Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / nipreps/fmriprep issues and pull requests

#3037 - FIX: Remove bad metadata input from ds_goodvoxels_mask

Pull Request - State: closed - Opened by effigies over 1 year ago

#3036 - Memory issues during gen_avg for high-res fMRI data

Issue - State: closed - Opened by bwinsto2 over 1 year ago - 2 comments
Labels: bug

#3036 - Memory issues during gen_avg for high-res fMRI data

Issue - State: closed - Opened by bwinsto2 over 1 year ago - 2 comments
Labels: bug

#3035 - Any FreeSurfer output space is required when using `--project-goodvoxels`

Issue - State: closed - Opened by demidenm over 1 year ago - 4 comments
Labels: bug

#3035 - Any FreeSurfer output space is required when using `--project-goodvoxels`

Issue - State: closed - Opened by demidenm over 1 year ago - 4 comments
Labels: bug

#3032 - REL: 23.1.0

Pull Request - State: closed - Opened by effigies over 1 year ago - 2 comments

#3031 - PIN: nipreps/sdcflows#366

Pull Request - State: closed - Opened by effigies over 1 year ago - 1 comment

#3030 - Add `--me-t2s-fit-method` parameter

Pull Request - State: closed - Opened by tsalo over 1 year ago
Labels: feature, me-epi, multiecho

#3030 - Add `--me-t2s-fit-method` parameter

Pull Request - State: closed - Opened by tsalo over 1 year ago
Labels: feature, me-epi, multiecho

#3029 - Add option to control t2smap fittype

Issue - State: closed - Opened by tsalo over 1 year ago - 2 comments
Labels: feature, me-epi, multiecho

#3028 - FIX: Raise RuntimeError at build if echos have mismatched shapes

Pull Request - State: closed - Opened by effigies over 1 year ago - 1 comment

#3028 - FIX: Raise RuntimeError at build if echos have mismatched shapes

Pull Request - State: closed - Opened by effigies over 1 year ago - 1 comment

#3027 - Would '--anat-only' crashes with '--use-aroma', or '--ignore slicetiming' option?

Issue - State: closed - Opened by shawnyoung23 over 1 year ago - 1 comment
Labels: bug

#3027 - Would '--anat-only' crashes with '--use-aroma', or '--ignore slicetiming' option?

Issue - State: closed - Opened by shawnyoung23 over 1 year ago - 1 comment
Labels: bug

#3026 - ValueError: Could not build path with entities

Issue - State: closed - Opened by bogeng-song over 1 year ago - 4 comments
Labels: bug

#3026 - ValueError: Could not build path with entities

Issue - State: closed - Opened by bogeng-song over 1 year ago - 4 comments
Labels: bug

#3025 - RF: Filter fieldmaps based on whether they will be used to correct a BOLD series

Pull Request - State: closed - Opened by effigies over 1 year ago - 4 comments

#3025 - RF: Filter fieldmaps based on whether they will be used to correct a BOLD series

Pull Request - State: closed - Opened by effigies over 1 year ago - 4 comments

#3024 - reason: TypeError: Cannot read properties of undefined (reading 'split')

Issue - State: open - Opened by YasmineMH1997 over 1 year ago - 2 comments
Labels: bug

#3024 - reason: TypeError: Cannot read properties of undefined (reading 'split')

Issue - State: closed - Opened by YasmineMH1997 over 1 year ago - 3 comments
Labels: bug

#3023 - missing dataset_description.json file when run preprocess with mac m1 system

Issue - State: closed - Opened by bogeng-song over 1 year ago - 1 comment
Labels: question

#3023 - missing dataset_description.json file when run preprocess with mac m1 system

Issue - State: closed - Opened by bogeng-song over 1 year ago - 1 comment
Labels: question

#3022 - FIX: Update sloppy/debug parameters in anatomical base workflow

Pull Request - State: closed - Opened by mgxd over 1 year ago - 2 comments

#3022 - FIX: Update sloppy/debug parameters in anatomical base workflow

Pull Request - State: closed - Opened by mgxd over 1 year ago - 2 comments

#3021 - Crash on bad TOPUP orientations

Issue - State: open - Opened by effigies over 1 year ago
Labels: feature, good first issue

#3021 - Crash on bad TOPUP orientations

Issue - State: open - Opened by effigies over 1 year ago
Labels: feature, good first issue

#3020 - TypeError: Object of type BIDSImageFile is not JSON serializable

Issue - State: closed - Opened by smeisler over 1 year ago - 4 comments
Labels: bug

#3020 - TypeError: Object of type BIDSImageFile is not JSON serializable

Issue - State: closed - Opened by smeisler over 1 year ago - 4 comments
Labels: bug

#3019 - 'dataset_description.json' is missing from project root.

Issue - State: closed - Opened by gargiris over 1 year ago - 1 comment

#3019 - 'dataset_description.json' is missing from project root.

