QSIPrep#
Preprocessing diffusion MRI#
Author: Monika Doerig
Date: 15 July 2026
License:
Note: If this notebook uses neuroimaging tools from Neurocontainers, those tools retain their original licenses. Please see Neurodesk citation guidelines for details.
✨ Use of AI ▽
This notebook was drafted with assistance from an LLM (GLM-5.2, via Neurodesk) and then revised by the author. The author reviewed the final content and takes responsibility for it.
Citation and Resources:#
Tools included in this workflow#
QSIPrep:
Cieslak, M., Cook, P.A., He, X. et al. QSIPrep: an integrative platform for preprocessing and reconstructing diffusion MRI data. Nat Methods 18, 775–778 (2021). https://doi.org/10.1038/s41592-021-01185-5
Dataset#
OpenNeuro:
Hannelore Aerts and Daniele Marinazzo (2018). BTC_preop. OpenNeuro Dataset ds001226
Educational resources#
Load software tools and import python libraries#
We load QSIPrep through the Neurodesk module system. QSIPrep bundles its own environment (FSL, ANTs, MRtrix3, FreeSurfer), so a single module load is enough.
# Load QSIPrep
import module
await module.load('qsiprep/1.0.1')
await module.list()
['qsiprep/1.0.1']
The base image already provides the common scientific Python packages (see the Neurodesktop Dockerfile). Only a few standard libraries are needed below.
# Import the necessary libraries
import os, base64
import json
from pathlib import Path
from IPython.display import display
from ipyniivue import NiiVue
from bs4 import BeautifulSoup
from IPython.display import HTML, display
FreeSurfer license#
# Request a freesurfer license from https://surfer.nmr.mgh.harvard.edu/registration.html
# and store it in your homedirectory
# This is just an exampe - please replace with your license id:
!echo "Steffen.Bollmann@cai.uq.edu.au" > ~/.license
!echo "21029" >> ~/.license
!echo "*Cqyn12sqTCxo" >> ~/.license
!echo "FSxgcvGkNR59Y" >> ~/.license
Introduction#
Overview#
QSIPrep configures and runs preprocessing pipelines for diffusion-weighted MRI (dMRI). It’s the diffusion counterpart to fMRIPrep: a BIDS-App that combines tools from FSL, ANTs, MRtrix3 and FreeSurfer to denoise (MP-PCA), correct for susceptibility and motion, coregister to the anatomical image, optionally normalise to a template, and produce a visual QC report.
A distinguishing feature is its motion-correction algorithm (SHORELine), which works even on DSI and random q-space sampling schemes. The pipeline is assembled automatically from your BIDS inputs, so fieldmaps and multi-scan acquisitions are grouped and handled correctly. Note that “assembled automatically from your BIDS inputs” assumes the inputs follow BIDS conventions correctly. This notebook includes a preparation step: a reverse phase-encoded b=0 scan has to be set up as a fieldmap so QSIPrep can use it for distortion correction (see Prepare the reverse-PE scan for QSIPrep).
Importantly, QSIPrep only preprocesses your data. Its outputs are the preprocessed DWI series, along with their gradient tables, a brain mask, tissue segmentations, confound/QC metrics, and an HTML report summarising each step. Reconstruction — ODF/FOD estimation, tractography, connectivity — is handed off to its companion tool, QSIRecon, which consumes these derivatives. Another notebook covers that step.
QSIPrep reuses much of the fMRIPrep codebase, but this does not imply endorsement by the fMRIPrep authors.
Workflow#
The full preprocessing and reconstruction workflow. Source: PennLINC/qsiprep.
Learning objectives#
This notebook assumes a basic understanding of diffusion MRI and the BIDS layout, but no prior QSIPrep experience. By the end you will be able to:
Describe what QSIPrep does, what it deliberately leaves to reconstruction, and how it connects to QSIRecon
Load the QSIPrep module in Neurodesk and run it on a single BIDS subject
Locate and interpret the preprocessed outputs and the visual QC report
Understand how QSIPrep derivatives feed into QSIRecon for reconstruction
Data Preparation#
We use the BTC preop dataset from OpenNeuro and fetch a single control subject (sub-CON01, session ses-preop). The subject contains a T1w MPRAGE (anat/), a resting-state BOLD (func/), and two DWI series in dwi/: a multi-shell HARDI acquisition (acq-AP, 101 directions, b = 0/700/1200/2800 s/mm²) and a short reverse phase-encoded scan (acq-PA, 2 volumes, both b = 0). Because the PA is a pure b0 fieldmap, QSIPrep expects it in fmap/ as an EPI file with an IntendedFor entry — we reorganise it before running QSIPrep (see below).
%%bash
# Install the dataset from GitHub using DataLad, then fetch one subject.
if [ ! -d ds001226 ]; then
datalad install https://github.com/OpenNeuroDatasets/ds001226.git
fi
cd ds001226 && datalad get sub-CON01
install(ok): /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226 (dataset)
get(ok): sub-CON01/ses-preop/anat/sub-CON01_ses-preop_T1w.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-PA_dwi.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-CON01/ses-preop/func/sub-CON01_ses-preop_task-rest_bold.nii.gz (file) [from s3-PUBLIC...]
get(ok): sub-CON01 (directory)
action summary:
get (ok: 5)
[INFO] Attempting a clone into /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226
[INFO] Attempting to clone from https://github.com/OpenNeuroDatasets/ds001226.git to /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226
[INFO] Start enumerating objects
[INFO] Start counting objects
[INFO] Start compressing objects
[INFO] Start receiving objects
[INFO] Start resolving deltas
[INFO] Completed clone attempts for Dataset(/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226)
[INFO] Remote origin not usable by git-annex; setting annex-ignore
[INFO] https://github.com/OpenNeuroDatasets/ds001226.git/config download failed: Not Found
[INFO] Remote origin not usable by git-annex; setting annex-ignore
[INFO] https://github.com/OpenNeuroDatasets/ds001226.git/config download failed: Not Found
[INFO] access to 1 dataset sibling s3-BACKUP not auto-enabled, enable with:
| datalad siblings -d "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226" enable -s s3-BACKUP
Inspect the BIDS layout#
Confirm the on-disk structure of sub-CON01/ses-preop and the DWI phase-encoding sidecars. These sidecars are what QSIPrep reads to decide how to perform susceptibility distortion correction (SDC).
subj = Path("ds001226/sub-CON01/ses-preop")
print("=== directory layout ===")
for d in sorted(subj.iterdir()):
print(d.name + "/")
for f in sorted(d.iterdir()):
print(" ", f.name)
print("\n=== DWI phase-encoding sidecars ===")
for acq in ["AP", "PA"]:
p = subj / "dwi" / f"sub-CON01_ses-preop_acq-{acq}_dwi.json"
j = json.loads(p.read_text())
bval_path = subj / "dwi" / f"sub-CON01_ses-preop_acq-{acq}_dwi.bval"
bvals = bval_path.read_text().split()
print(f"acq-{acq}: PhaseEncodingDirection={j['PhaseEncodingDirection']!r} "
f"TotalReadoutTime={j['TotalReadoutTime']} "
f"num_volumes={len(bvals)} bvals={bvals}")
=== directory layout ===
anat/
sub-CON01_ses-preop_T1w.json
sub-CON01_ses-preop_T1w.nii.gz
dwi/
sub-CON01_ses-preop_acq-AP_dwi.bval
sub-CON01_ses-preop_acq-AP_dwi.bvec
sub-CON01_ses-preop_acq-AP_dwi.json
sub-CON01_ses-preop_acq-AP_dwi.nii.gz
sub-CON01_ses-preop_acq-PA_dwi.bval
sub-CON01_ses-preop_acq-PA_dwi.bvec
sub-CON01_ses-preop_acq-PA_dwi.json
sub-CON01_ses-preop_acq-PA_dwi.nii.gz
func/
sub-CON01_ses-preop_task-rest_bold.json
sub-CON01_ses-preop_task-rest_bold.nii.gz
=== DWI phase-encoding sidecars ===
acq-AP: PhaseEncodingDirection='j-' TotalReadoutTime=0.0266003 num_volumes=102 bvals=['0', '0', '700', '2800', '1200', '2800', '1200', '2800', '2800', '1200', '700', '2800', '2800', '1200', '2800', '700', '1200', '2800', '2800', '1200', '2800', '700', '2800', '1200', '2800', '1200', '0', '2800', '700', '2800', '1200', '2800', '2800', '1200', '700', '2800', '1200', '2800', '2800', '1200', '2800', '700', '2800', '1200', '2800', '1200', '2800', '700', '2800', '1200', '2800', '0', '700', '2800', '1200', '2800', '1200', '2800', '2800', '1200', '700', '2800', '2800', '1200', '2800', '700', '1200', '2800', '2800', '1200', '2800', '700', '2800', '1200', '2800', '1200', '0', '2800', '700', '2800', '1200', '2800', '2800', '1200', '700', '2800', '1200', '2800', '2800', '1200', '2800', '700', '2800', '1200', '2800', '1200', '2800', '700', '2800', '1200', '2800', '0']
acq-PA: PhaseEncodingDirection='j' TotalReadoutTime=0.0266003 num_volumes=2 bvals=['0', '0']
Prepare the reverse-PE scan for QSIPrep#
The PA acquisition is 2 pure b=0 volumes (both bval = 0) with the opposite phase-encoding direction ("j") to the AP HARDI ("j-") — it is a reverse phase-encoded fieldmap, not a diffusion scan. QSIPrep’s documentation is explicit: short reverse-PE b0 scans should live in fmap/ as _epi files with an IntendedFor field pointing at the DWI they correct. If left in dwi/ as a _dwi file, QSIPrep will try to physically concatenate it with the AP HARDI — which fails because the two series were acquired separately and have slightly different spatial affines.
The fix is a simple BIDS reorganisation: copy the PA files into fmap/, rename them from _dwi to _dir-PA_epi, and add IntendedFor to the JSON sidecar. After this, QSIPrep uses the PA as a topup fieldmap for PEPOLAR SDC instead of concatenating it.
%%bash
set -e
SUBJ_DIR="ds001226/sub-CON01/ses-preop"
mkdir -p "$SUBJ_DIR/fmap"
# Copy ONLY the .nii.gz and .json (NOT bval/bvec - not valid for _epi fieldmaps)
cp "$SUBJ_DIR/dwi/sub-CON01_ses-preop_acq-PA_dwi.nii.gz" \
"$SUBJ_DIR/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz"
cp "$SUBJ_DIR/dwi/sub-CON01_ses-preop_acq-PA_dwi.json" \
"$SUBJ_DIR/fmap/sub-CON01_ses-preop_dir-PA_epi.json"
# Update the EPI sidecar: add IntendedFor, ensure PhaseEncodingDirection + TotalReadoutTime present
python3 -c "
import json
p = '$SUBJ_DIR/fmap/sub-CON01_ses-preop_dir-PA_epi.json'
j = json.load(open(p))
j['IntendedFor'] = ['ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz']
assert 'PhaseEncodingDirection' in j, 'PE direction missing!'
assert 'TotalReadoutTime' in j, 'TotalReadoutTime missing!'
json.dump(j, open(p, 'w'), indent=2)
print('PE:', j['PhaseEncodingDirection'], '| TRT:', j['TotalReadoutTime'], '| IntendedFor:', j['IntendedFor'])
"
# Remove the PA from dwi/ so QSIPrep doesn't try to treat it as a DWI series to concatenate
rm "$SUBJ_DIR/dwi/sub-CON01_ses-preop_acq-PA_dwi."*
echo "Reorganisation complete. fmap/ contents:"
ls "$SUBJ_DIR/fmap/"
echo "dwi/ contents:"
ls "$SUBJ_DIR/dwi/"
PE: j | TRT: 0.0266003 | IntendedFor: ['ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz']
Reorganisation complete. fmap/ contents:
sub-CON01_ses-preop_dir-PA_epi.json
sub-CON01_ses-preop_dir-PA_epi.nii.gz
dwi/ contents:
sub-CON01_ses-preop_acq-AP_dwi.bval
sub-CON01_ses-preop_acq-AP_dwi.bvec
sub-CON01_ses-preop_acq-AP_dwi.json
sub-CON01_ses-preop_acq-AP_dwi.nii.gz
Analysis#
We will now run QSIPrep: the command takes the BIDS dataset, an output directory, the participant analysis level, the subject label, the FreeSurfer license, and the output voxel resolution. The work directory (-w) holds intermediate files and can be deleted once the run succeeds.
Long-running
QSIPrep performs FreeSurfer recon-all, distortion correction, motion correction, registration and resampling. For a single subject this typically takes a few hours and requires a valid FreeSurfer license.
%%bash
set -u -o pipefail
# FreeSurfer subjects dir must exist at startup
export SUBJECTS_DIR="$HOME/qsiprep-freesurfer-dir"
export APPTAINERENV_SUBJECTS_DIR=$SUBJECTS_DIR
export ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS=1
mkdir -p "$SUBJECTS_DIR"
# Use most (not all) of the available cores; leave 1-2 free
N_CPUS=$(nproc)
NTHREADS=$(( N_CPUS > 2 ? N_CPUS - 4 : 1 )) # leave 1 core free
OMP_THREADS=$(( NTHREADS >= 4 ? 4 : 2 )) # per-process cap
# Use 75% of RAM
MEM_MB=$(awk '/MemTotal/ {printf "%d", $2/1024}' /proc/meminfo)
QSIPREP_MEM=$(( MEM_MB * 75 / 100 ))
echo "Cores: ${N_CPUS} -> using ${NTHREADS} (omp ${OMP_THREADS}); RAM cap: ${QSIPREP_MEM} MB"
qsiprep ds001226 qsiprep-output participant \
--participant-label CON01 \
--fs-license-file ~/.license \
--output-resolution 2 \
-w qsiprep-work \
--nthreads "${N_CPUS}" \
--omp-nthreads "${OMP_THREADS}" \
--mem-mb "${QSIPREP_MEM}" \
2>&1 | tee qsiprep.log
Using 12 CPUs, 90556 MB RAM, omp=4
bids-validator@1.8.4
This dataset appears to be BIDS compatible.
Summary: Available Tasks: Available Modalities:
14 Files, 86.03MB rest MRI
1 - Subject
1 - Session
If you have any questions, please post on https://neurostars.org/tags/bids.
260703-07:48:05,481 nipype.workflow IMPORTANT:
Running QSIPrep version 1.0.2.dev0+gfc89945.d20250405
License NOTICE ##################################################
QSIPrep 1.0.2.dev0+gfc89945.d20250405
Copyright The PennLINC Developers.
This product includes software developed by
the NiPreps Community (https://nipreps.org/).
Portions of this software were developed at the Department of
Psychology at Stanford University, Stanford, CA, US.
This software is also distributed as a Docker container image.
The bootstrapping file for the image ("Dockerfile") is licensed
under the MIT License.
This software may be distributed through an add-on package called
"Docker Wrapper" that is under the BSD 3-clause License.
#################################################################
260703-07:48:05,491 nipype.workflow IMPORTANT:
Building QSIPrep's workflow:
* BIDS dataset path: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226.
* Participant list: ['CON01'].
* Run identifier: 20260703-074544_65873cbd-8732-4407-a3b4-4fe955084c90.
260703-07:48:05,850 nipype.workflow IMPORTANT:
Collected data:
dwi:
- /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz
flair: []
fmap:
- /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz
roi: []
sbref: []
t1w:
- /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/anat/sub-CON01_ses-preop_T1w.nii.gz
t2w: []
260703-07:48:05,864 nipype.workflow INFO:
Running nonlinear normalization to template
260703-07:48:05,892 nipype.workflow INFO:
Grouping DWI scans
260703-07:48:05,896 nipype.workflow INFO:
Combining all DWI files within each available session
260703-07:48:05,897 nipype.workflow INFO:
- 1 scans in session preop
260703-07:48:05,907 nipype.workflow INFO:
Found 1 groups of DWI series based on their warp spaces:
[ { 'concatenated_bids_name': 'sub-CON01_ses-preop_acq-AP',
'dwi_series': [ '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz'],
'dwi_series_pedir': 'j-',
'fieldmap_info': { 'epi': [ '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz'],
'suffix': 'epi'}}]
260703-07:48:05,908 nipype.workflow INFO:
Found 1 groups of DWI series that can be corrected by eddy:
[ { 'concatenated_bids_name': 'sub-CON01_ses-preop_acq-AP',
'dwi_series': [ '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz'],
'dwi_series_pedir': 'j-',
'fieldmap_info': { 'epi': [ '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz'],
'suffix': 'epi'}}]
260703-07:48:05,908 nipype.workflow INFO:
Finished grouping DWI scans
260703-07:48:05,908 nipype.workflow INFO:
[{'dwi_series': ['/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz'], 'fieldmap_info': {'suffix': 'epi', 'epi': ['/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz']}, 'dwi_series_pedir': 'j-', 'concatenated_bids_name': 'sub-CON01_ses-preop_acq-AP'}]
260703-07:48:06,17 nipype.workflow INFO:
Automatically using 3, 3, 3 window for dwidenoise
260703-07:48:06,28 nipype.workflow INFO:
Using 4 threads in eddy
260703-07:48:06,42 nipype.workflow INFO:
Using single-stage SDC, TOPUP-only
260703-07:48:52,819 nipype.workflow INFO:
QSIPrep workflow graph with 256 nodes built successfully.
