Ecosyste.ms: Issues

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GitHub / nipreps/fmriprep issues and pull requests

#3356 - Mention fMRIPost-AROMA in parser documentation

Pull Request - State: closed - Opened by tsalo about 1 month ago - 6 comments

#3356 - Mention fMRIPost-AROMA in parser documentation

Pull Request - State: closed - Opened by tsalo about 1 month ago - 6 comments

#3355 - Mention fMRIPost-AROMA in documentation

Issue - State: closed - Opened by tsalo about 1 month ago - 1 comment
Labels: documentation

#3355 - Mention fMRIPost-AROMA in documentation

Issue - State: closed - Opened by tsalo about 1 month ago - 1 comment
Labels: documentation

#3354 - SDC is not working on multiple files only

Issue - State: closed - Opened by sognoe about 1 month ago - 1 comment
Labels: bug

#3354 - SDC is not working on multiple files only

Issue - State: closed - Opened by sognoe about 1 month ago - 1 comment
Labels: bug

#3353 - REL: 24.1.0

Pull Request - State: open - Opened by effigies about 1 month ago - 1 comment

#3353 - REL: 24.1.0

Pull Request - State: open - Opened by effigies about 1 month ago - 1 comment

#3352 - RF: Switch from DerivativesDataSinks to Prep/Save nodes

Pull Request - State: open - Opened by effigies about 1 month ago

#3352 - RF: Switch from DerivativesDataSinks to Prep/Save nodes

Pull Request - State: open - Opened by effigies about 1 month ago

#3351 - cosine regressors

Issue - State: open - Opened by TrevorKMDay about 1 month ago - 2 comments
Labels: documentation

#3351 - cosine regressors

Issue - State: open - Opened by TrevorKMDay about 1 month ago - 2 comments
Labels: documentation

#3350 - fmriPrep seems to ignore the single band image.

Issue - State: open - Opened by zhitao-guo about 1 month ago - 8 comments
Labels: bug

#3350 - fmriPrep seems to ignore the single band image.

Issue - State: open - Opened by zhitao-guo about 1 month ago - 8 comments
Labels: bug

#3349 - BOLD Summary Report node is included in the ``--anat-only`` workflow

Issue - State: open - Opened by oesteban about 1 month ago
Labels: bug

#3349 - BOLD Summary Report node is included in the ``--anat-only`` workflow

Issue - State: open - Opened by oesteban about 1 month ago
Labels: bug

#3345 - nipreps/fmriprep:20.2.8 missing

Issue - State: closed - Opened by gdevenyi about 2 months ago - 8 comments

#3345 - nipreps/fmriprep:20.2.8 missing

Issue - State: closed - Opened by gdevenyi about 2 months ago - 8 comments

#3343 - fMRIPrep failed using --use-syn-sdc

Issue - State: open - Opened by m9080212 about 2 months ago
Labels: bug

#3343 - fMRIPrep failed using --use-syn-sdc

Issue - State: open - Opened by m9080212 about 2 months ago - 1 comment
Labels: bug

#3342 - Module ds_std_volumes_wf has no input called inputnode.t1w_preproc

Issue - State: closed - Opened by CogBrainHealthLab about 2 months ago - 4 comments
Labels: bug

#3342 - Module ds_std_volumes_wf has no input called inputnode.t1w_preproc

Issue - State: closed - Opened by CogBrainHealthLab about 2 months ago - 4 comments
Labels: bug

#3341 - Explicitly define volumetric space and resolution in CIFTI outputs

Issue - State: open - Opened by tsalo 2 months ago - 2 comments
Labels: CIFTI / Grayordinates

#3341 - Explicitly define volumetric space and resolution in CIFTI outputs

Issue - State: open - Opened by tsalo 2 months ago - 2 comments
Labels: CIFTI / Grayordinates

#3340 - ENH: Support flexible CIFTI combinations

Pull Request - State: open - Opened by tsalo 2 months ago - 1 comment
Labels: feature, CIFTI / Grayordinates

#3339 - inflated.surf.gii and smoothwm.surf.gii are missing

Issue - State: closed - Opened by hx-mao 2 months ago - 1 comment
Labels: documentation

#3339 - inflated.surf.gii and smoothwm.surf.gii are missing

Issue - State: closed - Opened by hx-mao 2 months ago - 1 comment
Labels: documentation

#3338 - RF: Replace `config.execution.fmriprep_dir` uses in BIDSURI calls with `output_dir` parameter

Pull Request - State: closed - Opened by tsalo 2 months ago - 3 comments
Labels: refactoring

