PyPI - junifer - Versions diffs - 0.0.6.dev536__tar.gz → 0.0.6.dev538__tar.gz - Mend

junifer 0.0.6.dev536tar.gz → 0.0.6.dev538tar.gz

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{junifer-0.0.6.dev536 → junifer-0.0.6.dev538}/PKG-INFO RENAMED Viewed

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: junifer
-Version: 0.0.6.dev536
+Version: 0.0.6.dev538
 Summary: JUelich NeuroImaging FEature extractoR
 Author-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>
 Maintainer-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>

{junifer-0.0.6.dev536 → junifer-0.0.6.dev538}/docs/whats_new.rst RENAMED Viewed

@@ -10,6 +10,206 @@ What's new
 .. towncrier release notes start
+Junifer 0.0.6 (2025-03-24)
+--------------------------
+Bugfixes
+^^^^^^^^
+- Fix ``mri_binarize`` command preparation for structures with multiple indices
+  in :class:`.BrainPrint` by `Fede Raimondo`_ (:gh:`356`)
+- Enable ``spike`` mapping from ``adhoc`` to ``fmriprep`` for
+  :class:`.fMRIPrepConfoundRemover` by `Leonard Sasse`_ and `Synchon Mandal`_
+  (:gh:`360`)
+- Correct listing for :class:`.fMRIPrepConfoundRemover` in
+  ``junifer.pipeline.registry`` by `Synchon Mandal`_ (:gh:`369`)
+- Add ``'emomatching'`` task to :class:`.DataladAOMICPIOP2` by `Leonard Sasse`_
+  (:gh:`370`)
+- Use correct return code for ANTs commands while checking presence of external
+  commands by `Synchon Mandal`_ (:gh:`385`)
+- Use the :class:`junifer.pipeline.WorkDirManager` for temporary directories in
+  the :class:`.DataladDataGrabber` by `Fede Raimondo`_ (:gh:`386`)
+- Fix coordinates space transformation using ANTs by `Synchon Mandal`_
+  (:gh:`388`)
+- Fix metadata update for :class:`.MultipleDataGrabber` and adjust
+  :meth:`.PatternDataGrabber.get_elements` to check ``list``-like data type
+  values by `Fede Raimondo`_ and `Synchon Mandal`_ (:gh:`398`)
+- Use correct file output suffices for AFNI-based markers by `Synchon Mandal`_
+  (:gh:`409`)
+- Fix ``t_r`` tampering by :func:`nilearn.image.clean_img` in
+  :class:`.fMRIPrepConfoundRemover` by `Fede Raimondo`_ and `Synchon Mandal`_
+  (:gh:`420`)
+- Fix coordinates fetching for Power and Dosenbach from ``junifer-data`` by
+  `Synchon Mandal`_ (:gh:`431`)
+- Remove ``Power2013`` from :class:`.CoordinatesRegistry` by `Synchon Mandal`_
+  (:gh:`436`)
+- Correct dispatch methods for ``*_data()`` functions by `Synchon Mandal`_
+  (:gh:`439`)
+API Changes
+^^^^^^^^^^^
+- ``get_parcellation``, ``load_parcellation``, ``list_parcellation``,
+  ``register_parcellation`` , ``get_coordinates``, ``load_coordinates``,
+  ``list_coordinates``, ``register_coordinates``, ``get_mask``, ``load_mask``,
+  ``list_mask``, ``register_mask`` have been removed in favour of
+  :func:`.get_data`, :func:`.load_data`, :func:`.list_data`,
+  :func:`.register_data` and :func:`.deregister_data` by `Synchon Mandal`_
+  (:gh:`387`)
+- :class:`.SpaceWarper`'s ``using`` now supports ``"auto"`` allowing auto tool
+  selection based on DataGrabber specification by `Synchon Mandal`_ (:gh:`390`)
+- Allow ``workdir`` to also be a mapping in YAML, with ``path`` and ``cleanup``
+  keys by `Synchon Mandal`_ (:gh:`402`)
+- Add ``source`` parameter and resurrect ``extra_input`` parameter for
+  ``compute_brain_mask`` by `Fede Raimondo`_ (:gh:`404`)
+- ``native_t1w`` parameter has been replaced with ``space`` to allow
+  :class:`.DataladAOMICID1000`, :class:`.DataladAOMICPIOP1` and
+  :class:`.DataladAOMICPIOP2` to fetch data in all available spaces by `Fede
+  Raimondo`_ (:gh:`405`)
+- :meth:`.ParcellationRegistry.load` now has a new parameter ``target_space``
+  to provide parcellation in highest possible resolution if it does not match
+  the space of the parcellation by `Fede Raimondo`_ and `Synchon Mandal`_
+  (:gh:`411`)
+- Introduce new CLI parameter ``--verbose-datalad`` to control ``datalad``'s
+  logging handler by `Fede Raimondo`_ (:gh:`412`)
+- ``target_data`` parameter of :func:`.get_template` has been replaced with
+  ``target_img`` by `Fede Raimondo`_ (:gh:`413`)
+- Add ``template_space`` parameter for ``compute_brain_mask`` and
+  ``resolution`` parameter for :func:`.get_template` by `Fede Raimondo`_
+  (:gh:`415`)
+- Add ``scrub``, ``fd_threshold`` and ``std_vars_threshold`` parameters to
+  :class:`.fMRIPrepConfoundRemover` and allow ``"scrubbing"`` key of type bool
+  for ``strategy`` by `Synchon Mandal`_ (:gh:`421`)
+Improved Documentation
+^^^^^^^^^^^^^^^^^^^^^^
+- Improve Sphinx configuration and extensions by `Synchon Mandal`_ (:gh:`358`)
+- Add documentation on analysing extracted features by `Synchon Mandal`_