260703-07:50:29,934 nipype.workflow IMPORTANT:
QSIPrep started!
260703-07:50:46,601 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.noise_images" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/noise_images".
260703-07:50:46,603 nipype.workflow INFO:
[Node] Executing "noise_images" <nipype.interfaces.utility.base.Merge>
260703-07:50:46,659 nipype.workflow INFO:
[Node] Finished "noise_images", elapsed time 0.000245s.
260703-07:50:46,661 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.bias_images" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/bias_images".
260703-07:50:46,662 nipype.workflow INFO:
[Node] Executing "bias_images" <nipype.interfaces.utility.base.Merge>
260703-07:50:46,663 nipype.workflow INFO:
[Node] Finished "bias_images", elapsed time 0.00012s.
260703-07:51:00,778 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.conform_dwis01" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/conform_dwis01".
260703-07:51:00,778 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.bidssrc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/bidssrc".
260703-07:51:00,778 nipype.workflow INFO:
[Node] Outdated cache found for "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.bidssrc".
260703-07:51:00,779 nipype.workflow INFO:
[Node] Executing "conform_dwis01" <qsiprep.interfaces.images.ConformDwi>
260703-07:51:00,780 nipype.workflow INFO:
[Node] Executing "bidssrc" <qsiprep.interfaces.bids.BIDSDataGrabber>
260703-07:51:00,825 nipype.interface INFO:
No T2w images found for subject sub-<undefined>, but no problem because --anat-modality T1w was selected.
260703-07:51:00,825 nipype.interface WARNING:
No 'flair' images found for sub-<undefined>
260703-07:51:00,825 nipype.interface WARNING:
No 'sbref' images found for sub-<undefined>
260703-07:51:00,825 nipype.interface WARNING:
No 'roi' images found for sub-<undefined>
260703-07:51:00,826 nipype.workflow INFO:
[Node] Finished "bidssrc", elapsed time 0.000496s.
260703-07:51:03,538 nipype.interface INFO:
Not applying reorientation to /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz: already in LAS
260703-07:51:03,538 nipype.workflow INFO:
[Node] Finished "conform_dwis01", elapsed time 2.70519s.
260703-07:51:04,732 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.conformed_raw_images" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/conformed_raw_images".
260703-07:51:04,732 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.conformation_reports" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/conformation_reports".
260703-07:51:04,734 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.conformed_bvals" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/conformed_bvals".
260703-07:51:04,736 nipype.workflow INFO:
[Node] Executing "conformed_bvals" <nipype.interfaces.utility.base.Merge>
260703-07:51:04,737 nipype.workflow INFO:
[Node] Finished "conformed_bvals", elapsed time 0.000168s.
260703-07:51:04,738 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.conformed_bvecs" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/conformed_bvecs".
260703-07:51:04,740 nipype.workflow INFO:
[Node] Executing "conformed_bvecs" <nipype.interfaces.utility.base.Merge>
260703-07:51:04,741 nipype.workflow INFO:
[Node] Finished "conformed_bvecs", elapsed time 0.000115s.
260703-07:51:05,170 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_denoise_ses_preop_acq_AP_dwi_wf.denoiser" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_denoise_ses_preop_acq_AP_dwi_wf/denoiser".
260703-07:51:05,172 nipype.workflow INFO:
[Node] Executing "denoiser" <qsiprep.interfaces.mrtrix.DWIDenoise>
260703-07:51:08,35 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.merged_sidecar" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/merged_sidecar".
260703-07:51:08,39 nipype.workflow INFO:
[Node] Executing "merged_sidecar" <qsiprep.interfaces.bids.DerivativesSidecar>
260703-07:51:08,42 nipype.workflow INFO:
[Node] Finished "merged_sidecar", elapsed time 0.00062s.
260703-07:51:27,534 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-output/sub-CON01/anat/sub-CON01_space-ACPC_desc-brain_mask.nii.gz dtype from float64 to uint8
260703-07:51:29,83 nipype.interface INFO:
Generating denoising visual report
260703-07:51:31,182 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-output/sub-CON01/anat/sub-CON01_space-ACPC_desc-aseg_dseg.nii.gz dtype from float64 to int16
260703-07:51:33,763 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-output/sub-CON01/anat/sub-CON01_space-ACPC_dseg.nii.gz dtype from uint32 to int16
260703-07:51:58,991 nipype.workflow INFO:
[Node] Executing "conformation_reports" <nipype.interfaces.utility.base.Merge>
260703-07:51:58,991 nipype.workflow INFO:
[Node] Executing "conformed_raw_images" <nipype.interfaces.utility.base.Merge>
260703-07:51:59,758 nipype.workflow INFO:
[Node] Finished "conformation_reports", elapsed time 0.000246s.
260703-07:51:59,761 nipype.workflow INFO:
[Node] Finished "conformed_raw_images", elapsed time 0.000214s.
260703-07:52:01,720 nipype.workflow INFO:
[Node] Finished "denoiser", elapsed time 55.792569s.
260703-07:52:01,746 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.raw_merge" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/raw_merge".
260703-07:52:01,750 nipype.workflow INFO:
[Node] Executing "raw_merge" <qsiprep.interfaces.nilearn.Merge>
260703-07:52:02,344 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_denoise_ses_preop_acq_AP_dwi_wf.merge_confounds" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_denoise_ses_preop_acq_AP_dwi_wf/merge_confounds".
260703-07:52:02,350 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.conformed_images" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/conformed_images".
260703-07:52:02,977 nipype.workflow INFO:
[Node] Executing "merge_confounds" <nipype.interfaces.utility.base.Merge>
260703-07:52:02,979 nipype.workflow INFO:
[Node] Finished "merge_confounds", elapsed time 0.000152s.
260703-07:52:04,768 nipype.workflow INFO:
[Node] Finished "raw_merge", elapsed time 3.016961s.
260703-07:52:06,52 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.test_pre_hmc_connect" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/test_pre_hmc_connect".
260703-07:52:07,828 nipype.workflow INFO:
[Node] Executing "test_pre_hmc_connect" <qsiprep.interfaces.utils.TestInput>
260703-07:52:07,828 nipype.workflow INFO:
[Node] Finished "test_pre_hmc_connect", elapsed time 2.7e-05s.
260703-07:52:07,828 nipype.workflow WARNING:
Storing result file without outputs
260703-07:52:28,791 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_denoise_ses_preop_acq_AP_dwi_wf.hstack_confounds" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_denoise_ses_preop_acq_AP_dwi_wf/hstack_confounds".
260703-07:52:28,806 nipype.workflow INFO:
[Node] Executing "hstack_confounds" <qsiprep.interfaces.dwi_merge.StackConfounds>
260703-07:52:28,834 nipype.workflow INFO:
[Node] Finished "hstack_confounds", elapsed time 0.02717s.
260703-07:52:29,995 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.denoising_confounds" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/denoising_confounds".
260703-07:52:45,280 nipype.workflow INFO:
[Node] Executing "denoising_confounds" <nipype.interfaces.utility.base.Merge>
260703-07:52:45,293 nipype.workflow INFO:
[Node] Finished "denoising_confounds", elapsed time 0.000171s.
260703-07:52:47,240 nipype.workflow INFO:
[Node] Executing "conformed_images" <nipype.interfaces.utility.base.Merge>
260703-07:52:47,342 nipype.workflow INFO:
[Node] Finished "conformed_images", elapsed time 0.000334s.
260703-07:52:58,553 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.merge_dwis" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/merge_dwis".
260703-07:52:58,558 nipype.workflow INFO:
[Node] Executing "merge_dwis" <qsiprep.interfaces.dwi_merge.MergeDWIs>
260703-07:52:59,949 nipype.workflow INFO:
[Node] Finished "merge_dwis", elapsed time 1.3907289999999999s.
260703-07:53:02,35 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_qc_wf.raw_src" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_src".
260703-07:53:02,35 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.dwi_qc_wf.raw_src" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_src".
260703-07:53:02,52 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.gather_inputs" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/gather_inputs".
260703-07:53:02,66 nipype.workflow INFO:
[Node] Executing "gather_inputs" <qsiprep.interfaces.eddy.GatherEddyInputs>
image_source
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image_source
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image_source
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image_source
<class 'nibabel.nifti1.Nifti1Image'>
data shape (96, 96, 60, 102)
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metadata:
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qform_code : scanner
sform_code : scanner
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new_b0_path /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/gather_inputs/sub-CON01_ses-preop_acq-AP_dwi_b0-51.nii.gz
image_source 260703-07:53:05,425 nipype.workflow INFO:
[Node] Executing "raw_src" <qsiprep.interfaces.dsi_studio.DSIStudioCreateSrc>
260703-07:53:05,610 nipype.workflow INFO:
[Node] Executing "raw_src" <qsiprep.interfaces.dsi_studio.DSIStudioCreateSrc>
<class 'nibabel.nifti1.Nifti1Image'>
data shape (96, 96, 60, 102)
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metadata:
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qform_code : scanner
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srow_z : [ 6.60143122e-02 6.84210539e-01 2.40364265e+00 -1.12644356e+02]
intent_name : b''
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new_b0_path /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/gather_inputs/sub-CON01_ses-preop_acq-AP_dwi_b0-76.nii.gz
image_source
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srow_x : [-2.4991140e+00 2.6171597e-02 6.1186470e-02 1.1602857e+02]
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new_b0_path /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/gather_inputs/sub-CON01_ses-preop_acq-AP_dwi_b0-101.nii.gz
image_source /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz
new_b0_path /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/gather_inputs/sub-CON01_ses-preop_dir-PA_epi_b0-00.nii.gz
image_source /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz
new_b0_path /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/gather_inputs/sub-CON01_ses-preop_dir-PA_epi_b0-01.nii.gz
260703-07:53:15,164 nipype.workflow INFO:
[Node] Finished "gather_inputs", elapsed time 13.091s.
260703-07:53:16,241 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.topup_to_eddy_reg" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/topup_to_eddy_reg".
260703-07:53:16,241 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.topup_summary" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/topup_summary".
260703-07:53:16,268 nipype.workflow INFO:
[Node] Executing "topup_summary" <qsiprep.interfaces.reports.TopupSummary>
260703-07:53:16,269 nipype.workflow INFO:
[Node] Finished "topup_summary", elapsed time 0.000182s.
260703-07:53:20,751 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.enhance_pre_sdc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/enhance_pre_sdc".
260703-07:53:20,794 nipype.workflow INFO:
[Node] Executing "enhance_pre_sdc" <qsiprep.interfaces.nilearn.EnhanceB0>
file none does not exist .
260703-07:53:29,614 nipype.workflow INFO:
[Node] Executing "topup_to_eddy_reg" <nipype.interfaces.fsl.preprocess.FLIRT>
260703-07:53:31,333 nipype.workflow INFO:
[Node] Finished "enhance_pre_sdc", elapsed time 10.538257s.
260703-07:53:43,580 nipype.workflow INFO:
[Node] Finished "raw_src", elapsed time 38.154372s.
260703-07:53:43,622 nipype.workflow INFO:
[Node] Finished "raw_src", elapsed time 38.010938s.
260703-07:53:43,700 nipype.workflow INFO:
[Node] Finished "topup_to_eddy_reg", elapsed time 14.085575s.
260703-07:53:44,143 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_qc_wf.raw_src_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_src_qc".
260703-07:53:44,143 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_qc_wf.raw_gqi" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_gqi".
260703-07:53:44,145 nipype.workflow INFO:
[Node] Executing "raw_src_qc" <qsiprep.interfaces.dsi_studio.DSIStudioSrcQC>
260703-07:53:44,146 nipype.workflow INFO:
[Node] Executing "raw_gqi" <qsiprep.interfaces.dsi_studio.DSIStudioGQIReconstruction>
260703-07:53:44,149 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.dwi_qc_wf.raw_src_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc".
260703-07:53:44,151 nipype.workflow INFO:
[Node] Executing "raw_src_qc" <qsiprep.interfaces.dsi_studio.DSIStudioSrcQC>
260703-07:53:48,327 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_src_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_src_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
├──┬──📟run qc
│ ├──is_fib=0
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking SRC files
│ │ ├──checking /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_src_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
│ │ ├──┬──📂open SRC file sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
│ │ │ ├──generating mask
│ │ │ └──⏱2.002s
│ │ └──⏱3.212s
│ └──⏱3.224s
└──⏱3.967s
260703-07:53:48,327 nipype.workflow INFO:
[Node] Finished "raw_src_qc", elapsed time 4.181302s.
260703-07:53:50,112 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.dwi_qc_wf.raw_gqi" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi".
260703-07:53:50,115 nipype.workflow INFO:
[Node] Executing "raw_gqi" <qsiprep.interfaces.dsi_studio.DSIStudioGQIReconstruction>
260703-07:53:50,703 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
├──┬──📟run qc
│ ├──is_fib=0
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking SRC files
│ │ ├──checking /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
│ │ ├──┬──📂open SRC file sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
│ │ │ ├──generating mask
│ │ │ └──⏱4.424s
│ │ └──⏱5.576s
│ └──⏱5.576s
└──⏱6.342s
260703-07:53:50,704 nipype.workflow INFO:
[Node] Finished "raw_src_qc", elapsed time 6.55288s.
260703-07:53:52,107 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.topup" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/topup".
260703-07:53:52,137 nipype.workflow INFO:
[Node] Executing "topup" <qsiprep.interfaces.fmap.ParallelTOPUP>
260703-07:55:21,666 nipype.interface INFO:
current dir: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi
260703-07:55:21,666 nipype.interface INFO:
input src /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
260703-07:55:21,666 nipype.interface INFO:
split src name sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
260703-07:55:21,666 nipype.interface INFO:
search target: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz*gqi*.fib.gz
260703-07:55:21,667 nipype.workflow INFO:
[Node] Finished "raw_gqi", elapsed time 91.551957s.
260703-07:55:23,59 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.dwi_qc_wf.raw_fib_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_fib_qc".
260703-07:55:23,61 nipype.workflow INFO:
[Node] Executing "raw_fib_qc" <qsiprep.interfaces.dsi_studio.DSIStudioFibQC>
260703-07:55:27,903 nipype.interface INFO:
current dir: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_gqi
260703-07:55:27,903 nipype.interface INFO:
input src /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_gqi/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
260703-07:55:27,903 nipype.interface INFO:
split src name sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz
260703-07:55:27,903 nipype.interface INFO:
search target: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_gqi/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz*gqi*.fib.gz
260703-07:55:27,904 nipype.workflow INFO:
[Node] Finished "raw_gqi", elapsed time 103.757591s.
260703-07:55:28,211 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_qc_wf.raw_fib_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_fib_qc".
260703-07:55:28,214 nipype.workflow INFO:
[Node] Executing "raw_fib_qc" <qsiprep.interfaces.dsi_studio.DSIStudioFibQC>
260703-07:55:30,811 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_fib_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/raw_fib_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz
├──┬──📟run qc
│ ├──is_fib=1
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking FIB files
│ │ ├──┬──📂opening sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz
│ │ │ ├──prepare index file for future accelerated loading
│ │ │ ├──💾saving index file for accelerated loading: sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz.idx
│ │ │ ├──┬──📟loading image volumes
│ │ │ │ └──⏱15ms
│ │ │ ├──matched template: ICBM152_adult
│ │ │ └──⏱7.04s
│ │ └──⏱7.218s
│ └──⏱7.218s
└──⏱7.225s
260703-07:55:30,812 nipype.workflow INFO:
[Node] Finished "raw_fib_qc", elapsed time 7.749616s.
260703-07:55:32,224 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.dwi_qc_wf.merged_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/dwi_qc_wf/merged_qc".
260703-07:55:32,226 nipype.workflow INFO:
[Node] Executing "merged_qc" <qsiprep.interfaces.dsi_studio.DSIStudioMergeQC>
260703-07:55:32,229 nipype.workflow INFO:
[Node] Finished "merged_qc", elapsed time 0.002269s.
