Ecosyste.ms: Issues

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GitHub / nipreps/nibabies issues and pull requests

#405 - REL: 24.1.0

Pull Request - State: open - Opened by mgxd 4 days ago - 1 comment

#404 - MAINT: Automate testing with tox

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

#403 - FIX: Readd boilerplate, errors to report

Pull Request - State: closed - Opened by mgxd 6 days ago

#402 - ENH: Add age to session report

Pull Request - State: closed - Opened by mgxd 9 days ago

#401 - MAINT: Port over parser and tests from fmriprep

Pull Request - State: closed - Opened by mgxd 9 days ago

#400 - FIX: Do not force masking of anatomicals when using `--derivatives`

Pull Request - State: closed - Opened by mgxd 10 days ago

#399 - FIX: MCRIBS auto surface reconstruction logic

Pull Request - State: closed - Opened by mgxd 10 days ago

#398 - FIX Update bids.py

Pull Request - State: closed - Opened by erikglee 11 days ago

#396 - MAINT: Revisit warnings filter

Pull Request - State: closed - Opened by mgxd 19 days ago

#395 - FIX/ENH: Improvements to age parsing

Pull Request - State: closed - Opened by mgxd 23 days ago - 1 comment

#394 - [ENH] Age float change + handling of sessions.tsv ages

Pull Request - State: closed - Opened by erikglee 24 days ago - 2 comments

#393 - SyN SDC incomplete

Issue - State: open - Opened by mgxd 26 days ago - 1 comment
Labels: bug

#392 - Errors may be present in "successful" runs

Issue - State: open - Opened by mgxd 27 days ago
Labels: bug

#392 - Errors may be present in "successful" runs

Issue - State: open - Opened by mgxd 27 days ago
Labels: bug

#389 - FIX: Gracefully handle longitudinal/long format participants TSV

Pull Request - State: closed - Opened by scott-huberty 30 days ago - 9 comments

#388 - Issue finding age in months from participants.tsv for v24.0.0

Issue - State: closed - Opened by lundq163 about 1 month ago - 6 comments
Labels: bug

#386 - docs: reformat abbreviations

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

#385 - FIX: Add missing me-t2s-fit-method option

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

#383 - DOC: First documentation pass

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

#383 - DOC: First documentation pass

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

#382 - FIX: Select reference resolution based on grayordinates

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

#381 - FIX: Ensure 2mm template is added when running CIFTI

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

#380 - bold_MNIInfant_wf uses res-1 (1mm) template as target for BOLD resampling

Issue - State: closed - Opened by madisoth about 2 months ago
Labels: bug

#380 - bold_MNIInfant_wf uses res-1 (1mm) template as target for BOLD resampling

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

#379 - CI: Fix smoke tests

Pull Request - State: closed - Opened by mgxd about 2 months ago

#379 - CI: Fix smoke tests

Pull Request - State: closed - Opened by mgxd about 2 months ago

#378 - More tests

Issue - State: open - Opened by scott-huberty about 2 months ago - 3 comments
Labels: enhancement

#378 - More tests

Issue - State: open - Opened by scott-huberty about 2 months ago - 3 comments
Labels: enhancement

#377 - FIX: Do not require mniinfant xfm if no cifti

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

#376 - ENH: Additional support for age parsing

Pull Request - State: open - Opened by mgxd about 2 months ago

#374 - Chore(deps): Bump scikit-learn from 1.4.2 to 1.5.0

Pull Request - State: open - Opened by dependabot[bot] 2 months ago
Labels: dependencies

#374 - Chore(deps): Bump scikit-learn from 1.4.2 to 1.5.0

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

#373 - FIX: swap out remaining `load_resources` cruft with `acres` `load`

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

#373 - FIX: swap out remaining `load_resources` cruft with `acres` `load`

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

#372 - `unstable` docker tag is lagging behind Nibabies development version

Issue - State: closed - Opened by scott-huberty 2 months ago - 2 comments

#370 - REL: 24.0.0rc0

Pull Request - State: closed - Opened by mgxd 2 months ago

#370 - REL: 24.0.0rc0

Pull Request - State: closed - Opened by mgxd 2 months ago

#368 - Add `space-fsaverage` to `sphere_reg` output files

Pull Request - State: closed - Opened by tsalo 2 months ago

#368 - Add `space-fsaverage` to `sphere_reg` output files

Pull Request - State: closed - Opened by tsalo 2 months ago

#367 - Write out fsnative surface files registered to dhcpAsym/fsLR space

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

#366 - Add `space-fsaverage` to `desc-reg` sphere files without space entity

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

#366 - Add `space-fsaverage` to `desc-reg` sphere files without space entity

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

#365 - FIX: nest pathlib import in fix_multi_source_name

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

#365 - FIX: nest pathlib import in fix_multi_source_name

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

#364 - Failure using nibabies: Image and mask affines are not similar enough

Issue - State: closed - Opened by kellyhi08 4 months ago - 8 comments
Labels: bug

#364 - Failure using nibabies: Image and mask affines are not similar enough

Issue - State: open - Opened by kellyhi08 4 months ago - 7 comments
Labels: bug

#363 - mri_coreg crash

Issue - State: closed - Opened by scott-huberty 5 months ago - 3 comments
Labels: bug

