boldref-mni_registration_precise
_000.json.
2026-04-09 04:25:33 | INFO | niworkflows | Retry #1, comman
dline:
antsRegistration --collapse-output-transforms 1 --dimensionality 3 --float 0 --initial-movin
g-transform [ /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/Spati
alNormalization/ef8adc97cda9d7f01da8d4442209d91cc6b20159/EPI2MNI/transform.mat, 0 ] --initialize-tra
nsforms-per-stage 0 --interpolation LanczosWindowedSinc --output [ epi_to_mni, epi_to_mni_Warped.nii
.gz ] --transform Rigid[ 0.05 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLi
n2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQ
C_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/ef8adc97cda9d7f01da8d4442209d91cc6b20159/SharpenEP
I/sub-03_task-flanker_run-2_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56, Regular, 0.25 ]
--convergence [ 10000x1000x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrink-factors 4x2x
1 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym
_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_
wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/synthstrip/clipped_corrected_des
c-brain_mask.nii.gz ] --transform Affine[ 0.08 ] --metric Mattes[ /templateflow/tpl-MNI152NLin2009cA
sym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/workspace/books/exampl
es/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/ef8adc97cda9d7f01da8d4442209d91cc
6b20159/SharpenEPI/sub-03_task-flanker_run-2_bold_desc-realigned_valid_tstat_corrected.nii.gz, 1, 56
, Regular, 0.25 ] --convergence [ 500x250x100, 1e-06, 20 ] --smoothing-sigmas 4.0x2.0x1.0vox --shrin
k-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI15
2NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows/MRIQC_
workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/synthstrip/clipped
_corrected_desc-brain_mask.nii.gz ] --transform SyN[ 0.1, 3.0, 0.0 ] --metric CC[ /templateflow/tpl-
MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.nii.gz, /home/jovyan/worksp
ace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/ef8adc97cda9d7f01
da8d4442209d91cc6b20159/SharpenEPI/sub-03_task-flanker_run-2_bold_desc-realigned_valid_tstat_correct
ed.nii.gz, 1, 4, None, 1 ] --convergence [ 100x30x20, 1e-06, 10 ] --smoothing-sigmas 3.0x2.0x1.0vox
--shrink-factors 8x4x2 --use-histogram-matching 1 --masks [ /templateflow/tpl-MNI152NLin2009cAsym/tp
l-MNI152NLin2009cAsym_res-02_desc-brain_mask.nii.gz, /home/jovyan/workspace/books/examples/workflows
/MRIQC_workdir/mriqc_wf/funcMRIQC/synthstrip_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/synthstrip/
clipped_corrected_desc-brain_mask.nii.gz ] --winsorize-image-intensities [ 0.005, 0.995 ] --write-c
omposite-transform 1
2026-04-09 04:26:38 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:26:38 | INFO | niworkflows | Report - setting
fixed (/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.n
ii.gz) and moving (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/EPI2MNI/epi_to_mni_Warped.nii.gz) imag
es
2026-04-09 04:26:38 | INFO | niworkflows | Generatin
g visual report
2026-04-09 04:26:46 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:26:46 | INFO | niworkflows | Report - setting
fixed (/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.n
ii.gz) and moving (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b41664a443c63/EPI2MNI/epi_to_mni_Warped.nii.gz) imag
es
2026-04-09 04:26:46 | INFO | niworkflows | Generatin
g visual report
2026-04-09 04:26:50 | INFO | niworkflows | Successful spati
al normalization (retry #1).
2026-04-09 04:26:50 | INFO | niworkflows | Report - setting
fixed (/templateflow/tpl-MNI152NLin2009cAsym/tpl-MNI152NLin2009cAsym_res-02_desc-fMRIPrep_boldref.n
ii.gz) and moving (/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/
SpatialNormalization/ef8adc97cda9d7f01da8d4442209d91cc6b20159/EPI2MNI/epi_to_mni_Warped.nii.gz) imag
es
2026-04-09 04:26:50 | INFO | niworkflows | Generatin
g visual report
2026-04-09 04:27:04 | INFO | nipype.workflow | [Node] Finished
"EPI2MNI", elapsed time 144.897348s.