260703-07:55:36,979 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_fib_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/raw_fib_qc/sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz
├──┬──📟run qc
│ ├──is_fib=1
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking FIB files
│ │ ├──┬──📂opening sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz
│ │ │ ├──prepare index file for future accelerated loading
│ │ │ ├──💾saving index file for accelerated loading: sub-CON01_ses-preop_acq-AP_dwi_merged.src.gz.odf.gqi.1.25.fib.gz.idx
│ │ │ ├──┬──📟loading image volumes
│ │ │ │ └──⏱27ms
│ │ │ ├──matched template: ICBM152_adult
│ │ │ └──⏱6.716s
│ │ └──⏱6.854s
│ └──⏱6.855s
└──⏱6.86s
260703-07:55:36,979 nipype.workflow INFO:
[Node] Finished "raw_fib_qc", elapsed time 8.764991s.
260703-07:55:38,237 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.pre_hmc_wf.merge_and_denoise_wf.dwi_qc_wf.merged_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/pre_hmc_wf/merge_and_denoise_wf/dwi_qc_wf/merged_qc".
260703-07:55:38,240 nipype.workflow INFO:
[Node] Executing "merged_qc" <qsiprep.interfaces.dsi_studio.DSIStudioMergeQC>
260703-07:55:38,434 nipype.workflow INFO:
[Node] Finished "merged_qc", elapsed time 0.193419s.
260703-07:57:08,559 nipype.workflow INFO:
[Node] Finished "topup", elapsed time 196.401741s.
260703-07:57:10,169 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.unwarped_mean" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/unwarped_mean".
260703-07:57:10,170 nipype.workflow INFO:
[Node] Executing "unwarped_mean" <qsiprep.interfaces.images.IntraModalMerge>
260703-07:57:11,536 nipype.workflow INFO:
[Node] Finished "unwarped_mean", elapsed time 1.364773s.
260703-07:57:12,172 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.pad_before_synthstrip_wf.skulled_1mm_resample" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/pad_before_synthstrip_wf/skulled_1mm_resample".
260703-07:57:12,174 nipype.workflow INFO:
[Node] Executing "skulled_1mm_resample" <nipype.interfaces.afni.utils.Resample>
260703-07:57:12,825 nipype.workflow INFO:
[Node] Finished "skulled_1mm_resample", elapsed time 0.650433s.
260703-07:57:14,172 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.pad_before_synthstrip_wf.skulled_autobox" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/pad_before_synthstrip_wf/skulled_autobox".
260703-07:57:14,175 nipype.workflow INFO:
[Node] Executing "skulled_autobox" <nipype.interfaces.afni.utils.Autobox>
260703-07:57:15,613 nipype.workflow INFO:
[Node] Finished "skulled_autobox", elapsed time 1.4379089999999999s.
260703-07:57:16,174 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.pad_before_synthstrip_wf.prepare_synthstrip_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference".
260703-07:57:16,175 nipype.workflow INFO:
[Node] Executing "prepare_synthstrip_reference" <qsiprep.interfaces.freesurfer.PrepareSynthStripGrid>
260703-07:57:16,215 nipype.interface INFO:
stderr 2026-07-03T07:57:16.215228:++ 3dZeropad: AFNI version=AFNI_23.0.07 (Mar 1 2023) [64-bit]
260703-07:57:16,469 nipype.interface INFO:
stderr 2026-07-03T07:57:16.469598:++ output dataset: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference/topup_imain_corrected_avg_resample_autobox_SynthStripGrid.nii
260703-07:57:16,591 nipype.workflow INFO:
[Node] Finished "prepare_synthstrip_reference", elapsed time 0.415528s.
260703-07:57:18,176 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.pad_before_synthstrip_wf.resample_skulled_to_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/pad_before_synthstrip_wf/resample_skulled_to_reference".
260703-07:57:18,179 nipype.workflow INFO:
[Node] Executing "resample_skulled_to_reference" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-07:57:23,534 nipype.workflow INFO:
[Node] Finished "resample_skulled_to_reference", elapsed time 5.354484s.
260703-07:57:24,176 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.synthstrip" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/synthstrip".
260703-07:57:24,177 nipype.workflow INFO:
[Node] Executing "synthstrip" <qsiprep.interfaces.freesurfer.FixHeaderSynthStrip>
260703-07:58:03,802 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 39.62385s.
260703-07:58:04,221 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.mask_to_original_grid" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/mask_to_original_grid".
260703-07:58:04,224 nipype.workflow INFO:
[Node] Executing "mask_to_original_grid" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-07:58:04,512 nipype.workflow INFO:
[Node] Finished "mask_to_original_grid", elapsed time 0.287891s.
260703-07:58:06,222 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.synthstrip_wf.mask_brain" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/synthstrip_wf/mask_brain".
260703-07:58:06,223 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.transform_mask_to_eddy" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/transform_mask_to_eddy".
260703-07:58:06,225 nipype.workflow INFO:
[Node] Executing "mask_brain" <nipype.interfaces.ants.utils.MultiplyImages>
260703-07:58:06,227 nipype.workflow INFO:
[Node] Executing "transform_mask_to_eddy" <nipype.interfaces.fsl.preprocess.ApplyXFM>
260703-07:58:06,425 nipype.workflow INFO:
[Node] Finished "transform_mask_to_eddy", elapsed time 0.197164s.
260703-07:58:06,604 nipype.workflow INFO:
[Node] Finished "mask_brain", elapsed time 0.187816s.
260703-07:58:08,224 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.eddy" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/eddy".
260703-07:58:08,231 nipype.workflow INFO:
[Node] Executing "eddy" <qsiprep.interfaces.eddy.ExtendedEddy>
260703-08:34:06,849 nipype.workflow INFO:
[Node] Finished "eddy", elapsed time 2158.617417s.
260703-08:34:08,141 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.back_to_lps" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/back_to_lps".
260703-08:34:08,141 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.cnr_lps" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/cnr_lps".
260703-08:34:08,141 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.spm_motion" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/spm_motion".
260703-08:34:08,143 nipype.workflow INFO:
[Node] Executing "cnr_lps" <qsiprep.interfaces.images.ConformDwi>
260703-08:34:08,143 nipype.workflow INFO:
[Node] Executing "spm_motion" <qsiprep.interfaces.eddy.Eddy2SPMMotion>
260703-08:34:08,145 nipype.workflow INFO:
[Node] Finished "spm_motion", elapsed time 0.001362s.
260703-08:34:08,147 nipype.workflow INFO:
[Node] Executing "back_to_lps" <qsiprep.interfaces.images.ConformDwi>
260703-08:34:08,604 nipype.interface INFO:
Re-orienting /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_cnr_maps.nii.gz to LPS
260703-08:34:08,996 nipype.workflow INFO:
[Node] Finished "cnr_lps", elapsed time 0.852475s.
260703-08:34:10,146 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.cnr_image_type" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/cnr_image_type".
260703-08:34:10,147 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.dwi_confs_wf.fdisp" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/dwi_confs_wf/fdisp".
260703-08:34:10,148 nipype.workflow INFO:
[Node] Executing "cnr_image_type" <qsiprep.interfaces.ants.GetImageType>
260703-08:34:10,149 nipype.workflow INFO:
[Node] Executing "fdisp" <nipype.algorithms.confounds.FramewiseDisplacement>
260703-08:34:10,151 nipype.workflow INFO:
[Node] Finished "fdisp", elapsed time 0.001321s.
260703-08:34:10,193 nipype.workflow INFO:
[Node] Finished "cnr_image_type", elapsed time 0.044779s.
260703-08:34:16,658 nipype.interface INFO:
Re-orienting /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/eddy/eddy_corrected.nii.gz to LPS
260703-08:34:26,45 nipype.interface INFO:
Reorienting /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_rotated_bvecs to LPS
260703-08:34:26,60 nipype.workflow INFO:
[Node] Finished "back_to_lps", elapsed time 17.912406s.
260703-08:34:28,159 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.split_eddy_lps" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps".
260703-08:34:28,160 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.extract_b0_series" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/extract_b0_series".
260703-08:34:28,162 nipype.workflow INFO:
[Node] Executing "split_eddy_lps" <qsiprep.interfaces.images.SplitDWIsFSL>
260703-08:34:28,162 nipype.workflow INFO:
[Node] Executing "extract_b0_series" <qsiprep.interfaces.gradients.ExtractB0s>
260703-08:34:29,919 nipype.workflow INFO:
[Node] Finished "extract_b0_series", elapsed time 1.756517s.
260703-08:34:30,162 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.pad_before_synthstrip_wf.skulled_1mm_resample" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/pad_before_synthstrip_wf/skulled_1mm_resample".
260703-08:34:30,163 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.b0_anat_coreg.b0_to_anat" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat".
260703-08:34:30,164 nipype.workflow INFO:
[Node] Executing "skulled_1mm_resample" <nipype.interfaces.afni.utils.Resample>
260703-08:34:30,187 nipype.workflow INFO:
[Node] Executing "b0_to_anat" <qsiprep.interfaces.niworkflows.ANTSRegistrationRPT>
260703-08:34:31,528 nipype.workflow INFO:
[Node] Finished "skulled_1mm_resample", elapsed time 1.363272s.
260703-08:34:32,162 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.pad_before_synthstrip_wf.skulled_autobox" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/pad_before_synthstrip_wf/skulled_autobox".
260703-08:34:32,164 nipype.workflow INFO:
[Node] Executing "skulled_autobox" <nipype.interfaces.afni.utils.Autobox>
260703-08:34:32,937 nipype.workflow INFO:
[Node] Finished "skulled_autobox", elapsed time 0.771942s.
260703-08:34:34,164 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.pad_before_synthstrip_wf.prepare_synthstrip_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference".
260703-08:34:34,166 nipype.workflow INFO:
[Node] Executing "prepare_synthstrip_reference" <qsiprep.interfaces.freesurfer.PrepareSynthStripGrid>
260703-08:34:34,395 nipype.interface INFO:
stderr 2026-07-03T08:34:34.395789:++ 3dZeropad: AFNI version=AFNI_23.0.07 (Mar 1 2023) [64-bit]
260703-08:34:34,532 nipype.interface INFO:
stderr 2026-07-03T08:34:34.532405:++ output dataset: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference/eddy_corrected_LPS_b0_series_mean_resample_autobox_SynthStripGrid.nii
260703-08:34:34,653 nipype.workflow INFO:
[Node] Finished "prepare_synthstrip_reference", elapsed time 0.486846s.
260703-08:34:36,168 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.pad_before_synthstrip_wf.resample_skulled_to_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/pad_before_synthstrip_wf/resample_skulled_to_reference".
260703-08:34:36,170 nipype.workflow INFO:
[Node] Executing "resample_skulled_to_reference" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:34:39,671 nipype.workflow INFO:
[Node] Finished "resample_skulled_to_reference", elapsed time 3.499578s.
260703-08:34:40,176 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.synthstrip" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/synthstrip".
260703-08:34:40,178 nipype.workflow INFO:
[Node] Executing "synthstrip" <qsiprep.interfaces.freesurfer.FixHeaderSynthStrip>
260703-08:34:40,386 nipype.interface INFO:
Converting oblique-image bvecs to world coordinate reference frame
260703-08:34:40,736 nipype.interface INFO:
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mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0089eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0089.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0089.nii.gz
260703-08:34:43,343 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0090eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0090.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0090.nii.gz
260703-08:34:43,371 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0091eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0091.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0091.nii.gz
260703-08:34:43,399 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0092eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0092.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0092.nii.gz
260703-08:34:43,426 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0093eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0093.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0093.nii.gz
260703-08:34:43,453 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0094eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0094.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0094.nii.gz
260703-08:34:43,479 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0095eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0095.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0095.nii.gz
260703-08:34:43,506 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0096eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0096.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0096.nii.gz
260703-08:34:43,533 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0097eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0097.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0097.nii.gz
260703-08:34:43,561 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0098eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0098.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0098.nii.gz
260703-08:34:43,588 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0099eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0099.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0099.nii.gz
260703-08:34:43,615 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0100eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0100.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0100.nii.gz
260703-08:34:43,643 nipype.interface INFO:
mrinfo -dwgrad -fslgrad /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/_0101eddy_corrected_LPS_fix.eddy_rotated_bvecs /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/sub-CON01_ses-preop_acq-AP_dwi_0101.bval /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/split_eddy_lps/vol0101.nii.gz
260703-08:34:43,671 nipype.workflow INFO:
[Node] Finished "split_eddy_lps", elapsed time 15.509104s.
260703-08:34:44,175 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.get_interpolation" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/get_interpolation".
260703-08:34:44,201 nipype.workflow INFO:
[Node] Executing "get_interpolation" <qsiprep.interfaces.images.ChooseInterpolator>
[2. 2. 2.] [2.25 2.25 2.25]
260703-08:34:44,224 nipype.interface WARNING:
Using Linear interpolation for upsampling
260703-08:34:44,224 nipype.workflow INFO:
[Node] Finished "get_interpolation", elapsed time 0.02204s.
260703-08:35:06,822 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 26.643662s.
260703-08:35:08,190 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.mask_to_original_grid" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/mask_to_original_grid".
260703-08:35:08,192 nipype.workflow INFO:
[Node] Executing "mask_to_original_grid" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:35:08,453 nipype.workflow INFO:
[Node] Finished "mask_to_original_grid", elapsed time 0.259989s.
260703-08:35:10,192 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.hmc_sdc_wf.b0_ref_for_coreg.synthstrip_wf.mask_brain" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/hmc_sdc_wf/b0_ref_for_coreg/synthstrip_wf/mask_brain".
260703-08:35:10,192 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.conf_plot" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/conf_plot".
260703-08:35:10,194 nipype.workflow INFO:
[Node] Executing "mask_brain" <nipype.interfaces.ants.utils.MultiplyImages>
260703-08:35:10,195 nipype.workflow INFO:
[Node] Executing "conf_plot" <qsiprep.interfaces.confounds.DMRISummary>
260703-08:35:10,375 nipype.workflow INFO:
[Node] Finished "mask_brain", elapsed time 0.17972s.
260703-08:35:10,733 nipype.workflow INFO:
[Node] Finished "conf_plot", elapsed time 0.536757s.
260703-08:35:38,526 nipype.interface INFO:
Report - setting fixed (/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/anat_preproc_wf/rigid_acpc_resample_brain/masked_brain_trans.nii) and moving (/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform_Warped.nii.gz) images
260703-08:35:59,263 nipype.workflow INFO:
[Node] Finished "b0_to_anat", elapsed time 89.074823s.
260703-08:36:00,376 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.fmap_unwarp_report_wf.map_seg" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/fmap_unwarp_report_wf/map_seg".
260703-08:36:00,377 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.compose_transforms" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/compose_transforms".
260703-08:36:00,380 nipype.workflow INFO:
[Node] Executing "map_seg" <niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
260703-08:36:00,430 nipype.workflow INFO:
[Node] Executing "compose_transforms" <qsiprep.interfaces.gradients.ComposeTransforms>
260703-08:36:00,431 nipype.interface INFO:
hmc
260703-08:36:00,431 nipype.interface INFO:
fieldwarp
260703-08:36:00,431 nipype.interface INFO:
to b=0 affine
260703-08:36:00,431 nipype.interface INFO:
to b=0 warp
260703-08:36:00,431 nipype.interface INFO:
b=0 to T1w
260703-08:36:00,431 nipype.interface INFO:
Including ['/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', 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'/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', 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'/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat', '/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat']
260703-08:36:00,437 nipype.workflow INFO:
[Node] Finished "compose_transforms", elapsed time 0.006349s.
260703-08:36:02,239 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.cnr_tfm" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/cnr_tfm".
260703-08:36:02,239 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.rotate_gradients" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients".
260703-08:36:02,256 nipype.workflow INFO:
[Node] Executing "cnr_tfm" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:02,308 nipype.workflow INFO:
[Node] Executing "rotate_gradients" <qsiprep.interfaces.gradients.GradientRotation>
260703-08:36:02,335 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:02,734 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:02,820 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:02,908 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:02,997 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,85 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,172 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,259 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,346 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,434 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,522 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,609 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,696 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,784 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,872 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:03,959 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,45 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,130 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,216 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,242 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform0" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform0".
260703-08:36:04,242 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform1" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform1".
260703-08:36:04,243 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform2" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform2".
260703-08:36:04,244 nipype.workflow INFO:
[Node] Executing "_dwi_transform1" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,244 nipype.workflow INFO:
[Node] Executing "_dwi_transform0" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,245 nipype.workflow INFO:
[Node] Executing "_dwi_transform2" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,307 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,396 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,485 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,573 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,661 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,752 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,802 nipype.workflow INFO:
[Node] Finished "_dwi_transform2", elapsed time 0.556429s.
260703-08:36:04,804 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform3" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform3".