#3337 - Replace `config.execution.fmriprep_dir` uses in BIDSURI calls with `output_dir` parameter

Issue - State: closed - Opened by tsalo 2 months ago - 1 comment
Labels: refactoring

#3336 - Minimally preprocess BOLD phase data

Issue - State: open - Opened by tsalo 2 months ago
Labels: feature

#3336 - Minimally preprocess BOLD phase data

Issue - State: open - Opened by tsalo 2 months ago
Labels: feature

#3335 - chore(deps): Update environment to use pybids 0.17.0

Pull Request - State: closed - Opened by effigies 2 months ago - 1 comment

#3335 - chore(deps): Update environment to use pybids 0.17.0

Pull Request - State: closed - Opened by effigies 2 months ago - 1 comment

#3334 - Installation of FSL with conda potentially incomplete

Issue - State: closed - Opened by oesteban 2 months ago - 3 comments
Labels: bug

#3334 - Installation of FSL with conda potentially incomplete

Issue - State: closed - Opened by oesteban 2 months ago - 3 comments
Labels: bug

#3333 - RF: Adapt to less T1w-centric smriprep

Pull Request - State: closed - Opened by effigies 2 months ago - 1 comment

#3333 - RF: Adapt to less T1w-centric smriprep

Pull Request - State: closed - Opened by effigies 2 months ago - 1 comment

#3332 - The output of fmriprep is incomplete

Issue - State: open - Opened by WangYunHong98 2 months ago - 6 comments
Labels: bug

#3332 - The output of fmriprep is incomplete

Issue - State: open - Opened by WangYunHong98 2 months ago - 1 comment
Labels: bug

#3330 - Add other CIFTI spaces

Issue - State: open - Opened by tsalo 3 months ago - 12 comments
Labels: feature, CIFTI / Grayordinates

#3329 - 20.2.8 release?

Issue - State: closed - Opened by effigies 3 months ago - 5 comments

#3328 - FIX: LTS package build

Pull Request - State: open - Opened by effigies 3 months ago

#3328 - FIX: LTS package build

Pull Request - State: closed - Opened by effigies 3 months ago

#3326 - chore(dev): Move to tox to simplify test/CI setup

Pull Request - State: closed - Opened by effigies 3 months ago - 3 comments

#3325 - fix(doc-build): Address errors/warnings in RTD builds

Pull Request - State: closed - Opened by effigies 3 months ago

#3325 - fix(doc-build): Address errors/warnings in RTD builds

Pull Request - State: closed - Opened by effigies 3 months ago

#3324 - DOC: Read html_baseurl from RTD environment, if available

Pull Request - State: closed - Opened by effigies 3 months ago

#3324 - DOC: Read html_baseurl from RTD environment, if available

Pull Request - State: closed - Opened by effigies 3 months ago

#3323 - rf(resources): Use acres over vendored data loader

Pull Request - State: closed - Opened by effigies 3 months ago - 2 comments

#3322 - [Errno -3] Temporary failure in name resolution

Issue - State: closed - Opened by WangYunHong98 3 months ago - 2 comments
Labels: bug

#3321 - CI: Fix expected outputs for fieldmaps

Pull Request - State: closed - Opened by effigies 3 months ago - 1 comment

#3320 - FIX: Validate and summarize multi-volume sbrefs

Pull Request - State: closed - Opened by effigies 3 months ago - 1 comment

#3319 - n4_correct fails for datasets with multi-volume sbrefs

Issue - State: closed - Opened by effigies 3 months ago
Labels: bug

#3318 - fMRIPrep preprocessing problem

Issue - State: open - Opened by Chen1997237 3 months ago
Labels: bug

#3318 - fMRIPrep preprocessing problem

Issue - State: open - Opened by Chen1997237 3 months ago - 1 comment
Labels: bug

#3317 - Issues in final preprocessing run

Issue - State: closed - Opened by NeuroJo-RA 3 months ago - 4 comments
Labels: bug

#3317 - Issues in final preprocessing run

Issue - State: open - Opened by NeuroJo-RA 3 months ago - 3 comments
Labels: bug

#3315 - Allow generating confounds at resampling stage

Issue - State: open - Opened by effigies 3 months ago

#3314 - N4BiasFieldCorrection fails on multiple run dataset

Issue - State: open - Opened by mariagiuliat 4 months ago - 1 comment
Labels: bug

#3314 - N4BiasFieldCorrection fails on multiple run dataset

Issue - State: open - Opened by mariagiuliat 4 months ago - 1 comment
Labels: bug