2026-04-09 04:27:05 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_rep
ort_norm".
2026-04-09 04:27:05 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/52ac1ed04d2d15315a3fa8069651c
b7a73e1c9ae/ResampleSegmentation".
2026-04-09 04:27:05 | INFO | nipype.workflow | [Node] Executing
"ResampleSegmentation" <nipype.interfaces.ants.resampling.ApplyTransforms>
2026-04-09 04:27:05 | INFO | nipype.workflow | [Node] Executing
"ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:27:05 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.017091s.
2026-04-09 04:27:06 | INFO | nipype.workflow | [Node] Finished
"ResampleSegmentation", elapsed time 1.403187s.
2026-04-09 04:27:07 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.parcels" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/parcels".
2026-04-09 04:27:07 | INFO | nipype.workflow | [Node] Executing
"parcels" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:27:07 | INFO | nipype.workflow | [Node] Finished
"parcels", elapsed time 0.016309s.
2026-04-09 04:27:09 | INFO | nipype.workflow | [Node] Setting-u
p "_BigPlot0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f
unc_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/BigPlot/mapflow/_BigPlot0".
2026-04-09 04:27:09 | INFO | nipype.workflow | [Node] Executing
"_BigPlot0" <nireports.interfaces.fmri.FMRISummary>
2026-04-09 04:27:12 | INFO | nipype.workflow | [Node] Finished
"_BigPlot0", elapsed time 3.308323s.
2026-04-09 04:27:13 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_carpet0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/52ac1ed04d2d15315a3fa8069651cb7a73e1c9ae/ds_report_carpet/mapflow/_ds_report_
carpet0".
2026-04-09 04:27:13 | INFO | nipype.workflow | [Node] Executing
"_ds_report_carpet0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:27:13 | INFO | nipype.workflow | [Node] Finished
"_ds_report_carpet0", elapsed time 0.011617s.
2026-04-09 04:27:14 | INFO | nipype.workflow | [Node] Finished
"EPI2MNI", elapsed time 147.038282s.
2026-04-09 04:27:15 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_rep
ort_norm".
2026-04-09 04:27:15 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/84d3c8fd70b53d5d7c4675069f5b4
1664a443c63/ResampleSegmentation".
2026-04-09 04:27:15 | INFO | nipype.w
orkflow | [Node] Executing "ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:27:15 | INFO | nipype.workflow | [Node] Executing
"ResampleSegmentation" <nipype.interfaces.ants.resampling.ApplyTransforms>
2026-04-09 04:27:15 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.006485s.
2026-04-09 04:27:16 | INFO | nipype.workflow | [Node] Finished
"EPI2MNI", elapsed time 141.269282s.
2026-04-09 04:27:17 | INFO | nipype.workflow | [Node] Finished
"ResampleSegmentation", elapsed time 1.902889s.
2026-04-09 04:27:17 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.ds_report_norm" in "/home/jovyan/workspace/books/examples/workf
lows/MRIQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_rep
ort_norm".
2026-04-09 04:27:17 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.SpatialNormalization.ResampleSegmentation" in "/home/jovyan/workspace/books/ex
amples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/SpatialNormalization/ef8adc97cda9d7f01da8d4442209d
91cc6b20159/ResampleSegmentation".
2026-04-09 04:27:17 | INFO | nipype.workflow | [Node] Executing
"ds_report_norm" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:27:17 | INFO
| nipype.workflow | [Node] Executing "ResampleSegmentation" <nipype.interfa
ces.ants.resampling.ApplyTransforms>
2026-04-09 04:27:17 | INFO | nipype.workflow | [Node] Finished
"ds_report_norm", elapsed time 0.005866s.
2026-04-09 04:27:19 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.parcels" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/parcels".
2026-04-09 04:27:19 | INFO | nipype.workflow | [Node] Executing
"parcels" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:27:19 | INFO | nipype.workflow | [Node] Finished
"parcels", elapsed time 0.028256s.
2026-04-09 04:27:19 | INFO | nipype.workflow | [Node] Finished
"ResampleSegmentation", elapsed time 2.155441s.