260703-08:36:04,806 nipype.workflow INFO:
[Node] Executing "_dwi_transform3" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,806 nipype.workflow INFO:
[Node] Finished "_dwi_transform0", elapsed time 0.561172s.
260703-08:36:04,808 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform4" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform4".
260703-08:36:04,810 nipype.workflow INFO:
[Node] Executing "_dwi_transform4" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,812 nipype.workflow INFO:
[Node] Finished "_dwi_transform1", elapsed time 0.567197s.
260703-08:36:04,814 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform5" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform5".
260703-08:36:04,816 nipype.workflow INFO:
[Node] Executing "_dwi_transform5" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,841 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:04,926 nipype.workflow INFO:
[Node] Finished "map_seg", elapsed time 4.545932s.
260703-08:36:04,928 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform6" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform6".
260703-08:36:04,930 nipype.workflow INFO:
[Node] Executing "_dwi_transform6" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:04,935 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,31 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,120 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,124 nipype.workflow INFO:
[Node] Finished "_dwi_transform3", elapsed time 0.317151s.
260703-08:36:05,126 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform7" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform7".
260703-08:36:05,127 nipype.workflow INFO:
[Node] Executing "_dwi_transform7" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:05,130 nipype.workflow INFO:
[Node] Finished "_dwi_transform5", elapsed time 0.313275s.
260703-08:36:05,131 nipype.workflow INFO:
[Node] Finished "_dwi_transform4", elapsed time 0.320538s.
260703-08:36:05,132 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform8" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform8".
260703-08:36:05,133 nipype.workflow INFO:
[Node] Executing "_dwi_transform8" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:05,209 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,238 nipype.workflow INFO:
[Node] Finished "_dwi_transform6", elapsed time 0.30807s.
260703-08:36:05,297 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,383 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,432 nipype.workflow INFO:
[Node] Finished "_dwi_transform8", elapsed time 0.297842s.
260703-08:36:05,435 nipype.workflow INFO:
[Node] Finished "_dwi_transform7", elapsed time 0.307434s.
260703-08:36:05,469 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,555 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,639 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,727 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,815 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,901 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:05,987 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,70 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,159 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,246 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.fmap_unwarp_report_wf.sel_wm" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/fmap_unwarp_report_wf/sel_wm".
260703-08:36:06,247 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,248 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform9" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform9".
260703-08:36:06,248 nipype.workflow INFO:
[Node] Executing "sel_wm" <qsiprep.interfaces.images.ExtractWM>
260703-08:36:06,249 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform10" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform10".
260703-08:36:06,250 nipype.workflow INFO:
[Node] Executing "_dwi_transform9" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,250 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform11" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform11".
260703-08:36:06,251 nipype.workflow INFO:
[Node] Executing "_dwi_transform10" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,252 nipype.workflow INFO:
[Node] Executing "_dwi_transform11" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,270 nipype.workflow INFO:
[Node] Finished "sel_wm", elapsed time 0.02141s.
260703-08:36:06,272 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform12" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform12".
260703-08:36:06,273 nipype.workflow INFO:
[Node] Executing "_dwi_transform12" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,337 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,424 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,511 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,562 nipype.workflow INFO:
[Node] Finished "_dwi_transform10", elapsed time 0.310818s.
260703-08:36:06,565 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform13" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform13".
260703-08:36:06,566 nipype.workflow INFO:
[Node] Executing "_dwi_transform13" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,568 nipype.workflow INFO:
[Node] Finished "_dwi_transform11", elapsed time 0.315747s.
260703-08:36:06,570 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform14" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform14".
260703-08:36:06,571 nipype.workflow INFO:
[Node] Finished "_dwi_transform9", elapsed time 0.320273s.
260703-08:36:06,572 nipype.workflow INFO:
[Node] Executing "_dwi_transform14" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,573 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform15" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform15".
260703-08:36:06,574 nipype.workflow INFO:
[Node] Executing "_dwi_transform15" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,602 nipype.workflow INFO:
[Node] Finished "_dwi_transform12", elapsed time 0.327777s.
260703-08:36:06,602 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,604 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform16" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform16".
260703-08:36:06,605 nipype.workflow INFO:
[Node] Executing "_dwi_transform16" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,698 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,788 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,878 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:06,878 nipype.workflow INFO:
[Node] Finished "_dwi_transform13", elapsed time 0.311042s.
260703-08:36:06,880 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform17" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform17".
260703-08:36:06,882 nipype.workflow INFO:
[Node] Executing "_dwi_transform17" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:06,886 nipype.workflow INFO:
[Node] Finished "_dwi_transform15", elapsed time 0.311213s.
260703-08:36:06,890 nipype.workflow INFO:
[Node] Finished "_dwi_transform14", elapsed time 0.317905s.
260703-08:36:06,925 nipype.workflow INFO:
[Node] Finished "_dwi_transform16", elapsed time 0.318853s.
260703-08:36:06,969 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,59 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,146 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,183 nipype.workflow INFO:
[Node] Finished "_dwi_transform17", elapsed time 0.300935s.
260703-08:36:07,235 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,324 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,412 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,499 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,586 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,673 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,760 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,848 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:07,935 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,21 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,107 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,193 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,245 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_preproc_ses_preop_acq_AP_wf.fmap_unwarp_report_wf.dwi_rpt" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/fmap_unwarp_report_wf/dwi_rpt".
260703-08:36:08,246 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform18" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform18".
260703-08:36:08,247 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform19" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform19".
260703-08:36:08,248 nipype.workflow INFO:
[Node] Executing "_dwi_transform18" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,249 nipype.workflow INFO:
[Node] Executing "_dwi_transform19" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,254 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform26" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform26".
260703-08:36:08,256 nipype.workflow INFO:
[Node] Executing "_dwi_transform26" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,265 nipype.workflow INFO:
[Node] Executing "dwi_rpt" <niworkflows.interfaces.reportlets.registration.SimpleBeforeAfterRPT>
260703-08:36:08,281 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,361 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform20" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform20".
260703-08:36:08,362 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform25" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform25".
260703-08:36:08,362 nipype.workflow INFO:
[Node] Executing "_dwi_transform20" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,363 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform23" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform23".
260703-08:36:08,364 nipype.workflow INFO:
[Node] Executing "_dwi_transform25" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,364 nipype.workflow INFO:
[Node] Executing "_dwi_transform23" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,364 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform22" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform22".
260703-08:36:08,365 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform21" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform21".
260703-08:36:08,366 nipype.workflow INFO:
[Node] Executing "_dwi_transform22" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,367 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform24" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform24".
260703-08:36:08,367 nipype.workflow INFO:
[Node] Executing "_dwi_transform21" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,368 nipype.workflow INFO:
[Node] Executing "_dwi_transform24" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:08,368 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,454 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,543 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,556 nipype.workflow INFO:
[Node] Finished "_dwi_transform26", elapsed time 0.29955s.
260703-08:36:08,567 nipype.workflow INFO:
[Node] Finished "_dwi_transform18", elapsed time 0.318669s.
260703-08:36:08,569 nipype.workflow INFO:
[Node] Finished "_dwi_transform19", elapsed time 0.319685s.
260703-08:36:08,640 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,730 nipype.workflow INFO:
[Node] Finished "_dwi_transform22", elapsed time 0.227484s.
260703-08:36:08,732 nipype.workflow INFO:
[Node] Finished "_dwi_transform25", elapsed time 0.222962s.
260703-08:36:08,734 nipype.workflow INFO:
[Node] Finished "_dwi_transform20", elapsed time 0.226549s.
260703-08:36:08,735 nipype.workflow INFO:
[Node] Finished "_dwi_transform23", elapsed time 0.225407s.
260703-08:36:08,736 nipype.workflow INFO:
[Node] Finished "_dwi_transform24", elapsed time 0.231965s.
260703-08:36:08,743 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,749 nipype.workflow INFO:
[Node] Finished "_dwi_transform21", elapsed time 0.246779s.
260703-08:36:08,836 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:08,936 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,33 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,130 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,221 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,311 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,402 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,491 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,581 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,665 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,752 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,840 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:09,944 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,29 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,119 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,206 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,243 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform27" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform27".
260703-08:36:10,244 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform28" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform28".
260703-08:36:10,245 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform29" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform29".
260703-08:36:10,271 nipype.workflow INFO:
[Node] Executing "_dwi_transform27" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,271 nipype.workflow INFO:
[Node] Executing "_dwi_transform28" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,271 nipype.workflow INFO:
[Node] Executing "_dwi_transform29" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,271 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform30" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform30".
260703-08:36:10,272 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform31" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform31".
260703-08:36:10,273 nipype.workflow INFO:
[Node] Executing "_dwi_transform30" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,274 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform32" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform32".
260703-08:36:10,274 nipype.workflow INFO:
[Node] Executing "_dwi_transform31" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,275 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform33" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform33".
260703-08:36:10,276 nipype.workflow INFO:
[Node] Executing "_dwi_transform32" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,276 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform34" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform34".
260703-08:36:10,277 nipype.workflow INFO:
[Node] Executing "_dwi_transform33" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,277 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform35" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform35".
260703-08:36:10,278 nipype.workflow INFO:
[Node] Executing "_dwi_transform34" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,279 nipype.workflow INFO:
[Node] Executing "_dwi_transform35" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:10,292 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,380 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,469 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,496 nipype.workflow INFO:
[Node] Finished "_dwi_transform33", elapsed time 0.218983s.
260703-08:36:10,499 nipype.workflow INFO:
[Node] Finished "_dwi_transform31", elapsed time 0.22389s.
260703-08:36:10,501 nipype.workflow INFO:
[Node] Finished "_dwi_transform32", elapsed time 0.224646s.
260703-08:36:10,502 nipype.workflow INFO:
[Node] Finished "_dwi_transform30", elapsed time 0.227993s.
260703-08:36:10,503 nipype.workflow INFO:
[Node] Finished "_dwi_transform35", elapsed time 0.223212s.
260703-08:36:10,505 nipype.workflow INFO:
[Node] Finished "_dwi_transform34", elapsed time 0.226646s.
260703-08:36:10,556 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,582 nipype.workflow INFO:
[Node] Finished "_dwi_transform28", elapsed time 0.310188s.
260703-08:36:10,584 nipype.workflow INFO:
[Node] Finished "_dwi_transform29", elapsed time 0.311804s.
260703-08:36:10,584 nipype.workflow INFO:
[Node] Finished "_dwi_transform27", elapsed time 0.312491s.
260703-08:36:10,644 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,732 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,820 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,907 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:10,998 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:11,37 nipype.workflow INFO:
[Node] Finished "cnr_tfm", elapsed time 8.780865s.
260703-08:36:11,86 nipype.interface INFO:
antsApplyTransformsToPoints --dimensionality 3 --input /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_pre_rotation.csv --output /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/rotate_gradients/transform0GenericAffine_post_rotation.csv --transform [/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_preproc_ses_preop_acq_AP_wf/b0_anat_coreg/b0_to_anat/transform0GenericAffine.mat, 1]
260703-08:36:11,172 nipype.workflow INFO:
[Node] Finished "rotate_gradients", elapsed time 8.862862s.
MovieWriter imagemagick unavailable; using Pillow instead.
260703-08:36:25,183 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform36" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform36".
260703-08:36:25,184 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform37" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform37".
260703-08:36:25,185 nipype.workflow INFO:
[Node] Executing "_dwi_transform36" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,185 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform38" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform38".
260703-08:36:25,186 nipype.workflow INFO:
[Node] Executing "_dwi_transform37" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,186 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform39" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform39".
260703-08:36:25,187 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform40" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform40".
260703-08:36:25,187 nipype.workflow INFO:
[Node] Executing "_dwi_transform38" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,188 nipype.workflow INFO:
[Node] Executing "_dwi_transform39" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,188 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform41" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform41".
260703-08:36:25,189 nipype.workflow INFO:
[Node] Executing "_dwi_transform40" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,189 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform42" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform42".
260703-08:36:25,190 nipype.workflow INFO:
[Node] Executing "_dwi_transform41" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,190 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform43" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform43".
260703-08:36:25,191 nipype.workflow INFO:
[Node] Executing "_dwi_transform42" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,192 nipype.workflow INFO:
[Node] Executing "_dwi_transform43" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,194 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform44" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform44".
260703-08:36:25,196 nipype.workflow INFO:
[Node] Executing "_dwi_transform44" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:25,413 nipype.workflow INFO:
[Node] Finished "_dwi_transform38", elapsed time 0.225594s.
260703-08:36:25,415 nipype.workflow INFO:
[Node] Finished "_dwi_transform37", elapsed time 0.228376s.
260703-08:36:25,421 nipype.workflow INFO:
[Node] Finished "_dwi_transform36", elapsed time 0.235015s.
260703-08:36:25,426 nipype.workflow INFO:
[Node] Finished "_dwi_transform39", elapsed time 0.237156s.
260703-08:36:25,498 nipype.workflow INFO:
[Node] Finished "_dwi_transform42", elapsed time 0.306173s.
260703-08:36:25,501 nipype.workflow INFO:
[Node] Finished "_dwi_transform43", elapsed time 0.307951s.
260703-08:36:25,502 nipype.workflow INFO:
[Node] Finished "_dwi_transform40", elapsed time 0.312106s.
260703-08:36:25,506 nipype.workflow INFO:
[Node] Finished "_dwi_transform41", elapsed time 0.315745s.
260703-08:36:25,520 nipype.workflow INFO:
[Node] Finished "_dwi_transform44", elapsed time 0.323775s.
260703-08:36:26,499 nipype.workflow INFO:
[Node] Finished "dwi_rpt", elapsed time 18.23324s.
260703-08:36:27,497 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.btab_t1" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/btab_t1".
260703-08:36:27,499 nipype.workflow INFO:
[Node] Executing "btab_t1" <qsiprep.interfaces.dsi_studio.DSIStudioBTable>
260703-08:36:27,500 nipype.workflow INFO:
[Node] Finished "btab_t1", elapsed time 0.000785s.
260703-08:36:27,514 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.gtab_t1" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/gtab_t1".
260703-08:36:27,516 nipype.workflow INFO:
[Node] Executing "gtab_t1" <qsiprep.interfaces.mrtrix.MRTrixGradientTable>
260703-08:36:27,518 nipype.workflow INFO:
[Node] Finished "gtab_t1", elapsed time 0.00106s.
260703-08:36:27,624 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform45" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform45".
260703-08:36:27,625 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform46" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform46".
260703-08:36:27,626 nipype.workflow INFO:
[Node] Executing "_dwi_transform45" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,626 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform47" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform47".
260703-08:36:27,627 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform48" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform48".
260703-08:36:27,627 nipype.workflow INFO:
[Node] Executing "_dwi_transform46" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,628 nipype.workflow INFO:
[Node] Executing "_dwi_transform47" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,628 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform49" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform49".
260703-08:36:27,629 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform50" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform50".
260703-08:36:27,629 nipype.workflow INFO:
[Node] Executing "_dwi_transform48" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,630 nipype.workflow INFO:
[Node] Executing "_dwi_transform49" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,630 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform51" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform51".
260703-08:36:27,630 nipype.workflow INFO:
[Node] Executing "_dwi_transform50" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,631 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform52" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform52".
260703-08:36:27,632 nipype.workflow INFO:
[Node] Executing "_dwi_transform51" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,632 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform53" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform53".
260703-08:36:27,633 nipype.workflow INFO:
[Node] Executing "_dwi_transform52" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,634 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform54" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform54".
260703-08:36:27,634 nipype.workflow INFO:
[Node] Executing "_dwi_transform53" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,636 nipype.workflow INFO:
[Node] Executing "_dwi_transform54" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:27,852 nipype.workflow INFO:
[Node] Finished "_dwi_transform46", elapsed time 0.22455s.
260703-08:36:27,853 nipype.workflow INFO:
[Node] Finished "_dwi_transform45", elapsed time 0.226069s.
260703-08:36:27,863 nipype.workflow INFO:
[Node] Finished "_dwi_transform48", elapsed time 0.233089s.
260703-08:36:27,863 nipype.workflow INFO:
[Node] Finished "_dwi_transform47", elapsed time 0.234157s.
260703-08:36:27,939 nipype.workflow INFO:
[Node] Finished "_dwi_transform50", elapsed time 0.307871s.
260703-08:36:27,943 nipype.workflow INFO:
[Node] Finished "_dwi_transform52", elapsed time 0.308925s.
260703-08:36:27,944 nipype.workflow INFO:
[Node] Finished "_dwi_transform49", elapsed time 0.313021s.
260703-08:36:27,950 nipype.workflow INFO:
[Node] Finished "_dwi_transform51", elapsed time 0.317365s.
260703-08:36:27,955 nipype.workflow INFO:
[Node] Finished "_dwi_transform53", elapsed time 0.319803s.