#3313 - ENH: integrate left-right flip detection

Pull Request - State: open - Opened by celprov 4 months ago - 1 comment

#3313 - ENH: integrate left-right flip detection

Pull Request - State: open - Opened by celprov 4 months ago - 1 comment

#3312 - DOC: Add benchmark page

Pull Request - State: closed - Opened by effigies 4 months ago - 1 comment

#3311 - Add optional Multiband Artifact Regression in Simultaneous Slices (MARSS) step

Issue - State: open - Opened by tsalo 4 months ago
Labels: feature

#3311 - Add optional Multiband Artifact Regression in Simultaneous Slices (MARSS) step

Issue - State: open - Opened by tsalo 4 months ago
Labels: feature

#3310 - Bump scikit-learn from 1.4.2 to 1.5.0

Pull Request - State: open - Opened by dependabot[bot] 4 months ago - 1 comment
Labels: dependencies, python

#3308 - Add optional NORDIC denoising step

Issue - State: open - Opened by tsalo 4 months ago - 8 comments
Labels: feature

#3308 - Add optional NORDIC denoising step

Issue - State: open - Opened by tsalo 4 months ago - 4 comments
Labels: feature

#3307 - nipype.workflow CRITICAL: fMRIPrep failed: [Errno 13] Permission denied

Issue - State: closed - Opened by CogBrainHealthLab 4 months ago - 5 comments
Labels: bug

#3305 - Failed to generate the boilerplate

Issue - State: open - Opened by LueHa 4 months ago - 1 comment
Labels: bug

#3305 - Failed to generate the boilerplate

Issue - State: open - Opened by LueHa 4 months ago - 1 comment
Labels: bug

#3304 - Bump tornado from 6.4 to 6.4.1

Pull Request - State: closed - Opened by dependabot[bot] 4 months ago - 1 comment
Labels: dependencies, python

#3303 - msm options no longer work in FSL 6.0.7.11

Issue - State: closed - Opened by CogBrainHealthLab 4 months ago - 2 comments
Labels: bug

#3302 - ENH: Add appropriate titles to HTML reports

Pull Request - State: closed - Opened by effigies 4 months ago - 1 comment

#3301 - REL: 24.0.0

Pull Request - State: closed - Opened by effigies 4 months ago - 1 comment

#3300 - RF: Fix ITK warp conversion to nitransforms format

Pull Request - State: closed - Opened by effigies 4 months ago - 6 comments

#3298 - MNT: Pin libitk 5.3 and note dependencies

Pull Request - State: closed - Opened by effigies 4 months ago - 1 comment

#3297 - Use BIDSURI in init_ds_boldmask_wf

Pull Request - State: closed - Opened by tsalo 4 months ago - 1 comment
Labels: bug

#3296 - FIX: Ensure shape matches template during resampling

Pull Request - State: closed - Opened by mgxd 4 months ago - 1 comment

#3295 - numpy.linalg.linalg.LinAlgError: SVD did not converge

Issue - State: open - Opened by begumbabur 4 months ago
Labels: bug

#3294 - Failure in FMAP and

Issue - State: open - Opened by ikarmann 5 months ago
Labels: bug

#3293 - Bump requests from 2.31.0 to 2.32.0

Pull Request - State: open - Opened by dependabot[bot] 5 months ago
Labels: dependencies, python

#3293 - Bump requests from 2.31.0 to 2.32.0

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago - 1 comment
Labels: dependencies, python

#3292 - FIX: Write out boldref-space brain mask with minimal level

Pull Request - State: closed - Opened by tsalo 5 months ago - 2 comments
Labels: bug

#3291 - FIX: Write out boldref-space brain mask with minimal level

Pull Request - State: closed - Opened by tsalo 5 months ago - 2 comments
Labels: bug

#3290 - boldref-space brain mask appears to be missing from minimal outputs

Issue - State: closed - Opened by tsalo 5 months ago - 2 comments
Labels: bug

#3288 - Numerical stability testing within series patch releases

Issue - State: open - Opened by mgxd 5 months ago - 1 comment
Labels: CI, potential hackathon project

#3288 - Numerical stability testing within series patch releases

Issue - State: open - Opened by mgxd 5 months ago
Labels: CI, potential hackathon project

#3287 - [FIX] Add "double" type to allowed DisplacementFieldTransform

Pull Request - State: closed - Opened by kjamison 5 months ago - 2 comments

#3287 - [FIX] Add "double" type to allowed DisplacementFieldTransform

Pull Request - State: closed - Opened by kjamison 5 months ago - 2 comments