Ecosyste.ms: Issues

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GitHub / bids-standard/pybids issues and pull requests

#1068 - Build(deps): Bump bids-examples from `47c4da1` to `4f93568`

Pull Request - State: open - Opened by dependabot[bot] 24 days ago
Labels: dependencies, submodules

#1067 - Build(deps): Bump bids-examples from `47c4da1` to `6470461`

Pull Request - State: closed - Opened by dependabot[bot] about 1 month ago - 1 comment
Labels: dependencies, submodules

#1066 - MNT: Fix typo newly found by codespell

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 month ago - 1 comment

#1065 - FIX: No parentheses after assert

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 month ago - 2 comments

#1064 - REL: 0.16.5

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

#1063 - FIX: Filtering in BIDSLayoutIndexer

Pull Request - State: open - Opened by alperkent about 2 months ago - 1 comment

#1062 - `BIDSLayoutIndexer`'s `**filters` argument not working as expected

Issue - State: open - Opened by alperkent about 2 months ago - 6 comments

#1061 - [DOC] deal with several warnings and errors in the doc build

Pull Request - State: closed - Opened by Remi-Gau about 2 months ago - 8 comments

#1060 - [MAINT] add tests to cover ieeg, eeg, dwi

Pull Request - State: closed - Opened by Remi-Gau about 2 months ago - 1 comment

#1059 - fix(bids-config): Add dwi root sbref, missing dwi entities to path patterns

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

#1057 - MNT: Add Python 3.12 support

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

#1056 - sqlalchemy crash

Issue - State: closed - Opened by bpinsard 2 months ago - 5 comments

#1055 - MNT: Use tox to simplify testing environment setup

Pull Request - State: closed - Opened by effigies 2 months ago - 6 comments

#1054 - Build(deps): Bump bids-examples from `eff47f1` to `47c4da1`

Pull Request - State: closed - Opened by dependabot[bot] 2 months ago - 1 comment
Labels: dependencies, submodules

#1053 - Build(deps): Bump scipy from 1.5 to 1.11.1

Pull Request - State: closed - Opened by dependabot[bot] 2 months ago - 1 comment
Labels: dependencies, python

#1052 - Build(deps): Bump bids-examples from `eff47f1` to `80937c4`

Pull Request - State: closed - Opened by dependabot[bot] 2 months ago - 1 comment
Labels: dependencies, submodules

#1051 - Build(deps): Bump peaceiris/actions-gh-pages from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago - 3 comments
Labels: dependencies, github_actions

#1048 - TypeError: Expected maxsize to be an integer or None

Issue - State: closed - Opened by paul-reiners 3 months ago - 2 comments

#1047 - Build(deps): Bump bids-examples from `eff47f1` to `711be5b`

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago - 1 comment
Labels: dependencies, submodules

#1046 - Update indexer to treat .zarr as files not dirs

Pull Request - State: closed - Opened by akhanf 4 months ago - 2 comments

#1045 - Build(deps): Bump bids-examples from `eff47f1` to `0d60f73`

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

#1043 - Collect entity-linked files in get_associations

Issue - State: open - Opened by tsalo 5 months ago
Labels: enhancement

#1042 - Feature request: support datatype 'perf' for `layout.get()`

Issue - State: closed - Opened by tomfrankkirk 5 months ago - 6 comments

#1041 - Build(deps): Bump codecov/codecov-action from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 5 months ago - 2 comments
Labels: dependencies, github_actions

#1039 - Build(deps): Bump bids-examples from `1a000d6` to `eff47f1`

Pull Request - State: closed - Opened by dependabot[bot] 6 months ago - 1 comment
Labels: dependencies, submodules

#1038 - Build(deps): Bump bids-examples from `b6e5234` to `1a000d6`

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago - 1 comment
Labels: dependencies, submodules

#1037 - Build(deps): Bump actions/upload-artifact from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago - 1 comment
Labels: dependencies, github_actions

#1036 - Build(deps): Bump actions/setup-python from 4 to 5

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago - 1 comment
Labels: dependencies, github_actions

#1035 - REL: 0.16.4

Pull Request - State: closed - Opened by tsalo 7 months ago - 1 comment

#1034 - FIX: Ensure values of boolean metadata fields are preserved

Pull Request - State: closed - Opened by tsalo 7 months ago - 11 comments

#1033 - All False boolean metadata fields are changed to True

Issue - State: closed - Opened by tsalo 7 months ago - 12 comments
Labels: bug

#1031 - Build(deps): Bump bids-examples from `064db11` to `b6e5234`

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 1 comment
Labels: dependencies, submodules

#1030 - Build(deps): Bump bids-examples from `064db11` to `e073115`

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 3 comments
Labels: dependencies, submodules

#1029 - [STY] pacify codespell

Pull Request - State: closed - Opened by Remi-Gau 9 months ago - 1 comment

#1028 - Build(deps): Bump bids-examples from `d039879` to `064db11`

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago - 1 comment
Labels: dependencies, submodules

#1027 - Build(deps): Bump bids-examples from `bfcc5c6` to `d039879`

Pull Request - State: closed - Opened by dependabot[bot] 9 months ago - 1 comment
Labels: dependencies, submodules

#1026 - Bump bids-examples from `502c917` to `bfcc5c6`

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, submodules

#1025 - Bump bids-examples from `1c30c6e` to `502c917`

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, submodules

#1024 - Bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, github_actions

#1023 - Clearer BIDSValidation error message

Pull Request - State: closed - Opened by pierre-nedelec 10 months ago - 1 comment