260703-08:36:27,959 nipype.workflow INFO:
[Node] Finished "_dwi_transform54", elapsed time 0.322684s.
260703-08:36:29,623 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform55" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform55".
260703-08:36:29,624 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform56" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform56".
260703-08:36:29,625 nipype.workflow INFO:
[Node] Executing "_dwi_transform55" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,626 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform57" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform57".
260703-08:36:29,626 nipype.workflow INFO:
[Node] Executing "_dwi_transform56" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,627 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform58" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform58".
260703-08:36:29,628 nipype.workflow INFO:
[Node] Executing "_dwi_transform57" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,628 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform59" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform59".
260703-08:36:29,629 nipype.workflow INFO:
[Node] Executing "_dwi_transform58" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,629 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform60" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform60".
260703-08:36:29,630 nipype.workflow INFO:
[Node] Executing "_dwi_transform59" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,630 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform61" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform61".
260703-08:36:29,631 nipype.workflow INFO:
[Node] Executing "_dwi_transform60" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,631 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform62" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform62".
260703-08:36:29,631 nipype.workflow INFO:
[Node] Executing "_dwi_transform61" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,632 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform63" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform63".
260703-08:36:29,633 nipype.workflow INFO:
[Node] Executing "_dwi_transform62" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,633 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform64" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform64".
260703-08:36:29,634 nipype.workflow INFO:
[Node] Executing "_dwi_transform63" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,634 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform65" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform65".
260703-08:36:29,635 nipype.workflow INFO:
[Node] Executing "_dwi_transform64" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,636 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform66" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform66".
260703-08:36:29,660 nipype.workflow INFO:
[Node] Executing "_dwi_transform66" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,660 nipype.workflow INFO:
[Node] Executing "_dwi_transform65" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:29,857 nipype.workflow INFO:
[Node] Finished "_dwi_transform58", elapsed time 0.227973s.
260703-08:36:29,861 nipype.workflow INFO:
[Node] Finished "_dwi_transform57", elapsed time 0.232695s.
260703-08:36:29,863 nipype.workflow INFO:
[Node] Finished "_dwi_transform60", elapsed time 0.231932s.
260703-08:36:29,871 nipype.workflow INFO:
[Node] Finished "_dwi_transform59", elapsed time 0.240433s.
260703-08:36:29,937 nipype.workflow INFO:
[Node] Finished "_dwi_transform56", elapsed time 0.310164s.
260703-08:36:29,943 nipype.workflow INFO:
[Node] Finished "_dwi_transform55", elapsed time 0.317012s.
260703-08:36:29,945 nipype.workflow INFO:
[Node] Finished "_dwi_transform62", elapsed time 0.311341s.
260703-08:36:29,946 nipype.workflow INFO:
[Node] Finished "_dwi_transform61", elapsed time 0.314192s.
260703-08:36:29,947 nipype.workflow INFO:
[Node] Finished "_dwi_transform63", elapsed time 0.312086s.
260703-08:36:29,955 nipype.workflow INFO:
[Node] Finished "_dwi_transform64", elapsed time 0.318916s.
260703-08:36:29,979 nipype.workflow INFO:
[Node] Finished "_dwi_transform66", elapsed time 0.318224s.
260703-08:36:29,982 nipype.workflow INFO:
[Node] Finished "_dwi_transform65", elapsed time 0.321247s.
260703-08:36:31,333 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform67" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform67".
260703-08:36:31,334 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform68" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform68".
260703-08:36:31,335 nipype.workflow INFO:
[Node] Executing "_dwi_transform67" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,335 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform69" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform69".
260703-08:36:31,336 nipype.workflow INFO:
[Node] Executing "_dwi_transform68" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,336 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform70" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform70".
260703-08:36:31,337 nipype.workflow INFO:
[Node] Executing "_dwi_transform69" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,337 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform71" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform71".
260703-08:36:31,338 nipype.workflow INFO:
[Node] Executing "_dwi_transform70" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,338 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform72" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform72".
260703-08:36:31,339 nipype.workflow INFO:
[Node] Executing "_dwi_transform71" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,339 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform73" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform73".
260703-08:36:31,340 nipype.workflow INFO:
[Node] Executing "_dwi_transform72" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,340 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform74" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform74".
260703-08:36:31,341 nipype.workflow INFO:
[Node] Executing "_dwi_transform73" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,341 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform75" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform75".
260703-08:36:31,342 nipype.workflow INFO:
[Node] Executing "_dwi_transform74" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,343 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform76" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform76".
260703-08:36:31,343 nipype.workflow INFO:
[Node] Executing "_dwi_transform75" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,344 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform77" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform77".
260703-08:36:31,345 nipype.workflow INFO:
[Node] Executing "_dwi_transform76" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,345 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform78" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform78".
260703-08:36:31,346 nipype.workflow INFO:
[Node] Executing "_dwi_transform77" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,347 nipype.workflow INFO:
[Node] Executing "_dwi_transform78" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:31,571 nipype.workflow INFO:
[Node] Finished "_dwi_transform67", elapsed time 0.234804s.
260703-08:36:31,577 nipype.workflow INFO:
[Node] Finished "_dwi_transform69", elapsed time 0.2396s.
260703-08:36:31,579 nipype.workflow INFO:
[Node] Finished "_dwi_transform70", elapsed time 0.239999s.
260703-08:36:31,579 nipype.workflow INFO:
[Node] Finished "_dwi_transform68", elapsed time 0.242445s.
260703-08:36:31,648 nipype.workflow INFO:
[Node] Finished "_dwi_transform72", elapsed time 0.307635s.
260703-08:36:31,654 nipype.workflow INFO:
[Node] Finished "_dwi_transform71", elapsed time 0.314043s.
260703-08:36:31,658 nipype.workflow INFO:
[Node] Finished "_dwi_transform75", elapsed time 0.313892s.
260703-08:36:31,658 nipype.workflow INFO:
[Node] Finished "_dwi_transform73", elapsed time 0.315852s.
260703-08:36:31,660 nipype.workflow INFO:
[Node] Finished "_dwi_transform74", elapsed time 0.316463s.
260703-08:36:31,660 nipype.workflow INFO:
[Node] Finished "_dwi_transform78", elapsed time 0.312374s.
260703-08:36:31,663 nipype.workflow INFO:
[Node] Finished "_dwi_transform76", elapsed time 0.318076s.
260703-08:36:31,664 nipype.workflow INFO:
[Node] Finished "_dwi_transform77", elapsed time 0.317572s.
260703-08:36:33,335 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform79" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform79".
260703-08:36:33,336 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform80" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform80".
260703-08:36:33,336 nipype.workflow INFO:
[Node] Executing "_dwi_transform79" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,337 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform81" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform81".
260703-08:36:33,337 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform82" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform82".
260703-08:36:33,337 nipype.workflow INFO:
[Node] Executing "_dwi_transform80" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,338 nipype.workflow INFO:
[Node] Executing "_dwi_transform81" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,339 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform83" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform83".
260703-08:36:33,339 nipype.workflow INFO:
[Node] Executing "_dwi_transform82" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,339 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform84" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform84".
260703-08:36:33,340 nipype.workflow INFO:
[Node] Executing "_dwi_transform83" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,341 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform85" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform85".
260703-08:36:33,341 nipype.workflow INFO:
[Node] Executing "_dwi_transform84" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,342 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform86" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform86".
260703-08:36:33,343 nipype.workflow INFO:
[Node] Executing "_dwi_transform85" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,343 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform87" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform87".
260703-08:36:33,344 nipype.workflow INFO:
[Node] Executing "_dwi_transform86" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,344 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform88" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform88".
260703-08:36:33,345 nipype.workflow INFO:
[Node] Executing "_dwi_transform87" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,346 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform89" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform89".
260703-08:36:33,346 nipype.workflow INFO:
[Node] Executing "_dwi_transform88" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,347 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform90" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform90".
260703-08:36:33,348 nipype.workflow INFO:
[Node] Executing "_dwi_transform89" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,349 nipype.workflow INFO:
[Node] Executing "_dwi_transform90" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:33,576 nipype.workflow INFO:
[Node] Finished "_dwi_transform79", elapsed time 0.23909s.
260703-08:36:33,578 nipype.workflow INFO:
[Node] Finished "_dwi_transform81", elapsed time 0.238596s.
260703-08:36:33,581 nipype.workflow INFO:
[Node] Finished "_dwi_transform82", elapsed time 0.240996s.
260703-08:36:33,582 nipype.workflow INFO:
[Node] Finished "_dwi_transform80", elapsed time 0.243456s.
260703-08:36:33,658 nipype.workflow INFO:
[Node] Finished "_dwi_transform84", elapsed time 0.315436s.
260703-08:36:33,658 nipype.workflow INFO:
[Node] Finished "_dwi_transform83", elapsed time 0.317042s.
260703-08:36:33,660 nipype.workflow INFO:
[Node] Finished "_dwi_transform88", elapsed time 0.31318s.
260703-08:36:33,665 nipype.workflow INFO:
[Node] Finished "_dwi_transform85", elapsed time 0.321164s.
260703-08:36:33,665 nipype.workflow INFO:
[Node] Finished "_dwi_transform90", elapsed time 0.315151s.
260703-08:36:33,669 nipype.workflow INFO:
[Node] Finished "_dwi_transform87", elapsed time 0.32307s.
260703-08:36:33,672 nipype.workflow INFO:
[Node] Finished "_dwi_transform86", elapsed time 0.327488s.
260703-08:36:33,675 nipype.workflow INFO:
[Node] Finished "_dwi_transform89", elapsed time 0.326443s.
260703-08:36:35,337 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform91" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform91".
260703-08:36:35,338 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform92" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform92".
260703-08:36:35,339 nipype.workflow INFO:
[Node] Executing "_dwi_transform91" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,339 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform93" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform93".
260703-08:36:35,340 nipype.workflow INFO:
[Node] Executing "_dwi_transform92" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,340 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform94" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform94".
260703-08:36:35,340 nipype.workflow INFO:
[Node] Executing "_dwi_transform93" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,341 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform95" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform95".
260703-08:36:35,341 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform96" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform96".
260703-08:36:35,342 nipype.workflow INFO:
[Node] Executing "_dwi_transform94" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,342 nipype.workflow INFO:
[Node] Executing "_dwi_transform95" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,342 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform97" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform97".
260703-08:36:35,343 nipype.workflow INFO:
[Node] Executing "_dwi_transform96" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,343 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform98" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform98".
260703-08:36:35,344 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform99" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform99".
260703-08:36:35,344 nipype.workflow INFO:
[Node] Executing "_dwi_transform97" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,345 nipype.workflow INFO:
[Node] Executing "_dwi_transform98" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,346 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform100" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform100".
260703-08:36:35,346 nipype.workflow INFO:
[Node] Executing "_dwi_transform99" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,347 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform101" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform101".
260703-08:36:35,347 nipype.workflow INFO:
[Node] Executing "_dwi_transform100" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,348 nipype.workflow INFO:
[Node] Executing "_dwi_transform101" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:36:35,567 nipype.workflow INFO:
[Node] Finished "_dwi_transform93", elapsed time 0.226113s.
260703-08:36:35,574 nipype.workflow INFO:
[Node] Finished "_dwi_transform91", elapsed time 0.234179s.
260703-08:36:35,574 nipype.workflow INFO:
[Node] Finished "_dwi_transform94", elapsed time 0.231887s.
260703-08:36:35,577 nipype.workflow INFO:
[Node] Finished "_dwi_transform92", elapsed time 0.236462s.
260703-08:36:35,647 nipype.workflow INFO:
[Node] Finished "_dwi_transform95", elapsed time 0.303519s.
260703-08:36:35,651 nipype.workflow INFO:
[Node] Finished "_dwi_transform98", elapsed time 0.304758s.
260703-08:36:35,656 nipype.workflow INFO:
[Node] Finished "_dwi_transform96", elapsed time 0.312296s.
260703-08:36:35,663 nipype.workflow INFO:
[Node] Finished "_dwi_transform99", elapsed time 0.315611s.
260703-08:36:35,663 nipype.workflow INFO:
[Node] Finished "_dwi_transform97", elapsed time 0.318218s.
260703-08:36:35,664 nipype.workflow INFO:
[Node] Finished "_dwi_transform100", elapsed time 0.315638s.
260703-08:36:35,666 nipype.workflow INFO:
[Node] Finished "_dwi_transform101", elapsed time 0.31711s.
260703-08:36:37,379 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform0" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform0".
260703-08:36:37,380 nipype.workflow INFO:
[Node] Cached "_dwi_transform0" - collecting precomputed outputs
260703-08:36:37,380 nipype.workflow INFO:
[Node] "_dwi_transform0" found cached.
260703-08:36:37,380 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform1" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform1".
260703-08:36:37,381 nipype.workflow INFO:
[Node] Cached "_dwi_transform1" - collecting precomputed outputs
260703-08:36:37,381 nipype.workflow INFO:
[Node] "_dwi_transform1" found cached.
260703-08:36:37,382 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform2" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform2".
260703-08:36:37,383 nipype.workflow INFO:
[Node] Cached "_dwi_transform2" - collecting precomputed outputs
260703-08:36:37,383 nipype.workflow INFO:
[Node] "_dwi_transform2" found cached.
260703-08:36:37,383 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform3" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform3".
260703-08:36:37,384 nipype.workflow INFO:
[Node] Cached "_dwi_transform3" - collecting precomputed outputs
260703-08:36:37,384 nipype.workflow INFO:
[Node] "_dwi_transform3" found cached.
260703-08:36:37,385 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform4" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform4".
260703-08:36:37,386 nipype.workflow INFO:
[Node] Cached "_dwi_transform4" - collecting precomputed outputs
260703-08:36:37,386 nipype.workflow INFO:
[Node] "_dwi_transform4" found cached.
260703-08:36:37,386 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform5" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform5".
260703-08:36:37,387 nipype.workflow INFO:
[Node] Cached "_dwi_transform5" - collecting precomputed outputs
260703-08:36:37,387 nipype.workflow INFO:
[Node] "_dwi_transform5" found cached.
260703-08:36:37,388 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform6" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform6".
260703-08:36:37,388 nipype.workflow INFO:
[Node] Cached "_dwi_transform6" - collecting precomputed outputs
260703-08:36:37,388 nipype.workflow INFO:
[Node] "_dwi_transform6" found cached.
260703-08:36:37,389 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform7" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform7".
260703-08:36:37,390 nipype.workflow INFO:
[Node] Cached "_dwi_transform7" - collecting precomputed outputs
260703-08:36:37,390 nipype.workflow INFO:
[Node] "_dwi_transform7" found cached.
260703-08:36:37,391 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform8" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform8".
260703-08:36:37,391 nipype.workflow INFO:
[Node] Cached "_dwi_transform8" - collecting precomputed outputs
260703-08:36:37,391 nipype.workflow INFO:
[Node] "_dwi_transform8" found cached.
260703-08:36:37,392 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform9" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform9".
260703-08:36:37,393 nipype.workflow INFO:
[Node] Cached "_dwi_transform9" - collecting precomputed outputs
260703-08:36:37,393 nipype.workflow INFO:
[Node] "_dwi_transform9" found cached.
260703-08:36:37,393 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform10" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform10".
260703-08:36:37,394 nipype.workflow INFO:
[Node] Cached "_dwi_transform10" - collecting precomputed outputs
260703-08:36:37,394 nipype.workflow INFO:
[Node] "_dwi_transform10" found cached.
260703-08:36:37,395 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform11" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform11".
260703-08:36:37,395 nipype.workflow INFO:
[Node] Cached "_dwi_transform11" - collecting precomputed outputs
260703-08:36:37,395 nipype.workflow INFO:
[Node] "_dwi_transform11" found cached.
260703-08:36:37,396 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform12" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform12".
260703-08:36:37,397 nipype.workflow INFO:
[Node] Cached "_dwi_transform12" - collecting precomputed outputs
260703-08:36:37,397 nipype.workflow INFO:
[Node] "_dwi_transform12" found cached.
260703-08:36:37,397 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform13" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform13".
260703-08:36:37,398 nipype.workflow INFO:
[Node] Cached "_dwi_transform13" - collecting precomputed outputs
260703-08:36:37,398 nipype.workflow INFO:
[Node] "_dwi_transform13" found cached.
260703-08:36:37,399 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform14" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform14".
260703-08:36:37,400 nipype.workflow INFO:
[Node] Cached "_dwi_transform14" - collecting precomputed outputs
260703-08:36:37,400 nipype.workflow INFO:
[Node] "_dwi_transform14" found cached.
260703-08:36:37,400 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform15" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform15".
260703-08:36:37,401 nipype.workflow INFO:
[Node] Cached "_dwi_transform15" - collecting precomputed outputs
260703-08:36:37,401 nipype.workflow INFO:
[Node] "_dwi_transform15" found cached.
