PennLINC/CuBIDS issues and pull requests

#326 - Update scikit-learn requirement from <=1.5.1 to <=1.5.2

Pull Request - State: open - Opened by dependabot[bot] 18 days ago
Labels: maintenance, ignore-for-release

#325 - Update pybids requirement from <=0.17.0 to <=0.17.1

Pull Request - State: open - Opened by dependabot[bot] 25 days ago
Labels: maintenance, ignore-for-release

#324 - Update numpy requirement from <=2.1.0 to <=2.1.1

Pull Request - State: open - Opened by dependabot[bot] 25 days ago
Labels: maintenance, ignore-for-release

#323 - Update numpy requirement from <=2.0.0 to <=2.1.0

Pull Request - State: closed - Opened by dependabot[bot] about 2 months ago
Labels: maintenance, ignore-for-release

#322 - Update pybids requirement from <=0.16.5 to <=0.17.0

Pull Request - State: closed - Opened by dependabot[bot] 2 months ago
Labels: maintenance, ignore-for-release

#321 - Update numpy requirement from <=2.0.0 to <=2.0.1

Pull Request - State: closed - Opened by dependabot[bot] 2 months ago - 1 comment
Labels: maintenance, ignore-for-release

#320 - Update scikit-learn requirement from <=1.5.0 to <=1.5.1

Pull Request - State: closed - Opened by dependabot[bot] 3 months ago
Labels: maintenance, ignore-for-release

#319 - Fix test data path

Pull Request - State: closed - Opened by tsalo 3 months ago
Labels: documentation

#318 - Update numpy requirement from <=1.26.4 to <=2.0.0

Pull Request - State: closed - Opened by dependabot[bot] 4 months ago
Labels: maintenance, ignore-for-release

#317 - Remove unnecessary arguments from `cubids apply`

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

#316 - Update scikit-learn requirement from <=1.4.2 to <=1.5.0

Pull Request - State: closed - Opened by dependabot[bot] 4 months ago - 2 comments
Labels: maintenance, ignore-for-release

#315 - Update pybids requirement from <=0.16.4 to <=0.16.5

Pull Request - State: closed - Opened by dependabot[bot] 4 months ago - 2 comments
Labels: maintenance, ignore-for-release

#314 - what is the correct usage of cubids apply?

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

#313 - Update pandas requirement from <=2.2.1 to <=2.2.2

Pull Request - State: closed - Opened by dependabot[bot] 6 months ago - 1 comment
Labels: maintenance, ignore-for-release

#312 - Update scikit-learn requirement from <=1.4.1.post1 to <=1.4.2

Pull Request - State: closed - Opened by dependabot[bot] 6 months ago - 1 comment
Labels: maintenance, ignore-for-release

#311 - Prepare for 1.1.0 release

Pull Request - State: closed - Opened by tsalo 6 months ago - 8 comments
Labels: maintenance

#310 - Update pandas requirement from <=2.2.0 to <=2.2.1

Pull Request - State: closed - Opened by dependabot[bot] 7 months ago - 1 comment
Labels: maintenance, ignore-for-release

#309 - cubids command not found error

Issue - State: closed - Opened by Arshitha 8 months ago - 2 comments
Labels: bug

#308 - Refactor CuBIDS to support file collections

Pull Request - State: open - Opened by tsalo 8 months ago - 2 comments
Labels: enhancement

#307 - Update scikit-learn requirement from <=1.4.0 to <=1.4.1.post1

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 1 comment
Labels: maintenance, ignore-for-release

#306 - Optionally validate across runs

Issue - State: open - Opened by tsalo 8 months ago
Labels: enhancement

#305 - Write out `acq` entity modifications to an `acquisitions.tsv` file

Issue - State: open - Opened by tsalo 8 months ago
Labels: enhancement

#304 - Support file collections

Issue - State: open - Opened by tsalo 8 months ago
Labels: enhancement

#303 - Does CuBIDS account for inheritance with variants' associated files?

Issue - State: open - Opened by tsalo 8 months ago
Labels: enhancement

#302 - Add command to apply inheritance principle to dataset

Issue - State: open - Opened by tsalo 8 months ago - 1 comment
Labels: enhancement

#301 - Limit CuBIDS filename changes to the `acq` entity and datatype folder

Issue - State: open - Opened by tsalo 8 months ago - 1 comment
Labels: enhancement, breaking-change

#300 - CuBIDS enforces a longitudinal dataset structure

Issue - State: open - Opened by tsalo 8 months ago
Labels: bug

#299 - Update numpy requirement from <=1.26.3 to <=1.26.4

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 1 comment
Labels: maintenance, ignore-for-release

#298 - Update numpy requirement from <=1.26.0 to <=1.26.3

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 1 comment
Labels: maintenance, ignore-for-release

#297 - Fix CodeCov upload

Pull Request - State: closed - Opened by tsalo 8 months ago - 1 comment
Labels: maintenance, ignore-for-release

#296 - RU site pipeline output error

Issue - State: open - Opened by BaranMary 8 months ago - 1 comment
Labels: bug

#295 - Drop jinja and wrapt from dependencies and pin other requirements

Pull Request - State: closed - Opened by tsalo 8 months ago
Labels: maintenance

#294 - Update jinja2 requirement from <3.1 to <3.2

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 4 comments
Labels: maintenance, ignore-for-release

#293 - Bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago
Labels: maintenance, ignore-for-release

#292 - Bump actions/setup-python from 4 to 5

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago
Labels: maintenance, ignore-for-release