Issue - State: closed - Opened by gargiris over 1 year ago - 1 comment

#3018 - Using NORM and non-NORM T1w images

Issue - State: open - Opened by effigies over 1 year ago - 3 comments

#3018 - Using NORM and non-NORM T1w images

Issue - State: closed - Opened by effigies over 1 year ago - 3 comments

#3017 - CI: Bump ds210 work cache

Pull Request - State: closed - Opened by effigies over 1 year ago - 1 comment

#3017 - CI: Bump ds210 work cache

Pull Request - State: closed - Opened by effigies over 1 year ago - 1 comment

#3016 - MNT: Update ANTs pin in Docker image

Pull Request - State: closed - Opened by effigies over 1 year ago

#3015 - autorecon1 "ERROR: OS is missing bc (binary calculator) utility"

Issue - State: closed - Opened by madisoth over 1 year ago - 1 comment
Labels: bug

#3014 - Bump requests from 2.28.2 to 2.31.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies

#3013 - Susceptibility distortion correction introduces distortion

Issue - State: closed - Opened by ChristianNSchmitz over 1 year ago - 25 comments
Labels: bug

#3012 - CI: Use registry for layer caching

Pull Request - State: closed - Opened by effigies over 1 year ago - 2 comments

#3011 - ENH: Resample BOLD to fsLR directly, dropping fsaverage intermediate

Pull Request - State: closed - Opened by effigies over 1 year ago - 3 comments

#3009 - Ensure per-BOLD SyN-SDC does not require TotalReadoutTime

Issue - State: open - Opened by effigies over 1 year ago - 1 comment

#3008 - ENH: Allow SBref+EPI PEPolar fieldmaps to correct BOLD series

Pull Request - State: closed - Opened by bpinsard over 1 year ago - 2 comments

#3007 - I have the a question about freesurfer license.txt but I don't know why. Can you help me?

Issue - State: closed - Opened by ZhyGao over 1 year ago - 16 comments
Labels: bug

#3005 - Error during workflow build if ME bold series don't match shapes

Issue - State: closed - Opened by athenahowell over 1 year ago - 6 comments
Labels: feature, me-epi, multiecho

#3004 - recon-all -s sub-001 exited with ERROR: FOV=272.000 > 256

Issue - State: closed - Opened by marcomeixner over 1 year ago - 3 comments

#3003 - Nibabel deprecation rasing when importing from nipype.interfaces.nipy.base

Issue - State: closed - Opened by oesteban over 1 year ago - 1 comment
Labels: bug

#3002 - “–cifti-output” flag causes an error on conf_plot

Issue - State: open - Opened by printempsi over 1 year ago - 1 comment

#3002 - “–cifti-output” flag causes an error on conf_plot

Issue - State: closed - Opened by printempsi over 1 year ago - 3 comments
Labels: question

#3001 - Error building Dockerfile_devel

Issue - State: open - Opened by atsuch over 1 year ago
Labels: bug

#3001 - Error building Dockerfile_devel

Issue - State: closed - Opened by atsuch over 1 year ago - 1 comment
Labels: bug

#3000 - Error in cortribbon node with T2 in fmriprep 23.0.2

Issue - State: closed - Opened by liuzhenqi77 over 1 year ago - 2 comments
Labels: bug

#3000 - Error in cortribbon node with T2 in fmriprep 23.0.2

Issue - State: closed - Opened by liuzhenqi77 over 1 year ago - 2 comments
Labels: bug

#2999 - Phasediff field maps problem with V23.0.2

Issue - State: closed - Opened by manzouri over 1 year ago - 1 comment
Labels: bug

#2998 - FIX: Mask BOLD with goodvoxels, not goodvoxels+ribbon

Pull Request - State: closed - Opened by effigies over 1 year ago - 2 comments

#2997 - FIX: Mask BOLD with goodvoxels, not goodvoxels+ribbon

Pull Request - State: closed - Opened by effigies over 1 year ago

#2997 - FIX: Mask BOLD with goodvoxels, not goodvoxels+ribbon

Pull Request - State: closed - Opened by effigies over 1 year ago

#2995 - ENH: Restore AROMA

Pull Request - State: closed - Opened by effigies over 1 year ago

#2994 - FIX: Inconsistent fmapless estimation when ignoring fieldmaps

Pull Request - State: open - Opened by mgxd over 1 year ago

#2994 - FIX: Inconsistent fmapless estimation when ignoring fieldmaps

Pull Request - State: closed - Opened by mgxd over 1 year ago

#2993 - Error in get_img_orientation during workflow setup in 20.2.7 but not in 20.2.0

Issue - State: closed - Opened by ins0mniac2 over 1 year ago - 14 comments
Labels: bug

#2993 - Error in get_img_orientation during workflow setup in 20.2.7 but not in 20.2.0

Issue - State: closed - Opened by ins0mniac2 over 1 year ago - 14 comments
Labels: bug