260703-08:36:37,402 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform16" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform16".
260703-08:36:37,402 nipype.workflow INFO:
[Node] Cached "_dwi_transform16" - collecting precomputed outputs
260703-08:36:37,402 nipype.workflow INFO:
[Node] "_dwi_transform16" found cached.
260703-08:36:37,403 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform17" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform17".
260703-08:36:37,404 nipype.workflow INFO:
[Node] Cached "_dwi_transform17" - collecting precomputed outputs
260703-08:36:37,404 nipype.workflow INFO:
[Node] "_dwi_transform17" found cached.
260703-08:36:37,404 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform18" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform18".
260703-08:36:37,405 nipype.workflow INFO:
[Node] Cached "_dwi_transform18" - collecting precomputed outputs
260703-08:36:37,405 nipype.workflow INFO:
[Node] "_dwi_transform18" found cached.
260703-08:36:37,406 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform19" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform19".
260703-08:36:37,407 nipype.workflow INFO:
[Node] Cached "_dwi_transform19" - collecting precomputed outputs
260703-08:36:37,407 nipype.workflow INFO:
[Node] "_dwi_transform19" found cached.
260703-08:36:37,407 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform20" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform20".
260703-08:36:37,408 nipype.workflow INFO:
[Node] Cached "_dwi_transform20" - collecting precomputed outputs
260703-08:36:37,408 nipype.workflow INFO:
[Node] "_dwi_transform20" found cached.
260703-08:36:37,409 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform21" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform21".
260703-08:36:37,409 nipype.workflow INFO:
[Node] Cached "_dwi_transform21" - collecting precomputed outputs
260703-08:36:37,409 nipype.workflow INFO:
[Node] "_dwi_transform21" found cached.
260703-08:36:37,410 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform22" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform22".
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[Node] Setting-up "_dwi_transform23" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform23".
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[Node] Setting-up "_dwi_transform24" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform24".
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[Node] Setting-up "_dwi_transform25" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform25".
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[Node] Setting-up "_dwi_transform26" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform26".
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[Node] Setting-up "_dwi_transform27" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform27".
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[Node] Setting-up "_dwi_transform28" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform28".
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[Node] Setting-up "_dwi_transform29" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform29".
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[Node] Setting-up "_dwi_transform30" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform30".
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[Node] Setting-up "_dwi_transform31" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform31".
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[Node] Setting-up "_dwi_transform32" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform32".
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[Node] Setting-up "_dwi_transform33" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform33".
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[Node] Setting-up "_dwi_transform34" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform34".
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[Node] Setting-up "_dwi_transform35" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform35".
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[Node] Setting-up "_dwi_transform36" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform36".
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[Node] Setting-up "_dwi_transform37" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform37".
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[Node] Setting-up "_dwi_transform38" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform38".
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[Node] Setting-up "_dwi_transform39" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform39".
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[Node] Setting-up "_dwi_transform40" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform40".
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[Node] Setting-up "_dwi_transform41" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform41".
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[Node] Setting-up "_dwi_transform42" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform42".
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[Node] Setting-up "_dwi_transform43" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform43".
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[Node] Setting-up "_dwi_transform44" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform44".
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[Node] Setting-up "_dwi_transform45" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform45".
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[Node] Setting-up "_dwi_transform46" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform46".
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[Node] Setting-up "_dwi_transform47" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform47".
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[Node] Setting-up "_dwi_transform48" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform48".
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[Node] Setting-up "_dwi_transform49" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform49".
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[Node] Setting-up "_dwi_transform50" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform50".
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[Node] Setting-up "_dwi_transform51" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform51".
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[Node] Setting-up "_dwi_transform52" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform52".
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[Node] Setting-up "_dwi_transform53" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform53".
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[Node] Setting-up "_dwi_transform54" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform54".
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[Node] Setting-up "_dwi_transform55" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform55".
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[Node] Setting-up "_dwi_transform56" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform56".
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[Node] "_dwi_transform56" found cached.
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[Node] Setting-up "_dwi_transform57" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform57".
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[Node] "_dwi_transform57" found cached.
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[Node] Setting-up "_dwi_transform58" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform58".
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[Node] Setting-up "_dwi_transform59" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform59".
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260703-08:36:37,463 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform60" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform60".
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[Node] Setting-up "_dwi_transform61" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform61".
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[Node] Setting-up "_dwi_transform62" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform62".
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[Node] Setting-up "_dwi_transform63" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform63".
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[Node] Setting-up "_dwi_transform64" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform64".
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[Node] Setting-up "_dwi_transform65" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform65".
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[Node] Setting-up "_dwi_transform66" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform66".
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[Node] Setting-up "_dwi_transform67" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform67".
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[Node] Setting-up "_dwi_transform68" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform68".
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[Node] Setting-up "_dwi_transform69" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform69".
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[Node] Setting-up "_dwi_transform70" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform70".
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[Node] Setting-up "_dwi_transform71" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform71".
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[Node] Setting-up "_dwi_transform72" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform72".
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[Node] Setting-up "_dwi_transform73" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform73".
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[Node] Setting-up "_dwi_transform74" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform74".
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[Node] Setting-up "_dwi_transform75" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform75".
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[Node] Setting-up "_dwi_transform76" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform76".
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[Node] Setting-up "_dwi_transform77" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform77".
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[Node] Setting-up "_dwi_transform78" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform78".
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[Node] Setting-up "_dwi_transform79" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform79".
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[Node] Setting-up "_dwi_transform80" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform80".
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[Node] Setting-up "_dwi_transform81" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform81".
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[Node] Setting-up "_dwi_transform82" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform82".
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[Node] Setting-up "_dwi_transform83" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform83".
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[Node] Setting-up "_dwi_transform84" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform84".
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[Node] Setting-up "_dwi_transform85" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform85".
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[Node] Setting-up "_dwi_transform86" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform86".
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[Node] Setting-up "_dwi_transform87" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform87".
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[Node] Setting-up "_dwi_transform88" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform88".
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[Node] Setting-up "_dwi_transform89" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform89".
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[Node] Setting-up "_dwi_transform90" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform90".
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[Node] Setting-up "_dwi_transform91" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform91".
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[Node] Setting-up "_dwi_transform92" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform92".
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[Node] Setting-up "_dwi_transform93" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform93".
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[Node] Setting-up "_dwi_transform94" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform94".
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[Node] Setting-up "_dwi_transform95" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform95".
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[Node] Setting-up "_dwi_transform96" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform96".
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[Node] Setting-up "_dwi_transform97" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform97".
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[Node] Setting-up "_dwi_transform98" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform98".
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[Node] Setting-up "_dwi_transform99" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform99".
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[Node] Setting-up "_dwi_transform100" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform100".
260703-08:36:37,519 nipype.workflow INFO:
[Node] Cached "_dwi_transform100" - collecting precomputed outputs
260703-08:36:37,520 nipype.workflow INFO:
[Node] "_dwi_transform100" found cached.
260703-08:36:37,520 nipype.workflow INFO:
[Node] Setting-up "_dwi_transform101" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/dwi_transform/mapflow/_dwi_transform101".
260703-08:36:37,521 nipype.workflow INFO:
[Node] Cached "_dwi_transform101" - collecting precomputed outputs
260703-08:36:37,521 nipype.workflow INFO:
[Node] "_dwi_transform101" found cached.
260703-08:36:42,99 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.scale_dwis" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/scale_dwis".
260703-08:36:42,117 nipype.workflow INFO:
[Node] Executing "scale_dwis" <qsiprep.interfaces.fmap.ApplyScalingImages>
260703-08:36:42,117 nipype.interface INFO:
Not applying scaling to resampled DWIs
260703-08:36:42,119 nipype.workflow INFO:
[Node] Finished "scale_dwis", elapsed time 0.002189s.
260703-08:36:47,152 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.merge" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/merge".
260703-08:36:47,169 nipype.workflow INFO:
[Node] Executing "merge" <qsiprep.interfaces.nilearn.Merge>
260703-08:36:57,350 nipype.workflow INFO:
[Node] Finished "merge", elapsed time 10.179949s.
260703-08:37:02,80 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.extract_b0_series" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/extract_b0_series".
260703-08:37:02,87 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.calculate_qc.raw_src" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_src".
260703-08:37:02,119 nipype.workflow INFO:
[Node] Executing "raw_src" <qsiprep.interfaces.dsi_studio.DSIStudioCreateSrc>
260703-08:37:02,120 nipype.interface INFO:
Converted DIPY LPS+ bval/bvec to DSI Studio b_table
260703-08:37:02,126 nipype.workflow INFO:
[Node] Executing "extract_b0_series" <qsiprep.interfaces.gradients.ExtractB0s>
260703-08:37:02,268 nipype.workflow INFO:
[Node] Finished "extract_b0_series", elapsed time 0.141803s.
260703-08:37:03,356 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.skulled_1mm_resample" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/skulled_1mm_resample".
260703-08:37:03,358 nipype.workflow INFO:
[Node] Executing "skulled_1mm_resample" <nipype.interfaces.afni.utils.Resample>
260703-08:37:03,833 nipype.workflow INFO:
[Node] Finished "skulled_1mm_resample", elapsed time 0.474657s.
260703-08:37:05,356 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.skulled_autobox" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/skulled_autobox".
260703-08:37:05,359 nipype.workflow INFO:
[Node] Executing "skulled_autobox" <nipype.interfaces.afni.utils.Autobox>
260703-08:37:06,41 nipype.workflow INFO:
[Node] Finished "skulled_autobox", elapsed time 0.681725s.
260703-08:37:07,359 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.prepare_synthstrip_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference".
260703-08:37:07,361 nipype.workflow INFO:
[Node] Executing "prepare_synthstrip_reference" <qsiprep.interfaces.freesurfer.PrepareSynthStripGrid>
260703-08:37:07,405 nipype.interface INFO:
stderr 2026-07-03T08:37:07.405385:++ 3dZeropad: AFNI version=AFNI_23.0.07 (Mar 1 2023) [64-bit]
260703-08:37:07,510 nipype.interface INFO:
stderr 2026-07-03T08:37:07.510389:++ output dataset: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference/vol0000_trans_merged_b0_series_mean_resample_autobox_SynthStripGrid.nii
260703-08:37:07,624 nipype.workflow INFO:
[Node] Finished "prepare_synthstrip_reference", elapsed time 0.262779s.
260703-08:37:09,361 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.resample_skulled_to_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/resample_skulled_to_reference".
260703-08:37:09,363 nipype.workflow INFO:
[Node] Executing "resample_skulled_to_reference" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:37:11,454 nipype.workflow INFO:
[Node] Finished "resample_skulled_to_reference", elapsed time 2.090214s.
260703-08:37:12,67 nipype.workflow INFO:
[Node] Finished "raw_src", elapsed time 9.947348999999999s.
260703-08:37:13,366 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.calculate_qc.raw_src_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_src_qc".
260703-08:37:13,366 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.calculate_qc.raw_gqi" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_gqi".
260703-08:37:13,367 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.synthstrip" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/synthstrip".
260703-08:37:13,368 nipype.workflow INFO:
[Node] Executing "raw_src_qc" <qsiprep.interfaces.dsi_studio.DSIStudioSrcQC>
260703-08:37:13,368 nipype.workflow INFO:
[Node] Executing "synthstrip" <qsiprep.interfaces.freesurfer.FixHeaderSynthStrip>
260703-08:37:13,369 nipype.workflow INFO:
[Node] Executing "raw_gqi" <qsiprep.interfaces.dsi_studio.DSIStudioGQIReconstruction>
260703-08:37:15,199 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_src_qc/vol0000_trans_merged.src.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_src_qc/vol0000_trans_merged.src.gz
├──┬──📟run qc
│ ├──is_fib=0
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking SRC files
│ │ ├──checking /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_src_qc/vol0000_trans_merged.src.gz
│ │ ├──┬──📂open SRC file vol0000_trans_merged.src.gz
│ │ │ ├──generating mask
│ │ │ └──⏱931ms
│ │ └──⏱1.812s
│ └──⏱1.813s
└──⏱1.818s
260703-08:37:15,200 nipype.workflow INFO:
[Node] Finished "raw_src_qc", elapsed time 1.8313380000000001s.
260703-08:37:35,674 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 22.305002s.
260703-08:37:37,384 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.mask_to_original_grid" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/mask_to_original_grid".
260703-08:37:37,387 nipype.workflow INFO:
[Node] Executing "mask_to_original_grid" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:37:37,637 nipype.workflow INFO:
[Node] Finished "mask_to_original_grid", elapsed time 0.248989s.
260703-08:37:39,387 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.synthstrip_wf.mask_brain" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/synthstrip_wf/mask_brain".
260703-08:37:39,387 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.t1_dice_calc.downsample_t1_mask" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/t1_dice_calc/downsample_t1_mask".
260703-08:37:39,389 nipype.workflow INFO:
[Node] Executing "mask_brain" <nipype.interfaces.ants.utils.MultiplyImages>
260703-08:37:39,390 nipype.workflow INFO:
[Node] Executing "downsample_t1_mask" <nipype.interfaces.afni.utils.Resample>
260703-08:37:39,407 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.biascorr" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/biascorr".
260703-08:37:39,410 nipype.workflow INFO:
[Node] Executing "biascorr" <qsiprep.interfaces.mrtrix.DWIBiasCorrect>
260703-08:37:39,551 nipype.workflow INFO:
[Node] Finished "mask_brain", elapsed time 0.161286s.
260703-08:37:39,988 nipype.workflow INFO:
[Node] Finished "downsample_t1_mask", elapsed time 0.597604s.
260703-08:37:41,390 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.final_b0_ref.b0ref_reportlet" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/final_b0_ref/b0ref_reportlet".
260703-08:37:41,393 nipype.workflow INFO:
[Node] Executing "b0ref_reportlet" <niworkflows.interfaces.reportlets.registration.SimpleBeforeAfterRPT>
260703-08:37:41,393 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.t1_dice_calc.calculate_dice" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/t1_dice_calc/calculate_dice".
260703-08:37:41,395 nipype.workflow INFO:
[Node] Executing "calculate_dice" <qsiprep.interfaces.anatomical.DiceOverlap>
260703-08:37:41,470 nipype.workflow INFO:
[Node] Finished "calculate_dice", elapsed time 0.074594s.
260703-08:37:57,345 nipype.workflow INFO:
[Node] Finished "b0ref_reportlet", elapsed time 15.951685s.
260703-08:38:01,614 nipype.interface INFO:
Generating denoising visual report
260703-08:38:23,759 nipype.interface INFO:
current dir: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_gqi
260703-08:38:23,759 nipype.interface INFO:
input src /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_gqi/vol0000_trans_merged.src.gz
260703-08:38:23,759 nipype.interface INFO:
split src name vol0000_trans_merged.src.gz
260703-08:38:23,759 nipype.interface INFO:
search target: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_gqi/vol0000_trans_merged.src.gz*gqi*.fib.gz
260703-08:38:23,760 nipype.workflow INFO:
[Node] Finished "raw_gqi", elapsed time 70.390097s.
260703-08:38:24,869 nipype.workflow INFO:
[Node] Finished "biascorr", elapsed time 45.074478s.
260703-08:38:25,432 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.calculate_qc.raw_fib_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_fib_qc".
260703-08:38:25,434 nipype.workflow INFO:
[Node] Executing "raw_fib_qc" <qsiprep.interfaces.dsi_studio.DSIStudioFibQC>
260703-08:38:25,579 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.update_confounds" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/update_confounds".
260703-08:38:25,579 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.extract_b0_series" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/extract_b0_series".
260703-08:38:25,579 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.calculate_qc.raw_src" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_src".
260703-08:38:25,581 nipype.workflow INFO:
[Node] Executing "update_confounds" <qsiprep.interfaces.dwi_merge.MergeFinalConfounds>
260703-08:38:25,582 nipype.workflow INFO:
[Node] Executing "raw_src" <qsiprep.interfaces.dsi_studio.DSIStudioCreateSrc>
260703-08:38:25,583 nipype.interface INFO:
Converted DIPY LPS+ bval/bvec to DSI Studio b_table
260703-08:38:25,589 nipype.workflow INFO:
[Node] Finished "update_confounds", elapsed time 0.006996s.
260703-08:38:25,600 nipype.workflow INFO:
[Node] Executing "extract_b0_series" <qsiprep.interfaces.gradients.ExtractB0s>
260703-08:38:27,557 nipype.workflow INFO:
[Node] Finished "extract_b0_series", elapsed time 1.956034s.