#362 - Build(deps): Bump jinja2 from 3.0.1 to 3.1.4

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

#361 - Build(deps): Bump tqdm from 4.65.0 to 4.66.3

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

#360 - RF: Move to fit/apply workflow

Pull Request - State: closed - Opened by mgxd 5 months ago - 1 comment
Labels: in-progress

#358 - Build(deps): Bump idna from 3.4 to 3.7

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

#357 - FEAT: Save CIFTI subcortical volumes

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

#356 - FIX: Use tissue segmentations for FS recon-all

Pull Request - State: open - Opened by mgxd 6 months ago - 1 comment

#355 - Build(deps): Bump pillow from 10.0.1 to 10.3.0

Pull Request - State: closed - Opened by dependabot[bot] 6 months ago - 2 comments
Labels: dependencies

#355 - Build(deps): Bump pillow from 10.0.1 to 10.3.0

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

#354 - Cant get func - cifti outputs

Issue - State: closed - Opened by nbustos 6 months ago - 4 comments
Labels: bug

#353 - FIX: Avoid retrieving multiple templates from latest TF

Pull Request - State: closed - Opened by mgxd 6 months ago - 1 comment

#353 - FIX: Avoid retrieving multiple templates from latest TF

Pull Request - State: closed - Opened by mgxd 6 months ago - 1 comment

#352 - Warnings generated by `warnings.warn` are not shown in the terminal output (?)

Issue - State: closed - Opened by scott-huberty 7 months ago - 4 comments
Labels: bug

#351 - ENH: better repr for Derivatives class

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

#350 - HTML report folder structure does not work for ongoing longitudinal out of the box

Issue - State: open - Opened by tjhendrickson 7 months ago - 3 comments
Labels: bug

#349 - Failure when combining confounds

Issue - State: open - Opened by mgxd 7 months ago
Labels: bug

#348 - Proposed change to the __repr__ method of the Derivatives class

Issue - State: closed - Opened by scott-huberty 7 months ago - 1 comment
Labels: enhancement

#347 - FIX: Raise informative error if no t1w or t2w found

Pull Request - State: closed - Opened by scott-huberty 8 months ago - 2 comments

#346 - Use symmetric dhcp templates

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

#345 - Replace `resource_filename` with `load_data`

Pull Request - State: closed - Opened by tsalo 8 months ago - 2 comments

#344 - Carpet plots for func runs in .html report

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

#343 - "'resource_filename' is not defined" error on multi-echo dataset

Issue - State: closed - Opened by tsalo 8 months ago - 1 comment
Labels: bug

#342 - FIX: Easier pyenv usage

Pull Request - State: closed - Opened by mgxd 8 months ago - 1 comment

#341 - Build(deps): Bump pillow from 10.0.1 to 10.2.0

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

#340 - Build(deps): Bump fonttools from 4.40.0 to 4.43.0

Pull Request - State: closed - Opened by dependabot[bot] 8 months ago - 2 comments
Labels: dependencies

#339 - Build(deps): Bump jinja2 from 3.0.1 to 3.1.3

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

#338 - DOC: Use correct argument flag

Pull Request - State: closed - Opened by mgxd 8 months ago

#337 - MAINT: Raise minimum to 3.10, bump actions

Pull Request - State: closed - Opened by mgxd 8 months ago - 1 comment

#336 - FIX: Catch nonexistent derivatives, clean up subworkflow logic

Pull Request - State: closed - Opened by mgxd 8 months ago

#335 - Verify `derivatives` exist

Issue - State: closed - Opened by mgxd 8 months ago
Labels: bug

#334 - Use fsLR reg sphere for MCRIBS morphometrics resampling

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

#333 - FIX: Multiple T2ws, coerce reference to string

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

#332 - nibabies fails with multiple T2 images

Issue - State: closed - Opened by chaselgrove 10 months ago - 2 comments
Labels: bug

#331 - Argument order matters to nibabies-wrapper

Issue - State: open - Opened by chaselgrove 10 months ago
Labels: bug

#329 - FIX: Clean up MCRIBS outputs

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

#328 - ENH: Use nireports report generation

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

#327 - Use correct xfm to resample tedana t2star map to std

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

#326 - chore: update to latest migas api

Pull Request - State: closed - Opened by mgxd 10 months ago

#324 - REL: 23.1.0

Pull Request - State: closed - Opened by mgxd 11 months ago - 4 comments

#323 - FIX: Connect derivatives mask to mcribs recon

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

#322 - DOC: Update `--derivatives` FAQ

Pull Request - State: closed - Opened by mgxd 11 months ago

#320 - T2* map not properly scaled to 2mm MNI

Issue - State: closed - Opened by moser297 11 months ago - 2 comments
Labels: bug

#319 - Build(deps): Bump urllib3 from 2.0.3 to 2.0.7

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

#318 - FIX: Py2 compatibility

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

#317 - Build(deps): Bump pillow from 9.5.0 to 10.0.1

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

#317 - Build(deps): Bump pillow from 9.5.0 to 10.0.1

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

#316 - ENH: Add separate workflow to run with a single anatomical

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