2026-04-09 04:27:21 | INFO | nipype.workflow | [Node] Setting-u
p "mriqc_wf.funcMRIQC.func_report_wf.parcels" in "/home/jovyan/workspace/books/examples/workflows/MR
IQC_workdir/mriqc_wf/funcMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/parcels".
2026-04-09 04:27:21 | INFO | nipype.workflow | [Node] Executing
"parcels" <nipype.interfaces.utility.wrappers.Function>
2026-04-09 04:27:21 | INFO | nipype.workflow | [Node] Setting-u
p "_BigPlot0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f
unc_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/BigPlot/mapflow/_BigPlot0".
2026-04-09 04:27:21 | INFO | nipype.workflow | [Node] Executing
"_BigPlot0" <nireports.interfaces.fmri.FMRISummary>
2026-04-09 04:27:21 | INFO | nipype.workflow | [Node] Finished
"parcels", elapsed time 0.028786s.
2026-04-09 04:27:23 | INFO | nipype.workflow | [Node] Setting-u
p "_BigPlot0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/funcMRIQC/f
unc_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/BigPlot/mapflow/_BigPlot0".
2026-04-09 04:27:23 | INFO | nipype.workflow | [Node] Executing
"_BigPlot0" <nireports.interfaces.fmri.FMRISummary>
2026-04-09 04:27:24 | INFO | nipype.workflow | [Node] Finished
"_BigPlot0", elapsed time 2.586974s.
2026-04-09 04:27:25 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_carpet0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/84d3c8fd70b53d5d7c4675069f5b41664a443c63/ds_report_carpet/mapflow/_ds_report_
carpet0".
2026-04-09 04:27:25 | INFO | nipype.workflow | [Node] Executing
"_ds_report_carpet0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:27:25 | INFO | nipype.workflow | [Node] Finished
"_ds_report_carpet0", elapsed time 0.011899s.
2026-04-09 04:27:25 | INFO | nipype.workflow | [Node] Finished
"_BigPlot0", elapsed time 2.249443s.
2026-04-09 04:27:27 | INFO | nipype.workflow | [Node] Setting-u
p "_ds_report_carpet0" in "/home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/mriqc_wf/fu
ncMRIQC/func_report_wf/ef8adc97cda9d7f01da8d4442209d91cc6b20159/ds_report_carpet/mapflow/_ds_report_
carpet0".
2026-04-09 04:27:27 | INFO | nipype.workflow | [Node] Executing
"_ds_report_carpet0" <mriqc.interfaces.DerivativesDataSink>
2026-04-09 04:27:27 | INFO | nipype.workflow | [Node] Finished
"_ds_report_carpet0", elapsed time 0.012444s.
2026-04-09 04:27:29 | INFO | nipype.workflow | Generating repor
ts...
2026-04-09 04:27:33 | INFO | nipype.workflow | Report generatio
n finished (9 reports).
2026-04-09 04:27:33 | IMPORTANT | mriqc | Participant lev
el finished successfully averaging 00h 02min 09s per subject.
2026-04-09 04:27:33 | INFO
| mriqc | Generating BIDS derivatives metadata.
----------------------------------------------------------------
MRIQC completed (elapsed time 00h
19min 27s).
----------------------------------------------------------------
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/displays/_slicers.py:420: UserWarning: empt
y mask
xmin_, xmax_, ymin_, ymax_, zmin_, zmax_ = get_mask_bounds(
/opt/conda/lib/python3.11/site-packages/nilearn/plotting/displays/_slicers.py:420: UserWarning: empt
y mask
xmin_, xmax_, ymin_, ymax_, zmin_, zmax_ = get_mask_bounds(
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
------------------------------------------------------------------
Running MRIQC version 24.1.0.de
v0+gd5b13cb5.d20240826
----------------------------------------------------------------
NOTICE
Copyright © The NiPreps Developers.
This product includes software developed by
the NiPrep
s Community (https://nipreps.org/).
Portions of this software were developed at the Department
of
Psychology at Stanford University, Stanford, CA, US.