260703-08:38:30,601 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_fib_qc/vol0000_trans_merged.src.gz.odf.gqi.1.25.fib.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/raw_fib_qc/vol0000_trans_merged.src.gz.odf.gqi.1.25.fib.gz
├──┬──📟run qc
│ ├──is_fib=1
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking FIB files
│ │ ├──┬──📂opening vol0000_trans_merged.src.gz.odf.gqi.1.25.fib.gz
│ │ │ ├──prepare index file for future accelerated loading
│ │ │ ├──💾saving index file for accelerated loading: vol0000_trans_merged.src.gz.odf.gqi.1.25.fib.gz.idx
│ │ │ ├──┬──📟loading image volumes
│ │ │ │ └──⏱6ms
│ │ │ ├──matched template: ICBM152_adult
│ │ │ └──⏱4.996s
│ │ └──⏱5.145s
│ └──⏱5.146s
└──⏱5.152s
260703-08:38:30,601 nipype.workflow INFO:
[Node] Finished "raw_fib_qc", elapsed time 5.167121s.
260703-08:38:36,530 nipype.workflow INFO:
[Node] Finished "raw_src", elapsed time 10.947306s.
260703-08:38:37,316 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.transform_dwis_t1.calculate_qc.merged_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/transform_dwis_t1/calculate_qc/merged_qc".
260703-08:38:37,316 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.skulled_1mm_resample" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/skulled_1mm_resample".
260703-08:38:37,318 nipype.workflow INFO:
[Node] Executing "merged_qc" <qsiprep.interfaces.dsi_studio.DSIStudioMergeQC>
260703-08:38:37,318 nipype.workflow INFO:
[Node] Executing "skulled_1mm_resample" <nipype.interfaces.afni.utils.Resample>
260703-08:38:37,319 nipype.workflow INFO:
[Node] Finished "merged_qc", elapsed time 0.001201s.
260703-08:38:37,652 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.calculate_qc.raw_src_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_src_qc".
260703-08:38:37,654 nipype.workflow INFO:
[Node] Executing "raw_src_qc" <qsiprep.interfaces.dsi_studio.DSIStudioSrcQC>
260703-08:38:37,817 nipype.workflow INFO:
[Node] Finished "skulled_1mm_resample", elapsed time 0.498082s.
260703-08:38:39,317 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.skulled_autobox" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/skulled_autobox".
260703-08:38:39,319 nipype.workflow INFO:
[Node] Executing "skulled_autobox" <nipype.interfaces.afni.utils.Autobox>
260703-08:38:39,319 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.calculate_qc.raw_gqi" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_gqi".
260703-08:38:39,322 nipype.workflow INFO:
[Node] Executing "raw_gqi" <qsiprep.interfaces.dsi_studio.DSIStudioGQIReconstruction>
260703-08:38:39,505 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_src_qc/vol0000_trans_merged_N4.src.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_src_qc/vol0000_trans_merged_N4.src.gz
├──┬──📟run qc
│ ├──is_fib=0
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking SRC files
│ │ ├──checking /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_src_qc/vol0000_trans_merged_N4.src.gz
│ │ ├──┬──📂open SRC file vol0000_trans_merged_N4.src.gz
│ │ │ ├──generating mask
│ │ │ └──⏱940ms
│ │ └──⏱1.832s
│ └──⏱1.832s
└──⏱1.838s
260703-08:38:39,505 nipype.workflow INFO:
[Node] Finished "raw_src_qc", elapsed time 1.8505989999999999s.
260703-08:38:40,8 nipype.workflow INFO:
[Node] Finished "skulled_autobox", elapsed time 0.687805s.
260703-08:38:41,320 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.prepare_synthstrip_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference".
260703-08:38:41,321 nipype.workflow INFO:
[Node] Executing "prepare_synthstrip_reference" <qsiprep.interfaces.freesurfer.PrepareSynthStripGrid>
260703-08:38:41,363 nipype.interface INFO:
stderr 2026-07-03T08:38:41.363805:++ 3dZeropad: AFNI version=AFNI_23.0.07 (Mar 1 2023) [64-bit]
260703-08:38:41,473 nipype.interface INFO:
stderr 2026-07-03T08:38:41.473697:++ output dataset: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/prepare_synthstrip_reference/vol0000_trans_merged_N4_b0_series_mean_resample_autobox_SynthStripGrid.nii
260703-08:38:41,591 nipype.workflow INFO:
[Node] Finished "prepare_synthstrip_reference", elapsed time 0.268844s.
260703-08:38:43,328 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.pad_before_synthstrip_wf.resample_skulled_to_reference" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/pad_before_synthstrip_wf/resample_skulled_to_reference".
260703-08:38:43,330 nipype.workflow INFO:
[Node] Executing "resample_skulled_to_reference" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:38:46,668 nipype.workflow INFO:
[Node] Finished "resample_skulled_to_reference", elapsed time 3.337276s.
260703-08:38:47,332 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.synthstrip" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/synthstrip".
260703-08:38:47,334 nipype.workflow INFO:
[Node] Executing "synthstrip" <qsiprep.interfaces.freesurfer.FixHeaderSynthStrip>
260703-08:39:17,484 nipype.workflow INFO:
[Node] Finished "synthstrip", elapsed time 30.149167s.
260703-08:39:19,361 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.mask_to_original_grid" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/mask_to_original_grid".
260703-08:39:19,364 nipype.workflow INFO:
[Node] Executing "mask_to_original_grid" <nipype.interfaces.ants.resampling.ApplyTransforms>
260703-08:39:19,621 nipype.workflow INFO:
[Node] Finished "mask_to_original_grid", elapsed time 0.25656s.
260703-08:39:21,364 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.synthstrip_wf.mask_brain" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/synthstrip_wf/mask_brain".
260703-08:39:21,366 nipype.workflow INFO:
[Node] Executing "mask_brain" <nipype.interfaces.ants.utils.MultiplyImages>
260703-08:39:21,404 nipype.interface WARNING:
Changing /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-output/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_space-ACPC_desc-brain_mask.nii.gz dtype from float64 to uint8
260703-08:39:21,540 nipype.workflow INFO:
[Node] Finished "mask_brain", elapsed time 0.173321s.
260703-08:39:23,364 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.final_b0_ref.b0ref_reportlet" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/final_b0_ref/b0ref_reportlet".
260703-08:39:23,367 nipype.workflow INFO:
[Node] Executing "b0ref_reportlet" <niworkflows.interfaces.reportlets.registration.SimpleBeforeAfterRPT>
260703-08:39:39,269 nipype.workflow INFO:
[Node] Finished "b0ref_reportlet", elapsed time 15.901438s.
260703-08:39:50,392 nipype.interface INFO:
current dir: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_gqi
260703-08:39:50,393 nipype.interface INFO:
input src /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_gqi/vol0000_trans_merged_N4.src.gz
260703-08:39:50,393 nipype.interface INFO:
split src name vol0000_trans_merged_N4.src.gz
260703-08:39:50,393 nipype.interface INFO:
search target: /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_gqi/vol0000_trans_merged_N4.src.gz*gqi*.fib.gz
260703-08:39:50,393 nipype.workflow INFO:
[Node] Finished "raw_gqi", elapsed time 71.071132s.
260703-08:39:51,386 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.calculate_qc.raw_fib_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_fib_qc".
260703-08:39:51,388 nipype.workflow INFO:
[Node] Executing "raw_fib_qc" <qsiprep.interfaces.dsi_studio.DSIStudioFibQC>
260703-08:39:56,551 nipype.interface INFO:
DSI Studio version: Hou "侯" Aug 2 2024
┌──📟command line
├──source=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_fib_qc/vol0000_trans_merged_N4.src.gz.odf.gqi.1.25.fib.gz
├──action=qc
├──loop=/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/raw_fib_qc/vol0000_trans_merged_N4.src.gz.odf.gqi.1.25.fib.gz
├──┬──📟run qc
│ ├──is_fib=1
│ ├──output=qc.txt
│ ├──💾saving qc.txt
│ ├──┬──📟checking FIB files
│ │ ├──┬──📂opening vol0000_trans_merged_N4.src.gz.odf.gqi.1.25.fib.gz
│ │ │ ├──prepare index file for future accelerated loading
│ │ │ ├──💾saving index file for accelerated loading: vol0000_trans_merged_N4.src.gz.odf.gqi.1.25.fib.gz.idx
│ │ │ ├──┬──📟loading image volumes
│ │ │ │ └──⏱6ms
│ │ │ ├──matched template: ICBM152_adult
│ │ │ └──⏱4.983s
│ │ └──⏱5.142s
│ └──⏱5.142s
└──⏱5.148s
260703-08:39:56,552 nipype.workflow INFO:
[Node] Finished "raw_fib_qc", elapsed time 5.163016s.
260703-08:39:57,397 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.final_denoise_wf.calculate_qc.merged_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/final_denoise_wf/calculate_qc/merged_qc".
260703-08:39:57,399 nipype.workflow INFO:
[Node] Executing "merged_qc" <qsiprep.interfaces.dsi_studio.DSIStudioMergeQC>
260703-08:39:57,401 nipype.workflow INFO:
[Node] Finished "merged_qc", elapsed time 0.001217s.
260703-08:39:59,398 nipype.workflow INFO:
[Node] Setting-up "qsiprep_1_0_wf.sub_CON01_ses_preop_wf.dwi_finalize_ses_preop_acq_AP_wf.series_qc" in "/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/qsiprep-work/qsiprep_1_0_wf/sub_CON01_ses_preop_wf/dwi_finalize_ses_preop_acq_AP_wf/series_qc".
260703-08:39:59,403 nipype.workflow INFO:
[Node] Executing "series_qc" <qsiprep.interfaces.reports.SeriesQC>
260703-08:40:01,952 nipype.workflow INFO:
[Node] Finished "series_qc", elapsed time 2.5484109999999998s.
260703-08:40:05,359 nipype.workflow IMPORTANT:
QSIPrep finished successfully!
260703-08:40:05,364 nipype.workflow IMPORTANT:
Works derived from this QSIPrep execution should include the boilerplate text found in <OUTPUT_PATH>/logs/CITATION.md.
%%bash
# Verify the results exists (preprocessed DWI, not just the report)
if ! ls qsiprep-output/sub-CON01/ses-preop/dwi/*desc-preproc_dwi.nii.gz >/dev/null 2>&1; then
echo "ERROR: QSIPrep did not produce a preprocessed DWI"; exit 1
fi
echo "QSIPrep complete - preprocessed DWI found."
QSIPrep complete - preprocessed DWI found.
Where the outputs land#
QSIPrep writes derivatives under qsiprep-output/:
qsiprep-output/sub-CON01.html— the visual QC report.qsiprep-output/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_space-ACPC_desc-preproc_dwi.nii.gz— the preprocessed DWI (with matching.bval,.bvec,.json).qsiprep-output/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_space-ACPC_desc-brain_mask.nii.gz— the DWI brain mask.qsiprep-output/sub-CON01/anat/sub-CON01_space-ACPC_desc-preproc_T1w.nii.gz— the preprocessed T1w.qsiprep-output/sub-CON01/anat/sub-CON01_space-ACPC_desc-aseg_dseg.nii.gz— the anatomical segmentation.
Results#
We’ll display the full QC report qsiprep-output/sub-CON01.html below:
# Helper function to display the qsiprep report with inline figures and gifs
def display_report(report_path):
report_dir = os.path.dirname(report_path)
with open(report_path) as f:
soup = BeautifulSoup(f, 'html.parser')
# Inline <img> tags: PNG as base64, SVG, gif embedded directly
for img in soup.find_all('img'):
src = img.get('src', '')
if not src:
continue
img_path = os.path.join(report_dir, src.lstrip('./'))
if os.path.exists(img_path):
if src.endswith('.svg'):
with open(img_path) as f:
svg_tag = BeautifulSoup(f.read(), 'html.parser').find('svg')
if svg_tag:
img.replace_with(svg_tag)
elif src.endswith('.png'):
with open(img_path, 'rb') as f:
img['src'] = f'data:image/png;base64,{base64.b64encode(f.read()).decode()}'
elif src.endswith('.gif'):
with open(img_path, 'rb') as f:
img['src'] = f'data:image/gif;base64,{base64.b64encode(f.read()).decode()}'
# Inline <object data="...svg"> tags (these were missing before!)
for obj in soup.find_all('object'):
data = obj.get('data', '')
if data.endswith('.svg'):
obj_path = os.path.join(report_dir, data.lstrip('./'))
if os.path.exists(obj_path):
with open(obj_path) as f:
svg_tag = BeautifulSoup(f.read(), 'html.parser').find('svg')
if svg_tag:
obj.replace_with(svg_tag)
# Remove ALL tags that can execute scripts, load external resources,
# or clutter the output. This prevents Jupyter Lab DOM interference.
for tag in soup.find_all(['script', 'link', 'style', 'meta', 'head',
'nav', 'button', 'noscript', 'title']):
tag.decompose()
# Unwrap <html> and <body> — keep their children, drop the wrapper tags
for tag in soup.find_all(['html', 'body']):
tag.unwrap()
display(HTML(str(soup)))
display_report('./qsiprep-output/sub-CON01.html')
Summary
- Subject ID: sub-CON01
- Structural images: 1 T1-weighted
- Diffusion-weighted series: inputs 3, outputs 1
- Output Name: sub-CON01_ses-preop_acq-AP
- Scan group: sub-CON01_ses-preop_acq-AP (PE Dir j-)
- DWI Files:
- /home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz
- Fieldmap type: epi
- suffix: epi
- epi: ['/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/fmap/sub-CON01_ses-preop_dir-PA_epi.nii.gz']
- Resampling targets: ACPC
- Transform targets: ['ACPC', 'MNI152NLin2009cAsym']
Anatomical
Anatomical Conformation
- Input T1w images: 1
- Output orientation: RAS
- Output dimensions: 144x256x256
- Output voxel size: 1mm x 1mm x 1mm
- Discarded images: 0
Brain mask and brain tissue segmentation of the T1w
This panel shows the final, preprocessed anatomical reference image, with contours delineating the detected brain mask and brain tissue segmentations.
B0 field mapping
Reports for: session preop, acquisition AP.
A total of 2 distortion groups were included in the data data. Distortion group '0 -1 0 0.026600' was represented by image 4 from sub-CON01_ses-preop_acq-AP_dwi.nii.gz. Distortion group '0 1 0 0.026600' was represented by images 0, 1 from sub-CON01_ses-preop_dir-PA_epi.nii.gz.
Diffusion
Reports for: session preop.
Summary
- Phase-encoding (PE) direction: Anterior-Posterior
- Susceptibility distortion correction: TOPUP
- Coregistration Transform: Rigid
- Denoising Method: dwidenoise
- Denoising Window: auto
- HMC Transform: Affine
- HMC Model: eddy
- DWI series resampled to spaces: ACPC
- Confounds collected:
- Impute slice threshold:
Note on orientation: qform matrix overwritten
/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-PA_dwi.nii.gz:The qform has been copied from sform.
Note on orientation: qform matrix overwritten
/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz:The qform has been copied from sform.
Reports for: session preop, acquisition AP.
Summary
- Phase-encoding (PE) direction: Anterior-Posterior
- Susceptibility distortion correction: TOPUP
- Coregistration Transform: Rigid
- Denoising Method: dwidenoise
- Denoising Window: auto
- HMC Transform: Affine
- HMC Model: eddy
- DWI series resampled to spaces: ACPC
- Confounds collected:
- Impute slice threshold:
Note on orientation: qform matrix overwritten
/home/jovyan/Git_repositories/neurodeskedu/books/examples/diffusion_imaging/ds001226/sub-CON01/ses-preop/dwi/sub-CON01_ses-preop_acq-AP_dwi.nii.gz:The qform has been copied from sform.
DWI Sampling Scheme
Animation of the DWI sampling scheme. Each separate scan is its own color
Susceptibility distortion correction
Results of performing susceptibility distortion correction (SDC) on the DWI reference image. The "distorted" image is the image that would be used to align to the anatomical reference if SDC were not applied. The "corrected" image is the image that was used.
DWI Denoising
"Effect of denoising on a low and high-b image."
B1 Bias Correction (Post-Resampling)
"Effect of correcting B1 bias on a low and high-b resampled image."
b=0 Reference Image
b=0 template and final mask output. The t1 and signal intersection mask is blue, their xor is red and the entire mask is plotted in cyan.
Alignment of dMRI and anatomical MRI data (coregistration)
This panel shows the alignment of the reference EPI (dMRI b=0) image to the anatomical reference image. The reference EPI has been contrast enhanced and susceptibility-distortion corrected (if applicable) for improved anatomical fidelity. The anatomical image has been resampled into EPI space, as well as the anatomical white matter mask, which appears as a red contour.
DWI Summary
A plot of slice-by-volume outliers (if Eddy was used) or cross correlation.
Reports for: session preop, acquisition PA.