#2992 - MNT: Update governance docs

Pull Request - State: open - Opened by effigies over 1 year ago

#2992 - MNT: Update governance docs

Pull Request - State: closed - Opened by effigies over 1 year ago

#2991 - Port to nipreps/GOVERNANCE style for the ``.maint/`` files, and set a first MAINTAINERS team

Issue - State: open - Opened by oesteban over 1 year ago - 1 comment
Labels: documentation

#2991 - Port to nipreps/GOVERNANCE style for the ``.maint/`` files, and set a first MAINTAINERS team

Issue - State: closed - Opened by oesteban over 1 year ago - 1 comment
Labels: documentation

#2990 - good voxels masking error

Issue - State: open - Opened by juansanchezpena over 1 year ago - 8 comments
Labels: bug

#2990 - good voxels masking error

Issue - State: closed - Opened by juansanchezpena over 1 year ago - 14 comments
Labels: bug

#2988 - Bump sentry-sdk from 1.3.1 to 1.14.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 3 comments
Labels: dependencies

#2988 - Bump sentry-sdk from 1.3.1 to 1.14.0

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 3 comments
Labels: dependencies

#2985 - FIX: Estimate free memory with "available", not "free"

Pull Request - State: closed - Opened by effigies over 1 year ago
Labels: heuristics, backport candidate

#2984 - CI: Docker layer caching

Pull Request - State: open - Opened by effigies over 1 year ago

#2984 - CI: Docker layer caching

Pull Request - State: closed - Opened by effigies over 1 year ago

#2983 - ConnectionResetError, no additional info with verbose

Issue - State: closed - Opened by hugofluhr over 1 year ago - 6 comments
Labels: bug

#2983 - ConnectionResetError, no additional info with verbose

Issue - State: closed - Opened by hugofluhr over 1 year ago - 6 comments
Labels: bug

#2982 - MNT: Refactor Docker build process

Pull Request - State: closed - Opened by effigies over 1 year ago - 5 comments

#2980 - MNT: Update Docker image to FSL 6.0.6.2

Pull Request - State: closed - Opened by effigies over 1 year ago

#2979 - Location of subject html files

Issue - State: closed - Opened by marcelzwiers over 1 year ago - 1 comment

#2978 - slice timing advice incorrect in outputs.rst

Issue - State: open - Opened by thoernst over 1 year ago
Labels: documentation

#2978 - slice timing advice incorrect in outputs.rst

Issue - State: closed - Opened by thoernst over 1 year ago - 1 comment
Labels: documentation

#2977 - FileNotFoundError: [Errno 2] No such file or directory (mri_robust_register command)

Issue - State: closed - Opened by junxiatree over 1 year ago - 1 comment
Labels: bug

#2973 - mpr2mni305 execution aborted

Issue - State: open - Opened by pareesa20 over 1 year ago - 1 comment
Labels: bug

#2973 - mpr2mni305 execution aborted

Issue - State: closed - Opened by pareesa20 over 1 year ago - 1 comment
Labels: bug

#2972 - Error EISDIR : no authorization to read, even though rights were set

Issue - State: closed - Opened by laurec00 over 1 year ago - 4 comments
Labels: bug

#2971 - error with --use-aroma

Issue - State: closed - Opened by BRAICLab over 1 year ago - 2 comments
Labels: bug

#2971 - error with --use-aroma

Issue - State: closed - Opened by BRAICLab over 1 year ago - 2 comments
Labels: bug

#2970 - fmriprep crash on imcomplete fieldmap

Issue - State: closed - Opened by marcelzwiers over 1 year ago - 1 comment
Labels: bug

#2969 - DOC: Add TemplateFlow's citation into bibtex file

Pull Request - State: closed - Opened by oesteban over 1 year ago

#2968 - Limit fieldmap estimation to ones that will be used to correct BOLD files

Issue - State: closed - Opened by G10v4nn1G over 1 year ago - 4 comments
Labels: feature, impact: low, effort: medium, sdc

#2967 - t1w_merge error in single subject multi session

Issue - State: closed - Opened by Beaconian over 1 year ago - 3 comments
Labels: bug

#2966 - ENH: Remove ICA-AROMA from workflow and docs

Pull Request - State: closed - Opened by effigies over 1 year ago

#2966 - ENH: Remove ICA-AROMA from workflow and docs

Pull Request - State: closed - Opened by effigies over 1 year ago

#2964 - REL: 23.0.0

Pull Request - State: closed - Opened by effigies over 1 year ago - 4 comments

#2964 - REL: 23.0.0

Pull Request - State: closed - Opened by effigies over 1 year ago - 4 comments

#2963 - Flag for changing high pass filter for compcor

Issue - State: closed - Opened by BAshinoff over 1 year ago - 8 comments
Labels: feature

#2962 - Comments on HTML report version 23.0.0rc0

Issue - State: closed - Opened by julfou81 over 1 year ago - 2 comments

#2961 - Singularity image & FREESURFER_HOME path

Issue - State: closed - Opened by muet0005 over 1 year ago - 4 comments
Labels: container, faq