nipreps fmriprep issues

nipreps / fmriprep

fMRIPrep is a robust and easy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of the results.

https://fmriprep.org

Apache License 2.0

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issues

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`collect_derivatives` uses incorrect "from" entity while searching for pre-calculated boldref -> fmap coregistrations (orig vs boldref)

#3368 psadil opened 2 days ago
0
Enable fieldmap jacobians by default only for PEPolar fieldmaps

#3367 effigies opened 2 days ago
1
Jacobians are applied to coreg references, even if --ignore fmap-jacobian is passed

#3366 effigies opened 2 days ago
0
Remove cohort entity and append cohort to space

#3365 tsalo opened 1 week ago
0
Process two-echo data like multi-echo without echo combination

#3364 tsalo opened 1 week ago
0
Chore(deps): Bump cryptography from 43.0.0 to 43.0.1

#3363 dependabot[bot] opened 1 week ago
0
fMRIprep did not generate multi echo outputs.

#3362 TamerGezici opened 3 weeks ago
2
Failed fieldmap "no attribute error" in v 24.0.1

#3361 zugmana closed 3 weeks ago
2
Freesurfer license not found.

#3360 TamerGezici closed 3 weeks ago
4
Gray band in edge region of carpet plot

#3359 lobennett opened 3 weeks ago
2
Missing files (?) and error when using sMRIPrep +fMRIPrep

#3358 araikes opened 1 month ago
3
problem with fmriprep_24_0_wf.sub_002_wf.fmap_preproc_wf.wf_auto_00000.phdiff_wf.compfmap

#3357 CogBrainHealthLab closed 1 month ago
2
Mention fMRIPost-AROMA in parser documentation

#3356 tsalo closed 1 month ago
6
Mention fMRIPost-AROMA in documentation

#3355 tsalo closed 1 month ago
1
SDC is not working on multiple files only

#3354 sognoe closed 1 month ago
1
REL: 24.1.0

#3353 effigies closed 1 week ago
1
RF: Switch from DerivativesDataSinks to Prep/Save nodes

#3352 effigies closed 1 week ago
0
cosine regressors

#3351 TrevorKMDay opened 1 month ago
4
fmriPrep seems to ignore the single band image.

#3350 zhitao-guo opened 1 month ago
8
BOLD Summary Report node is included in the ``--anat-only`` workflow

#3349 oesteban opened 1 month ago
0
BIDS filters file only accepts lowercase for modality-wise dictionaries (e.g., T1w -> t1w)

#3348 oesteban opened 1 month ago
0
Fieldmap SDC from v24.0.0 seems to introduce artifact for some participants

#3347 michael-s-cohen-2 opened 1 month ago
0
nipreps/fmriprep:20.2.8 missing

#3345 gdevenyi closed 1 month ago
8
fMRIPrep failed using --use-syn-sdc

#3343 m9080212 opened 1 month ago
2
Module ds_std_volumes_wf has no input called inputnode.t1w_preproc

#3342 CogBrainHealthLab closed 1 month ago
4
Explicitly define volumetric space and resolution in CIFTI outputs

#3341 tsalo closed 1 week ago
3
ENH: Support flexible CIFTI combinations

#3340 tsalo opened 1 month ago
1
inflated.surf.gii and smoothwm.surf.gii are missing

#3339 hx-mao closed 1 month ago
1
RF: Replace `config.execution.fmriprep_dir` uses in BIDSURI calls with `output_dir` parameter

#3338 tsalo closed 2 months ago
3
Replace `config.execution.fmriprep_dir` uses in BIDSURI calls with `output_dir` parameter

#3337 tsalo closed 2 months ago
1
Minimally preprocess BOLD phase data

#3336 tsalo closed 1 week ago
1
chore(deps): Update environment to use pybids 0.17.0

#3335 effigies closed 2 months ago
1
Installation of FSL with conda potentially incomplete

#3334 oesteban closed 1 month ago
3
RF: Adapt to less T1w-centric smriprep

#3333 effigies closed 2 months ago
1
The output of fmriprep is incomplete

#3332 WangYunHong98 opened 2 months ago
6
Add other CIFTI spaces

#3330 tsalo opened 2 months ago
12
20.2.8 release?

#3329 effigies closed 2 months ago
5
FIX: LTS package build

#3328 effigies closed 2 months ago
0
chore(dev): Move to tox to simplify test/CI setup

#3326 effigies closed 2 months ago
3
fix(doc-build): Address errors/warnings in RTD builds

#3325 effigies closed 2 months ago
0
DOC: Read html_baseurl from RTD environment, if available

#3324 effigies closed 2 months ago
0
rf(resources): Use acres over vendored data loader

#3323 effigies closed 2 months ago
2
[Errno -3] Temporary failure in name resolution

#3322 WangYunHong98 closed 2 months ago
2
CI: Fix expected outputs for fieldmaps

#3321 effigies closed 2 months ago
1
FIX: Validate and summarize multi-volume sbrefs

#3320 effigies closed 2 months ago
1
n4_correct fails for datasets with multi-volume sbrefs

#3319 effigies closed 2 months ago
0
fMRIPrep preprocessing problem

#3318 Chen1997237 opened 2 months ago
1
Issues in final preprocessing run

#3317 NeuroJo-RA closed 2 months ago
4
Allow generating confounds at resampling stage

#3315 effigies opened 3 months ago
0
N4BiasFieldCorrection fails on multiple run dataset

#3314 mariagiuliat opened 3 months ago
1