This software contains code ultimatel
y derived from the
PCP Quality Assessment Protocol (QAP;
http://preprocessed-connectomes-project
.org/quality-assessment-protocol)
by C. Craddock, S. Giavasis, D. Clark, Z. Shezhad, and J. Pellma
n.
This software is also distributed as a Docker container image.
The bootstrapping file for
the image ("Dockerfile") is licensed
under the MIT License.
-----------------------------------
-----------------------------
* BIDS dataset path: /home/jovyan/workspace/books/examples/workflow
s/ds000102.
* Output folder: MRIQC.
* Analysis levels: ['group'].
------------------------------
------------------------------------
2026-04-09 04:27:39 | IMPORTANT | mriqc | DataLad dataset
identified, attempting to `datalad get` unavailable files.
get(ok): sub-20/anat/sub-20_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-08/func/sub-08_task-f
lanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-10/func/sub-10_task-flanker_run-1_b
old.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-18/func/sub-18_task-flanker_run-2_bold.nii.gz (fi
le) [from s3-PUBLIC...]
get(ok): sub-08/anat/sub-08_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): s
ub-20/func/sub-20_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-04/anat/sub
-04_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-24/anat/sub-24_T1w.nii.gz (file) [from s3-PUB
LIC...]
get(ok): sub-06/anat/sub-06_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-06/func/sub-0
6_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-20/func/sub-20_task-flanker
_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-04/func/sub-04_task-flanker_run-2_bold.ni
i.gz (file) [from s3-PUBLIC...]
get(ok): sub-09/func/sub-09_task-flanker_run-1_bold.nii.gz (file) [f
rom s3-PUBLIC...]
get(ok): sub-23/func/sub-23_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC.
..]
get(ok): sub-16/func/sub-16_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): s
ub-19/anat/sub-19_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-13/func/sub-13_task-flanker_run
-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-05/func/sub-05_task-flanker_run-2_bold.nii.gz
(file) [from s3-PUBLIC...]
get(ok): sub-16/func/sub-16_task-flanker_run-2_bold.nii.gz (file) [from
s3-PUBLIC...]
get(ok): sub-07/anat/sub-07_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-14/func
/sub-14_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-12/anat/sub-12_T1w.ni
i.gz (file) [from s3-PUBLIC...]
get(ok): sub-23/func/sub-23_task-flanker_run-1_bold.nii.gz (file) [f
rom s3-PUBLIC...]
get(ok): sub-25/func/sub-25_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC.
..]
get(ok): sub-17/anat/sub-17_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-05/anat/sub-05_T1
w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-07/func/sub-07_task-flanker_run-1_bold.nii.gz (file
) [from s3-PUBLIC...]
get(ok): sub-17/func/sub-17_task-flanker_run-2_bold.nii.gz (file) [from s3-PUB
LIC...]
get(ok): sub-25/func/sub-25_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok
): sub-24/func/sub-24_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-25/anat
/sub-25_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-08/func/sub-08_task-flanker_run-1_bold.ni
i.gz (file) [from s3-PUBLIC...]
get(ok): sub-21/func/sub-21_task-flanker_run-1_bold.nii.gz (file) [f
rom s3-PUBLIC...]
get(ok): sub-07/func/sub-07_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC.
..]
get(ok): sub-11/func/sub-11_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): s
ub-11/anat/sub-11_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-26/func/sub-26_task-flanker_run
-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-15/func/sub-15_task-flanker_run-1_bold.nii.gz
(file) [from s3-PUBLIC...]
get(ok): sub-09/anat/sub-09_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok
): sub-19/func/sub-19_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-13/anat
/sub-13_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-26/func/sub-26_task-flanker_run-2_bold.ni
i.gz (file) [from s3-PUBLIC...]
get(ok): sub-10/func/sub-10_task-flanker_run-2_bold.nii.gz (file) [f
rom s3-PUBLIC...]
get(ok): sub-12/func/sub-12_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC.