#291 - Replace subprocess calls with datalad API commands, when possible

Issue - State: closed - Opened by tsalo 8 months ago - 2 comments
Labels: question, refactor

#290 - Improve documentation

Pull Request - State: closed - Opened by tsalo 8 months ago - 1 comment
Labels: documentation

#289 - Remove container support

Pull Request - State: open - Opened by tsalo 8 months ago

#288 - Attempt to fix PyPi deployment again

Pull Request - State: closed - Opened by tsalo 8 months ago
Labels: maintenance, ignore-for-release

#287 - Attempt to fix PyPi deployment again

Pull Request - State: closed - Opened by tsalo 8 months ago
Labels: maintenance, ignore-for-release

#286 - Attempt to fix PyPi deployment job

Pull Request - State: closed - Opened by tsalo 8 months ago - 1 comment
Labels: maintenance, ignore-for-release

#285 - Replace container support with conda-forge distribution

Issue - State: open - Opened by tsalo 8 months ago - 4 comments
Labels: question, breaking-change

#284 - Add dependabot and other config files

Pull Request - State: closed - Opened by tsalo 8 months ago - 1 comment
Labels: maintenance, ignore-for-release

#283 - Rename Key Group to Entity Set

Issue - State: open - Opened by tsalo 8 months ago - 1 comment
Labels: question, breaking-change

#282 - Add ASL fields to config

Pull Request - State: closed - Opened by tsalo 9 months ago - 2 comments
Labels: enhancement

#281 - Support array-type metadata fields

Issue - State: open - Opened by tsalo 9 months ago
Labels: enhancement

#280 - deploy_pypi job is failing

Issue - State: closed - Opened by tsalo 9 months ago - 1 comment
Labels: bug, maintenance

#279 - Run Pytests across all supported Python versions

Pull Request - State: closed - Opened by tsalo 9 months ago - 1 comment
Labels: testing

#278 - Move notebooks into example gallery

Pull Request - State: closed - Opened by tsalo 9 months ago - 1 comment
Labels: documentation

#277 - pkg_resources is deprecated

Issue - State: open - Opened by tsalo 9 months ago
Labels: bug

#276 - Remove `--ignore_subject_consistency` param from `cubids validate`

Pull Request - State: closed - Opened by tsalo 9 months ago
Labels: bug

#275 - Convert notebooks to example gallery

Issue - State: closed - Opened by tsalo 9 months ago
Labels: documentation

#274 - Add command to replace IntendedFor fields with B0FieldSource/B0FieldIdentifier

Issue - State: open - Opened by tsalo 10 months ago - 6 comments
Labels: enhancement

#273 - Metadata modification for updated filenames doesn't cover `B0Field` fields

Issue - State: open - Opened by tsalo about 1 year ago
Labels: bug

#272 - `cubids-apply` adds extra leading zero to run entity

Issue - State: open - Opened by tsalo about 1 year ago - 1 comment
Labels: bug

#271 - Entities in `CuBIDS.change_filename` are not comprehensive/up-to-date

Issue - State: open - Opened by tsalo about 1 year ago - 4 comments
Labels: bug

#270 - `cubids-validate` `--ignore_subject_consistency` can only be True

Issue - State: closed - Opened by tsalo about 1 year ago - 1 comment
Labels: bug

#269 - Stop building Docker image

Issue - State: closed - Opened by tsalo about 1 year ago

#268 - Make CLI commands available as `cubids <command>`

Pull Request - State: closed - Opened by tsalo about 1 year ago - 3 comments
Labels: enhancement

#267 - Reorganize packaging and hopefully fix tests

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

#266 - Use black and isort to autoformat the main package

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

#265 - Add option to anonymize acquisition datetimes in scans.tsv

Issue - State: open - Opened by tsalo about 1 year ago - 1 comment
Labels: enhancement

#264 - look into Jenna's issue

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

#263 - new pypi release (1.0.9) so cubids prints erroneous json paths

Issue - State: closed - Opened by scovitz about 1 year ago
Labels: enhancement

#262 - Fix codespell setup: keep config in pyproject.toml and do not sub-select folders

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

#261 - fix CuBIDS failing docs build

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

#260 - make has fieldmap optional

Issue - State: open - Opened by scovitz over 1 year ago
Labels: enhancement

#259 - type check parameters before rounding

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

#258 - fail gracefully with erroneous jsons, print jsons that are unreadable

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

#257 - printing erroneous jsons and only rounding float parameters

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

#256 - [ENH] Check column type before applying rounding

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

#255 - cubids-group Error: "local variable 'filepath' referenced before assignment"

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

#254 - remove old .e and .o files from repo

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

#253 - add more robust/descriptive error messages

Issue - State: open - Opened by scovitz over 1 year ago

#253 - add more robust/descriptive error messages

Issue - State: open - Opened by scovitz over 1 year ago

#252 - update cubids tests

Issue - State: open - Opened by scovitz over 1 year ago - 1 comment
Labels: testing

#252 - update cubids tests

Issue - State: open - Opened by scovitz over 1 year ago

#251 - dependency update causing failing ci tests

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

#251 - dependency update causing failing ci tests

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

#250 - [CI] CuBIDS not currently passing CI tests

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

#249 - cubids-group fails

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

#249 - cubids-group fails

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

#248 - cubids-purge text file to remove multiple files

Issue - State: closed - Opened by nguyenandi over 1 year ago - 6 comments

#248 - cubids-purge text file to remove multiple files

Issue - State: closed - Opened by nguyenandi over 1 year ago - 6 comments