bids-standard/pybids issues and pull requests

#969 - BIDSVariables: Speed up Sparse to Dense

Pull Request - State: closed - Opened by adelavega over 1 year ago - 9 comments

#968 - MNT: fix repeat-word typo

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

#967 - CI: Replace custom update_submodules action with dependabot action

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

#966 - confusion reg. config of extension initial dot

Issue - State: closed - Opened by raamana over 1 year ago - 5 comments

#965 - [ENH] update config to support motion and nirs modality

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

#964 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago - 1 comment

#963 - CI: fix errors caused by changes in examples

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

#962 - MNT: Remove (large) unused PNG from doc directory

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

#961 - MNT: update vendored inflect to 5.6.2

Pull Request - State: closed - Opened by DimitriPapadopoulos over 1 year ago - 9 comments

#960 - MNT: http:// → https://

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

#959 - Allow sqlalchemy before 2.0

Pull Request - State: closed - Opened by yarikoptic over 1 year ago - 10 comments

#958 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#957 - CI: Update parameters to gh-action-pypi-publish

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

#956 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#955 - MNT: Fix flake8 issues found by ruff

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

#954 - Refactor add derivatives

Pull Request - State: closed - Opened by effigies over 1 year ago - 25 comments

#953 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#952 - REL: 0.15.6

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

#951 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#950 - Support BIDS-URIs

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

#949 - ENH: Use pure SQL for return_type = 'id' queries

Pull Request - State: open - Opened by adelavega over 1 year ago - 2 comments

#948 - FIX: Exclude non-Hashables from set in .get(return_type='id')

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

#947 - Use trailing undescore to disambiguate entity names from python keywords

Issue - State: open - Opened by pvandyken over 1 year ago - 4 comments

#946 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#945 - DOC: Make clear how to ignore folders

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

#944 - Fix tutorial link in README

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

#943 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#942 - Speed up BIDSLayout.get(return_type='id', ...)

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

#941 - MNT: Require numpy 1.24 or lower for Python 3.8

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

#940 - Poor performance of get_subjects() even when using indexing without metadata

Issue - State: closed - Opened by wasciutto over 1 year ago - 10 comments

#939 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#938 - Tutorial not available

Issue - State: closed - Opened by matteogithub over 1 year ago - 5 comments

#937 - Allow filtering through subject ID when creating layout

Issue - State: closed - Opened by htwangtw over 1 year ago - 5 comments

#936 - FIX: Broken pattern matching

Pull Request - State: closed - Opened by oesteban over 1 year ago - 14 comments

#935 - Indexer - pattern matching is very brittle and does not allow sophisticated configs

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

#934 - IGNORE - Methods

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

#933 - Update default anat filename patterns in config

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

#932 - MNT: Update git submodules

Pull Request - State: closed - Opened by github-actions[bot] over 1 year ago

#931 - [ENH] add visualize module to plot events file and overall dataset content

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

#930 - Problem with Google Collab: ModuleNotFoundError

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

#929 - FIX: Coerce oversampling parameter in convolution to int

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

#928 - DOC: Mention conda installation in README

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

#927 - PyBIDs query

Issue - State: closed - Opened by yasseraleman over 1 year ago - 2 comments
Labels: wontfix

#926 - WIP: Status of ANCP refactor

Pull Request - State: closed - Opened by effigies over 1 year ago - 7 comments

#925 - Handle empty directories more gracefully

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

#924 - Allow custom BIDS configuration JSON when using derivative datasets

Issue - State: closed - Opened by thewilliamdrew over 1 year ago - 3 comments
Labels: duplicate

#923 - Add conda recipe

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

#922 - FIX: Allowing custom BIDS configuration files for derivative datasets

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

#921 - pip configparser error on osx

Issue - State: open - Opened by adelavega over 1 year ago - 5 comments

#920 - Test examples, and integration tests from other modules

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

#919 - Provide releases with reproducible downloads

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

#918 - modeling: run report of whole graph / create HTML reports

Pull Request - State: closed - Opened by adelavega over 1 year ago - 20 comments

#910 - modeling: CLI pre-run report

Issue - State: closed - Opened by adelavega over 1 year ago - 1 comment
Labels: enhancement, statsmodels

#870 - [INFRA] add workflow top automatically update submodule

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

#863 - [WIP] introduce BIDSLayoutV2

Pull Request - State: open - Opened by erdalkaraca about 2 years ago - 12 comments

#859 - FIX: Match only within relative path when indexer is validating

Pull Request - State: closed - Opened by oesteban about 2 years ago - 12 comments

#851 - [WIP] Replace BIDSLayout backend with ancpbids

Pull Request - State: closed - Opened by gkiar about 2 years ago - 1 comment

#846 - [MISC] Add tests for default path patterns

Pull Request - State: closed - Opened by Remi-Gau about 2 years ago - 4 comments

#845 - [INFRA] update bids-examples and remove expected failing tests

Pull Request - State: closed - Opened by Remi-Gau about 2 years ago - 3 comments

#841 - [MISC] remove no dot config

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

#840 - [ENH] Update config to support microscopy, qMRI, PET, ASL

Pull Request - State: closed - Opened by Remi-Gau about 2 years ago - 7 comments

#814 - Remove reports module in favor of pybids-reports namespace package

Pull Request - State: open - Opened by tsalo over 2 years ago - 2 comments

#812 - Refactor add derivatives

Pull Request - State: closed - Opened by pvandyken over 2 years ago - 9 comments

#803 - FIX: Ensure layout description is always a dict, check for GeneratedBy

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

#788 - Improve cryptic error when `dataset_description.json` is missing

Issue - State: closed - Opened by mgxd over 2 years ago - 4 comments
Labels: bug

#680 - SQLAlchemy 1.4 migration

Issue - State: closed - Opened by effigies over 3 years ago - 1 comment
Labels: layout

#661 - add very basic visualization of events file to pybids

Issue - State: closed - Opened by Remi-Gau almost 4 years ago - 7 comments

#657 - BUG: config argument not passed through when derivatives are present

Issue - State: closed - Opened by tyarkoni almost 4 years ago - 3 comments
Labels: bug, layout

#640 - layout.add_derivatives requires 'PipelineDescription' not in BIDS specification 1.4.0

Issue - State: closed - Opened by pwrightkcl almost 4 years ago - 10 comments
Labels: bug

#83 - Should pybids do minimal metadata sanitization?

Issue - State: closed - Opened by mih over 6 years ago - 15 comments

GitHub / bids-standard/pybids issues and pull requests