DWI Denoising
"Effect of denoising on a low and high-b image."
About
- qsiprep version: 1.0.2.dev0+gfc89945.d20250405
- qsiprep command:
/opt/conda/envs/qsiprep/bin/qsiprep ds001226 qsiprep-output participant --participant-label CON01 --fs-license-file /home/jovyan/.license --output-resolution 2 -w qsiprep-work --nthreads 12 --omp-nthreads 4 --mem-mb 90556 - Date preprocessed: 2026-07-03 04:30:30 +0000
Methods
We kindly ask to report results preprocessed with this tool using the following boilerplate.
Copyright Waiver. The boilerplate text was automatically generated by QSIPrep with the express intention that users should copy and paste this text into their manuscripts unchanged. It is released under the CC0 license.
Preprocessing was performed using QSIPrep 1.0.2.dev0+gfc89945.d20250405 (Cieslak et al. 2021), which is based on Nipype 1.9.1 [Gorgolewski et al. (2011); Gorgolewski et al. (2018); RRID:SCR_002502].
The anatomical reference image was reoriented into AC-PC alignment via a 6-DOF transform extracted from a full Affine registration to the MNI152NLin2009cAsym template. A full nonlinear registration to the template from AC-PC space was estimated via symmetric nonlinear registration (SyN) using antsRegistration. Brain extraction was performed on the T1w image using SynthStrip (Hoopes et al. 2022) and automated segmentation was performed using SynthSeg (Billot, Greve, et al. 2023, @synthseg2) from FreeSurfer version 7.3.1.
- Diffusion data preprocessing
DWI data were denoised using the Marchenko-Pastur PCA method implemented in dwidenoise (Tournier et al. 2019; Veraart et al. 2016; Veraart, Fieremans, and Novikov 2016; Cordero-Grande et al. 2019) with an automatically-determined window size of 3 voxels. Any images with a b-value less than 100 s/mm^2 were treated as a b=0 image. The mean intensity of the DWI series was adjusted so all the mean intensity of the b=0 images matched across eachseparate DWI scanning sequence. B1 field inhomogeneity was corrected using dwibiascorrect from MRtrix3 with the N4 algorithm (Tustison et al. 2010) after corrected images were resampled.
FSL (version None)’s eddy was used for head motion correction and Eddy current correction (Andersson and Sotiropoulos 2016). Eddy was configured with a q-space smoothing factor of 10, a total of 5 iterations, and 1000 voxels used to estimate hyperparameters. A quadratic first level model and a linear second level model were used to characterize Eddy current-related spatial distortion. q-space coordinates were forcefully assigned to shells. Field offset was attempted to be separated from subject movement. Shells were aligned post-eddy. Eddy’s outlier replacement was run (Andersson et al. 2016). Data were grouped by slice, only including values from slices determined to contain at least 250 intracerebral voxels. Groups deviating by more than 4 standard deviations from the prediction had their data replaced with imputed values.
Data was collected with reversed phase-encode blips, resulting in pairs of images with distortions going in opposite directions. FSL’s TOPUP (Andersson, Skare, and Ashburner 2003) was used to estimate a susceptibility-induced off-resonance field based on b=0 reference images with reversed phase encoding directions. The TOPUP-estimated fieldmap was incorporated into the Eddy current and head motion correction interpolation. Final interpolation was performed using the jac method.
Several confounding time-series were calculated based on the preprocessed DWI: framewise displacement (FD) using the implementation in Nipype (following the definitions by Power et al. 2014). The head-motion estimates calculated in the correction step were also placed within the corresponding confounds file. Slicewise cross correlation was also calculated. The DWI time-series were resampled to ACPC, generating a preprocessed DWI run in ACPC space with 2mm isotropic voxels.
Many internal operations of QSIPrep use Nilearn 0.10.1 (Abraham et al. 2014, RRID:SCR_001362) and Dipy (Garyfallidis et al. 2014). For more details of the pipeline, see the section corresponding to workflows in QSIPrep’s documentation.
References
Abraham, Alexandre, Fabian Pedregosa, Michael Eickenberg, Philippe Gervais, Andreas Mueller, Jean Kossaifi, Alexandre Gramfort, Bertrand Thirion, and Gael Varoquaux. 2014. “Machine Learning for Neuroimaging with Scikit-Learn.” Frontiers in Neuroinformatics 8. https://doi.org/10.3389/fninf.2014.00014.
Andersson, Jesper LR, Mark S Graham, Enikő Zsoldos, and Stamatios N Sotiropoulos. 2016. “Incorporating Outlier Detection and Replacement into a Non-Parametric Framework for Movement and Distortion Correction of Diffusion Mr Images.” Neuroimage 141. Elsevier: 556–72.
Andersson, Jesper LR, Stefan Skare, and John Ashburner. 2003. “How to Correct Susceptibility Distortions in Spin-Echo Echo-Planar Images: Application to Diffusion Tensor Imaging.” Neuroimage 20 (2). Elsevier: 870–88.
Andersson, Jesper LR, and Stamatios N Sotiropoulos. 2016. “An Integrated Approach to Correction for Off-Resonance Effects and Subject Movement in Diffusion Mr Imaging.” Neuroimage 125. Elsevier: 1063–78.
Billot, Benjamin, Douglas N Greve, Oula Puonti, Axel Thielscher, Koen Van Leemput, Bruce Fischl, Adrian V Dalca, Juan Eugenio Iglesias, and others. 2023. “SynthSeg: Segmentation of Brain Mri Scans of Any Contrast and Resolution Without Retraining.” Medical Image Analysis 86. Elsevier: 102789.
Billot, Benjamin, Colin Magdamo, You Cheng, Steven E Arnold, Sudeshna Das, and Juan Eugenio Iglesias. 2023. “Robust Machine Learning Segmentation for Large-Scale Analysis of Heterogeneous Clinical Brain Mri Datasets.” Proceedings of the National Academy of Sciences 120 (9). National Acad Sciences: e2216399120.
Cieslak, Matthew, Philip A Cook, Xiaosong He, Fang-Cheng Yeh, Thijs Dhollander, Azeez Adebimpe, Geoffrey K Aguirre, et al. 2021. “QSIPrep: An Integrative Platform for Preprocessing and Reconstructing Diffusion Mri Data.” Nature Methods 18 (7). Nature Publishing Group US New York: 775–78. https://doi.org/10.1038/s41592-021-01185-5.
Cordero-Grande, Lucilio, Daan Christiaens, Jana Hutter, Anthony N Price, and Jo V Hajnal. 2019. “Complex Diffusion-Weighted Image Estimation via Matrix Recovery Under General Noise Models.” Neuroimage 200. Elsevier: 391–404. https://doi.org/10.1016/j.neuroimage.2019.06.039.
Garyfallidis, Eleftherios, Matthew Brett, Bagrat Amirbekian, Ariel Rokem, Stefan Van Der Walt, Maxime Descoteaux, and Ian Nimmo-Smith. 2014. “Dipy, a Library for the Analysis of Diffusion Mri Data.” Frontiers in Neuroinformatics 8. Frontiers: 8.
Gorgolewski, K., C. D. Burns, C. Madison, D. Clark, Y. O. Halchenko, M. L. Waskom, and S. Ghosh. 2011. “Nipype: A Flexible, Lightweight and Extensible Neuroimaging Data Processing Framework in Python.” Frontiers in Neuroinformatics 5: 13. https://doi.org/10.3389/fninf.2011.00013.
Gorgolewski, Krzysztof J., Oscar Esteban, Christopher J. Markiewicz, Erik Ziegler, David Gage Ellis, Michael Philipp Notter, Dorota Jarecka, et al. 2018. “Nipype.” Software. Zenodo. https://doi.org/10.5281/zenodo.596855.
Hoopes, Andrew, Jocelyn S Mora, Adrian V Dalca, Bruce Fischl, and Malte Hoffmann. 2022. “SynthStrip: Skull-Stripping for Any Brain Image.” NeuroImage 260. Elsevier: 119474.
Power, Jonathan D., Anish Mitra, Timothy O. Laumann, Abraham Z. Snyder, Bradley L. Schlaggar, and Steven E. Petersen. 2014. “Methods to Detect, Characterize, and Remove Motion Artifact in Resting State fMRI.” NeuroImage 84 (Supplement C): 320–41. https://doi.org/10.1016/j.neuroimage.2013.08.048.
Tournier, J-Donald, Robert Smith, David Raffelt, Rami Tabbara, Thijs Dhollander, Maximilian Pietsch, Daan Christiaens, Ben Jeurissen, Chun-Hung Yeh, and Alan Connelly. 2019. “MRtrix3: A Fast, Flexible and Open Software Framework for Medical Image Processing and Visualisation.” Neuroimage 202. Elsevier: 116137. https://doi.org/10.1016/j.neuroimage.2019.116137.
Tustison, N. J., B. B. Avants, P. A. Cook, Y. Zheng, A. Egan, P. A. Yushkevich, and J. C. Gee. 2010. “N4ITK: Improved N3 Bias Correction.” IEEE Transactions on Medical Imaging 29 (6): 1310–20. https://doi.org/10.1109/TMI.2010.2046908.
Veraart, Jelle, Els Fieremans, and Dmitry S Novikov. 2016. “Diffusion Mri Noise Mapping Using Random Matrix Theory.” Magnetic Resonance in Medicine 76 (5). Wiley Online Library: 1582–93.
Veraart, Jelle, Dmitry S Novikov, Daan Christiaens, Benjamin Ades-Aron, Jan Sijbers, and Els Fieremans. 2016. “Denoising of Diffusion Mri Using Random Matrix Theory.” NeuroImage 142. Elsevier: 394–406.
Preprocessing was performed using *QSIPrep* 1.0.2.dev0+gfc89945.d20250405 [@cieslak2021qsiprep], which is based on *Nipype* 1.9.1 [@nipype1; @nipype2; RRID:SCR_002502]. The anatomical reference image was reoriented into AC-PC alignment via a 6-DOF transform extracted from a full Affine registration to the MNI152NLin2009cAsym template. A full nonlinear registration to the template from AC-PC space was estimated via symmetric nonlinear registration (SyN) using antsRegistration. Brain extraction was performed on the T1w image using SynthStrip [@synthstrip] and automated segmentation was performed using SynthSeg [@synthseg1, @synthseg2] from FreeSurfer version 7.3.1. Diffusion data preprocessing : DWI data were denoised using the Marchenko-Pastur PCA method implemented in dwidenoise [@mrtrix3; @dwidenoise1; @dwidenoise2; @cordero2019complex] with an automatically-determined window size of 3 voxels. Any images with a b-value less than 100 s/mm^2 were treated as a *b*=0 image. The mean intensity of the DWI series was adjusted so all the mean intensity of the b=0 images matched across eachseparate DWI scanning sequence. B1 field inhomogeneity was corrected using `dwibiascorrect` from MRtrix3 with the N4 algorithm [@n4] after corrected images were resampled. FSL (version None)'s eddy was used for head motion correction and Eddy current correction [@anderssoneddy]. Eddy was configured with a $q$-space smoothing factor of 10, a total of 5 iterations, and 1000 voxels used to estimate hyperparameters. A quadratic first level model and a linear second level model were used to characterize Eddy current-related spatial distortion. $q$-space coordinates were forcefully assigned to shells. Field offset was attempted to be separated from subject movement. Shells were aligned post-eddy. Eddy's outlier replacement was run [@eddyrepol]. Data were grouped by slice, only including values from slices determined to contain at least 250 intracerebral voxels. Groups deviating by more than 4 standard deviations from the prediction had their data replaced with imputed values. Data was collected with reversed phase-encode blips, resulting in pairs of images with distortions going in opposite directions. FSL's TOPUP [@topup] was used to estimate a susceptibility-induced off-resonance field based on b=0 reference images with reversed phase encoding directions. The TOPUP-estimated fieldmap was incorporated into the Eddy current and head motion correction interpolation. Final interpolation was performed using the `jac` method. Several confounding time-series were calculated based on the preprocessed DWI: framewise displacement (FD) using the implementation in *Nipype* [following the definitions by @power_fd_dvars]. The head-motion estimates calculated in the correction step were also placed within the corresponding confounds file. Slicewise cross correlation was also calculated. The DWI time-series were resampled to ACPC, generating a *preprocessed DWI run in ACPC space* with 2mm isotropic voxels. Many internal operations of *QSIPrep* use *Nilearn* 0.10.1 [@nilearn, RRID:SCR_001362] and *Dipy* [@dipy]. For more details of the pipeline, see [the section corresponding to workflows in *QSIPrep*'s documentation](https://qsiprep.readthedocs.io/en/latest/workflows.html "QSIPrep's documentation"). ### References
Preprocessing was performed using \emph{QSIPrep}
1.0.2.dev0+gfc89945.d20250405 \citep{cieslak2021qsiprep}, which is based
on \emph{Nipype} 1.9.1 {[}\citet{nipype1}; \citet{nipype2};
RRID:SCR\_002502{]}.
The anatomical reference image was reoriented into AC-PC alignment via a
6-DOF transform extracted from a full Affine registration to the
MNI152NLin2009cAsym template. A full nonlinear registration to the
template from AC-PC space was estimated via symmetric nonlinear
registration (SyN) using antsRegistration. Brain extraction was
performed on the T1w image using SynthStrip \citep{synthstrip} and
automated segmentation was performed using SynthSeg
\citep[\citet{synthseg2}]{synthseg1} from FreeSurfer version 7.3.1.
\begin{description}
\item[Diffusion data preprocessing]
\end{description}
DWI data were denoised using the Marchenko-Pastur PCA method implemented
in dwidenoise
\citep{mrtrix3, dwidenoise1, dwidenoise2, cordero2019complex} with an
automatically-determined window size of 3 voxels. Any images with a
b-value less than 100 s/mm\^{}2 were treated as a \emph{b}=0 image. The
mean intensity of the DWI series was adjusted so all the mean intensity
of the b=0 images matched across eachseparate DWI scanning sequence. B1
field inhomogeneity was corrected using \texttt{dwibiascorrect} from
MRtrix3 with the N4 algorithm \citep{n4} after corrected images were
resampled.
FSL (version None)'s eddy was used for head motion correction and Eddy
current correction \citep{anderssoneddy}. Eddy was configured with a
\(q\)-space smoothing factor of 10, a total of 5 iterations, and 1000
voxels used to estimate hyperparameters. A quadratic first level model
and a linear second level model were used to characterize Eddy
current-related spatial distortion. \(q\)-space coordinates were
forcefully assigned to shells. Field offset was attempted to be
separated from subject movement. Shells were aligned post-eddy. Eddy's
outlier replacement was run \citep{eddyrepol}. Data were grouped by
slice, only including values from slices determined to contain at least
250 intracerebral voxels. Groups deviating by more than 4 standard
deviations from the prediction had their data replaced with imputed
values.
Data was collected with reversed phase-encode blips, resulting in pairs
of images with distortions going in opposite directions. FSL's TOPUP
\citep{topup} was used to estimate a susceptibility-induced
off-resonance field based on b=0 reference images with reversed phase
encoding directions. The TOPUP-estimated fieldmap was incorporated into
the Eddy current and head motion correction interpolation. Final
interpolation was performed using the \texttt{jac} method.
Several confounding time-series were calculated based on the
preprocessed DWI: framewise displacement (FD) using the implementation
in \emph{Nipype} \citep[following the definitions by][]{power_fd_dvars}.
The head-motion estimates calculated in the correction step were also
placed within the corresponding confounds file. Slicewise cross
correlation was also calculated. The DWI time-series were resampled to
ACPC, generating a \emph{preprocessed DWI run in ACPC space} with 2mm
isotropic voxels.
Many internal operations of \emph{QSIPrep} use \emph{Nilearn} 0.10.1
\citep[RRID:SCR\_001362]{nilearn} and \emph{Dipy} \citep{dipy}. For more
details of the pipeline, see
\href{https://qsiprep.readthedocs.io/en/latest/workflows.html}{the
section corresponding to workflows in \emph{QSIPrep}'s documentation}.
\hypertarget{references}{%
\subsubsection{References}\label{references}}
\bibliography{/home/jovyan/Git\_repositories/neurodeskedu/books/examples/diffusion\_imaging/qsiprep-output/logs/CITATION.bib}
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Errors
No errors to report!
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: 2026-07-14T02:04:43.332852+00:00
Python implementation: CPython
Python version : 3.13.13
IPython version : 9.12.0
Compiler : GCC 14.3.0
OS : Linux
Release : 5.15.0-177-generic
Machine : x86_64
Processor : x86_64
CPU cores : 30
Architecture: 64bit
IPython : 9.12.0
bs4 : 4.15.0
ipyniivue: 2.4.4
json : 2.0.9
Neurodesktop version: 2026-06-13