..]
get(ok): sub-26/anat/sub-26_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-16/anat/sub-16_T1
w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-21/func/sub-21_task-flanker_run-2_bold.nii.gz (file
) [from s3-PUBLIC...]
get(ok): sub-18/anat/sub-18_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub
-15/func/sub-15_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-24/func/sub-2
4_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-14/anat/sub-14_T1w.nii.gz (
file) [from s3-PUBLIC...]
get(ok): sub-13/func/sub-13_task-flanker_run-2_bold.nii.gz (file) [from s3
-PUBLIC...]
get(ok): sub-05/func/sub-05_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
ge
t(ok): sub-17/func/sub-17_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-09/
func/sub-09_task-flanker_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-23/anat/sub-23_T1
w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-21/anat/sub-21_T1w.nii.gz (file) [from s3-PUBLIC...
]
get(ok): sub-12/func/sub-12_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub
-19/func/sub-19_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-04/func/sub-0
4_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-22/func/sub-22_task-flanker
_run-2_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-06/func/sub-06_task-flanker_run-1_bold.ni
i.gz (file) [from s3-PUBLIC...]
get(ok): sub-11/func/sub-11_task-flanker_run-1_bold.nii.gz (file) [f
rom s3-PUBLIC...]
get(ok): sub-10/anat/sub-10_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-22/
func/sub-22_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-15/anat/sub-15_T1
w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-18/func/sub-18_task-flanker_run-1_bold.nii.gz (file
) [from s3-PUBLIC...]
get(ok): sub-22/anat/sub-22_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub
-14/func/sub-14_task-flanker_run-1_bold.nii.gz (file) [from s3-PUBLIC...]
action summary:
get (not
needed: 9, ok: 69)
2026-04-09 04:30:14 | IMPORTANT | mriqc |33;
20m Extracting metadata and entities for 26 input runs of modality 't1w'...
2026-04-09 04:30:15 | IMPORTANT | mriqc | File size ('t1w
'): 0.01|0.01 GB [maximum|average].
2026-04-09 04:30:15 | IMPORTANT | mriqc
| Extracting metadata and entities for 52 input runs of modality 'bold'...0
m
2026-04-09 04:30:15 | IMPORTANT | mriqc | File size ('bol
d'): 0.03|0.03 GB [maximum|average].
2026-04-09 04:30:15 | INFO | mriqc | MRIQC config fil
e: /home/jovyan/workspace/books/examples/workflows/MRIQC_workdir/config-20260409-042735_c4eea198-1e6
0-4155-a914-234f9241aa53.toml.
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Generating group reports
--------
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2026-04-09 04:30:15 | INFO | mriqc | Generated summar
y TSV table for T1w data: /home/jovyan/workspace/books/examples/workflows/MRIQC/group_T1w.tsv
2026-04-09 04:30:16 | INFO | mriqc | Group-T1w report
generated: /home/jovyan/workspace/books/examples/workflows/MRIQC/group_T1w.html
2026-04-09 04:30:16 | INFO | mriqc | Generated summar
y TSV table for bold data: /home/jovyan/workspace/books/examples/workflows/MRIQC/group_bold.tsv
2026-04-09 04:30:16 | INFO | mriqc | Group-bold repor
t generated: /home/jovyan/workspace/books/examples/workflows/MRIQC/group_bold.html
2026-04-09 04:30:16 | INFO | mriqc | Group level fini
shed successfully.
2026-04-09 04:30:16 | INFO | mriqc |
34;20m Generating BIDS derivatives metadata.
----------------------------------------------------------------
MRIQC completed (elapsed time 00h
02min 40s).
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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#
# Helper function to display MRIQC HTML reports with inline SVG figures
def display_mriqc_report(report_path):
report_dir = os.path.dirname(report_path)
with open(report_path) as f:
soup = BeautifulSoup(f, 'html.parser')
for tag in soup.find_all(href=lambda h: h and h.endswith('.svg')):
svg_path = os.path.join(report_dir, tag['href'])
if os.path.exists(svg_path):
with open(svg_path) as svg_file:
svg_soup = BeautifulSoup(svg_file.read(), 'html.parser')
tag.replace_with(svg_soup)
for tag in soup(['button', 'nav', 'head']):
tag.decompose()
display(HTML(str(soup)))
display_mriqc_report('./MRIQC/sub-01_T1w.html')
Basic visual report
View of the background of the anatomical image
This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.