#1021 - Bump bids-examples from `e857597` to `1c30c6e`

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, submodules

#1020 - Custom configurations are not passed to derivatives indexer

Issue - State: open - Opened by pierre-nedelec 10 months ago - 9 comments
Labels: bug

#1019 - Bump bids-examples from `c557d1f` to `e857597`

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, submodules

#1018 - [FIX] update config for PET tracer entity

Pull Request - State: closed - Opened by Remi-Gau 11 months ago - 1 comment

#1017 - BIDSValidationError When Using build_path with tracer

Issue - State: closed - Opened by mcsitter 11 months ago - 3 comments

#1016 - FIX: Drop JSON sidecar fields with null values during metadata indexing

Pull Request - State: closed - Opened by effigies 11 months ago - 3 comments

#1015 - BUG: null metadata results in indexing failure

Issue - State: closed - Opened by effigies 11 months ago - 5 comments

#1014 - REL: 0.6.2

Pull Request - State: closed - Opened by adelavega 11 months ago - 1 comment

#1013 - ENH: Speed up indexing by bulk committing to database

Pull Request - State: closed - Opened by adelavega 11 months ago - 16 comments

#1012 - Python3.12: Test fails with ValueError

Issue - State: open - Opened by penguinpee 11 months ago - 2 comments

#1011 - Bump bids-examples from `75968b9` to `c557d1f`

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago - 2 comments
Labels: dependencies, submodules

#1010 - Bump scipy from 1.5 to 1.10.0

Pull Request - State: closed - Opened by dependabot[bot] 12 months ago - 1 comment
Labels: dependencies, python

#1009 - Include indexer in add_derivatives call

Pull Request - State: closed - Opened by wasciutto 12 months ago - 3 comments

#1008 - Bump bids-examples from `8550641` to `75968b9`

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

#1007 - Bump bids-examples from `e96b702` to `8550641`

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

#1006 - Bump bids-examples from `e96b702` to `4666d59`

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies, submodules

#1005 - Bump bids-examples from `d8455af` to `e96b702`

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies, submodules

#1004 - Bump bids-examples from `d8455af` to `fc080d2`

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies, submodules

#1003 - Bump bids-examples from `bc36231` to `d8455af`

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

#1002 - Bump bids-examples from `bc36231` to `50342d3`

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies, submodules

#1001 - CI: Use OIDC publishing instead of tokens

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

#1000 - Please support formulaic 0.6.0

Issue - State: open - Opened by musicinmybrain about 1 year ago - 4 comments

#999 - ENH: Parallel specification of next API

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

#998 - REL: 0.16.1

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

#997 - FIX: Improve parsing of suffix/extension in non-BIDS files

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

#996 - CI: Update Python version for doc/sdist/wheel tests

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

#995 - MNT: update zenodo

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 1 comment

#994 - ENH: Support use of Query enums in filter lists

Pull Request - State: closed - Opened by pvandyken about 1 year ago - 1 comment

#993 - Generally can't use `Query.None` in a list of filters, except for with `run`

Issue - State: closed - Opened by pvandyken about 1 year ago - 2 comments

#992 - Unable to use `Query.*` on extension

Issue - State: closed - Opened by pvandyken about 1 year ago - 2 comments

#991 - Bug/Ambiguous parsing when extension but no suffix present

Issue - State: closed - Opened by pvandyken about 1 year ago - 3 comments

#990 - Bump numpy from 1.19 to 1.22.0

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

#989 - RFC: PyBIDS 1.0 layout API

Issue - State: open - Opened by effigies about 1 year ago - 8 comments
Labels: discussion

#988 - REL: 0.16.0

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

#987 - MNT: Update minimum dependencies, add CI job to test them

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

#986 - MNT: Drop jinja2/markupsafe constraints

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

#985 - FIX: Adapt to SQLAlchemy 1.4+

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

#984 - TEST: Check effectiveness of pydantic2 fixes in bsmschema

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

#983 - Bump bids-examples from `6538686` to `bc36231`

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 2 comments
Labels: dependencies, submodules

#982 - ohbm hackathon idea: pybids (+analysis) in the browser

Issue - State: open - Opened by adelavega about 1 year ago - 3 comments

#981 - MNT: fix ruff issue E712

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 3 comments

#980 - MNT, DOC: fix imports in documentation scripts

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 1 comment

#979 - CI: Drop codecov PyPI package and appveyor config

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

#978 - `layout.get` not returning subject directory paths for datasets with no session layer

Issue - State: open - Opened by alyssadai about 1 year ago - 3 comments
Labels: bug

#977 - ENH: Only warn if missing values not explicilty set

Pull Request - State: closed - Opened by adelavega about 1 year ago - 1 comment

#976 - ENH: Explicitly handle n/as in statsmodels

Pull Request - State: closed - Opened by adelavega about 1 year ago - 4 comments

#975 - CI: Add Python 3.11

Pull Request - State: closed - Opened by adelavega about 1 year ago - 2 comments

#974 - Drop Python 3.7 EOL

Pull Request - State: closed - Opened by adelavega about 1 year ago - 1 comment

#973 - CI: test

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 6 comments

#972 - CI: test

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 1 comment

#971 - MNT: a few Python3 updates

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 1 comment

#970 - BIDSLayoutIndexer not passed to derivative layouts

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