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ENH: parse seg- entities from dseg or probseg files#1172

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effigies merged 3 commits intobids-standard:masterfrom
cookpa:seg_derivative_entities
Sep 23, 2025
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ENH: parse seg- entities from dseg or probseg files#1172
effigies merged 3 commits intobids-standard:masterfrom
cookpa:seg_derivative_entities

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@cookpa cookpa commented Sep 22, 2025

Fixing #1171

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codecov bot commented Sep 22, 2025

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 89.43%. Comparing base (364a42c) to head (1121464).
⚠️ Report is 21 commits behind head on master.

Additional details and impacted files
@@            Coverage Diff             @@
##           master    #1172      +/-   ##
==========================================
+ Coverage   89.40%   89.43%   +0.02%     
==========================================
  Files          66       66              
  Lines        7252     7252              
  Branches     1145     1145              
==========================================
+ Hits         6484     6486       +2     
+ Misses        559      557       -2     
  Partials      209      209              

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@effigies effigies force-pushed the seg_derivative_entities branch from c76bb6b to 31c3c0e Compare September 23, 2025 15:53
cookpa and others added 2 commits September 23, 2025 12:40
Use long entity name

Co-authored-by: Chris Markiewicz <effigies@gmail.com>
Use long entity name

Co-authored-by: Chris Markiewicz <effigies@gmail.com>
@effigies effigies merged commit 39fa406 into bids-standard:master Sep 23, 2025
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effigies added a commit that referenced this pull request Sep 24, 2025
Version 0.20.0 (September 24, 2025)

New feature release in the 0.20.x series.

This release finalizes some deprecations that were started in the 0.7 and 0.14 series.
In particular, passing indexer arguments to ``BIDSLayout`` and disabling
``absolute_paths`` mode in ``BIDSLayout()`` or ``BIDSLayout.get()`` will now error.
To adjust indexing behavior, create an explicit ``BIDSLayoutIndexer()`` and pass
``BIDSLayout(..., indexer=indexer)``.
To access relative paths, use the ``BIDSFile.relative_path`` property on
``BIDSLayout.get()`` return values.

* FIX: Check for attribute that can be absent before assigning (#1165)
* FIX: Accommodate deprecations in the upcoming Pandas 3 release (#1173)
* FIX: Repaired convolution issue that arises when onset values are repeated (#1133)
* ENH: StatsModels: Add `invalid_inputs` parameter to allow dropping of missing data columns to run nodes (#1145)
* ENH: Add missing root-level path patterns (#1169)
* ENH: Parse ``seg-`` entities from dseg or probseg files (#1172)
* DOC: Update link to derivatives config file (#1132)
* MNT: Address warnings produced by pybids and dependencies (#1136)
* MNT: Lock test environment, update with dependabot (#1134)
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2 participants