Zoomed-in mosaic view of the brain
This panel shows a mosaic of the brain. This mosaic is the most suitable to screen head-motion intensity inhomogeneities, global/local noise, signal leakage (for example, from the eyeballs and across the phase-encoding axis), etc.
Extended visual report
«Hat»-mask
The hat-mask calculated internally by MRIQC. Some metrics will use this mask, for instance, to find out artifacts and estimate the spread of gaussian noise added to the signal. This mask leaves out the air around the face to avoid measuring noise sourcing from the eyeballs and their movement.
Distribution of the noise within the hat mask
The noise fit internally estimated by MRIQC to calculate the QI1 index proposed by Mortamet et al. (2009).
Artifactual intensities on the background
Mask of artifactual intensities identified within the hat-mask.
Brain extraction performance
Brain mask as internally extracted by MRIQC. Defects on the brainmask could indicate problematic aspects of the image quality-wise.
Head mask
A mask of the head calculated internally by MRIQC.
Brain tissue segmentation
Brain tissue segmentation, as internally extracted by MRIQC. Defects on this segmentation, as well as noisy tissue labels could indicate problematic aspects of the image quality-wise.
Spatial normalization of the anatomical image
This panel shows a quick-and-dirty nonlinear registration into the MNI152NLin2009cAsym template accessed with TemplateFlow.
About
Errors
No errors to report!
Reproducibility and provenance information
Thanks for using MRIQC. The following information may assist in reconstructing the provenance of the corresponding derivatives.
Functional Report#
display_mriqc_report('./MRIQC/sub-02_task-flanker_run-1_bold.html')
Basic echo-wise reports
Standard deviation of signal through time
The voxel-wise standard deviation of the signal (variability along time).
View of the background of the voxel-wise average of the BOLD timeseries
This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.
Voxel-wise average of BOLD time-series, zoomed-in covering just the brain
This panel shows a mosaic of the brain. This mosaic is the most suitable to screen head-motion intensity inhomogeneities, global/local noise, signal leakage (for example, from the eyeballs and across the phase-encoding axis), etc.
Carpetplot and nuisance signals
The so-called «carpetplot» may assist in assessing head-motion derived artifacts and respiation effects.
Extended echo-wise reports
Voxel-wise average of BOLD time-series
The average signal calculated across the last axis (time).
Extended reports shared across echos
Brain extraction performance
Brain mask as internally extracted by MRIQC. Defects on the brainmask could indicate problematic aspects of the image quality-wise.
Spatial normalization of the anatomical image
This panel shows a quick-and-dirty nonlinear registration into the MNI152NLin2009cAsym template accessed with TemplateFlow.
About
Errors
No errors to report!
Reproducibility and provenance information
Thanks for using MRIQC. The following information may assist in reconstructing the provenance of the corresponding derivatives.
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: 2026-04-09, 04:30.
- MRIQC version: 24.1.0.dev0+gd5b13cb5.d20240826.
Dependencies in Jupyter/Python#
Using the package watermark to document system environment and software versions used in this notebook, alongside the Neurodesktop version extracted from the
JUPYTER_IMAGEorNEURODESKTOP_VERSIONenvironment variables.
import os
%load_ext watermark
%watermark
%watermark --iversions
neurodesktop_version = (
os.environ.get('JUPYTER_IMAGE', '').split(':')[-1] or
os.environ.get('NEURODESKTOP_VERSION', 'unknown')
)
print(f"Neurodesktop version: {neurodesktop_version}")
Last updated: 2026-04-09T04:30:18.451172+00:00
Python implementation: CPython
Python version : 3.13.9
IPython version : 9.7.0
Compiler : GCC 14.3.0
OS : Linux
Release : 5.15.0-171-generic
Machine : x86_64
Processor : x86_64
CPU cores : 32
Architecture: 64bit
IPython: 9.7.0
bs4 : 4.14.3
Neurodesktop version: 2025-12-20