TEST: Centaurz2#16

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jhuguetn wants to merge 76 commits into

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Commits on Nov 5, 2025

REF moved setup_docker_xnat_test to user_and_project_management_test

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ENH: resource-based functions

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Add a wildcard in the validator name when collecting tests

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ENH: more derivatives

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FIX validator

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ENH: freesurfer6 resource-based functions

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REF: validator-based functions now raise Exceptions if encounter issues

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ENH normMean in freesurfer

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Close open file handle and format date as ISO 8601
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PEP8 (bbrc)

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FIX: download_snapshot now supports jpg/png and creates multiple snapshots

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added doc

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Added multimodal SPM to XNAT_RESOURCE_NAMES

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TESTS Added tests for resource-based functions

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bbrc-pyxnat (setup.py)

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Added pymupdf to requirements-dev

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ENH: added PET_QUANTIFICATION

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ENH: BAMOS

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FIX: requirements/setup.py

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ENH: added PET FTM/FDG

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ENH: landau_signature returns all the different areas (not only the composite)

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ENH: make derivative compatible with FreeSurfer 7
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ENH: FreeSurfer 7 tests added
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REF: FreeSurfer 6 has no amygdala segmentation results available
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REF: delete downloaded temporary files
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ENH: add CI tests for SPM12 and CAT12 resource volumes
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FIX: BAMOS test case modified, update the volume value
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ENH DTIFIT download_maps

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BAMOS

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REF: remove _load_dummy_

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FIX: isna() gives an error in a query

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ENH: DONSURF

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REF: unlink -> remove

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DOC: docstrings

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REF: removed useless code

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FIX: fixing variable name (shadowed id)

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FIX: error type now more informative

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TEST: checks that resulting figure is of type Figure

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REF: less ambiguous import

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REF: freesurfer.aparc code linting

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ENH: expose results from FreeSurfer7.2 extra segmentation modules
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REF: reduce redundancy
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ENH: BASIL
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FIX: close file descriptor
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REF: shorten basil regional_stats() to stats()
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REF: replace if/else statement for a dict
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ENH: include a filepath column for metrics provenance
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FIX: adjust dataframe shape
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REF: clearer column labels (BASIL derivatives)
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ENH: qsmxt derivative
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ENH: add CI test for qsmxt stats
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FIX: update qsmxt.stats docstring content
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FIX: PyMuPDF Pixmap methods renamed (https://github.com/pymupdf/PyMuPDF/issues/1041)
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FEAT: mrtrix3 derivative
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FEAT: xcp-d derivative
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FIX: docstring convention (PEP 257)
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REF: set atlas labels as index and columns
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FEAT: 3dasl derivative
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TEST: 3dasl derivative tests
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FEAT: add dwifslpreproc_dtifit resource (#196)

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ENH: improve pet_fdg and pet_ftm derivatives (#197)

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FIX: adjust float values on regional_quantification tests (#198)
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FEAT: alps derivative
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FIX: disable regex and use python engine in regional_quantification query
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REF: replace shell move command with OS-neutral shutil.move
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FEAT: BAMOS arterial territories derivative (#200)

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FEAT: Allow retrieving aparc stats by specific DONSURF metric
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FIX: Do not discard first snapshot image assuming is the logo
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DOCS: DONSURF aparc docstring
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REF: deprecation of pydicom.read_file
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FEAT: centaurz derivatives

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REF: Remove legacy Python 2 import
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REF: refine centaurz() to filter by region and optimization level
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REF: set default optimization to "harmonized"
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FEAT: CI test_centaurz

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REF: simplify and generalize centaurz quantification test
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