+  (:gh:`359`)
+- Add documentation on how to make a ``junifer`` plugin by `Synchon Mandal`_
+  (:gh:`366`)
+Enhancements
+^^^^^^^^^^^^
+- Raise error when partial or complete element selectors are invalid when
+  running the pipeline by `Synchon Mandal`_ (:gh:`319`)
+- Add support for Spearman's correlation in
+  :class:`.JuniferConnectivityMeasure` by `Leonard Sasse`_ (:gh:`335`)
+- Set proper stdout encoding for :func:`.run_ext_cmd` to ease human readability
+  by `Fede Raimondo`_ (:gh:`357`)
+- Adapt usage of ``junifer-data`` client API to fetch parcellations, masks,
+  coordinates and xfms by `Synchon Mandal`_ (:gh:`363`)
+- Allow for external python files in the ``with`` section of the yaml to import
+  other files by `Fede Raimondo`_ (:gh:`367`)
+- Use ``datalad``-enabled repository for template space transform files in
+  :func:`.get_xfm` by `Synchon Mandal`_ (:gh:`368`)
+- Add a ``cleanup`` parameter to the :class:`junifer.pipeline.WorkDirManager`,
+  which allows to disable cleaning up temporary directories by `Fede Raimondo`_
+  (:gh:`389`)
+- Update ``Warp`` data type to be a list of dictionaries and adapt to allow
+  multiple transforms to be specified by `Synchon Mandal`_ (:gh:`390`)
+- Refactor the masking logic in the pipeline to account for and optimise space
+  transformations and merges by `Synchon Mandal`_ and `Fede Raimondo`_
+  (:gh:`395`)
+- Allow ``workdir`` mapping form in YAML for easy debugging of single element
+  ``run`` by disabling cleanup of :class:`junifer.pipeline.WorkDirManager` by
+  `Synchon Mandal`_ (:gh:`402`)
+- Use :func:`junifer.utils.ConfigManager` to skip time-consuming dataset ID and
+  dirty checks for :class:`.DataladDataGrabber` by `Fede Raimondo`_ (:gh:`403`)
+- Enable ``compute_brain_mask`` to use subject-specific probseg files by `Fede
+  Raimondo`_ (:gh:`404`)
+- Update :class:`.DataladAOMICID1000`, :class:`.DataladAOMICPIOP1` and
+  :class:`.DataladAOMICPIOP2` to fetch data in all available spaces by `Fede
+  Raimondo`_ (:gh:`405`)
+- Update Preprocessors to sync data their paths so that the results are
+  idempotent by `Synchon Mandal`_ (:gh:`408`)
+- Ease asset storage for AFNI-based markers by `Synchon Mandal`_ (:gh:`409`)
+- Refactor the parcellation logic in the pipeline to account for and optimise
+  space transformations and merges by `Synchon Mandal`_ and `Fede Raimondo`_
+  (:gh:`411`)
+- Adapt mask warpers to use correct interpolation method based on the type of
+  data by `Synchon Mandal`_ and `Fede Raimondo`_ (:gh:`416`)
+- Adapt usage of ``junifer-data`` DataLad dataset to fetch parcellations,
+  masks, coordinates and xfms by `Synchon Mandal`_ (:gh:`418`)
+- Add scrubbing support to :class:`.fMRIPrepConfoundRemover` by `Synchon
+  Mandal`_ (:gh:`421`)
+- Add commit SHA check for ``junifer_data`` to simplify data fetching by `Fede
+  Raimondo`_ (:gh:`434`)
+Features
+^^^^^^^^
+- Introduce :func:`.normalize` and :func:`.reweight` functions for downstream
+  BrainPrint analysis in :mod:`.onthefly.brainprint` by `Synchon Mandal`_
+  (:gh:`354`)
+- Introduce :class:`junifer.pipeline.PipelineComponentRegistry` to centralise
+  pipeline component management by `Synchon Mandal`_ (:gh:`362`)
+- Add support for plugins by `Synchon Mandal`_ (:gh:`366`)
+- Introduce :class:`junifer.data.CoordinatesRegistry`,
+  :class:`junifer.data.ParcellationRegistry` and
+  :class:`junifer.data.MaskRegistry` to centralise data management by `Synchon
+  Mandal`_ (:gh:`387`)
+- Introduce ``junifer.typing`` sub-module to organise internal and external
+  type hints by `Synchon Mandal`_ (:gh:`392`)
+- Introduce :class:`junifer.utils.ConfigManager` singleton class to manage
+  global configuration by `Fede Raimondo`_ (:gh:`401`)
+- Introduce ``BOLD.reference`` nested type and adapt :class:`.SpaceWarper` and
+  necessary data components by `Fede Raimondo`_ (:gh:`407`)
+- Allow masks to be warped, if found, in :class:`.SpaceWarper` by `Synchon
+  Mandal`_ (:gh:`408`)
+- Add support for coloured :class:`logging.Formatter` to use with ``junifer``'s
+  :class:`logging.StreamHandler` based on environment by `Fede Raimondo`_
+  (:gh:`412`)
+- Allow storage of 2D timeseries, currently only supported by
+  HDF5FeatureStorage by `Fede Raimondo`_ (:gh:`422`)
+Miscellaneous
+^^^^^^^^^^^^^
+- Adopt lazy-import mechanism for the package by `Synchon Mandal`_ (:gh:`355`)
+- Refactor ``api`` sub-package and introduce new ``cli`` sub-package by
+  `Synchon Mandal`_ (:gh:`361`)
+- Add ``junifer-data`` as a dependency by `Synchon Mandal`_ (:gh:`363`)
+- Drop support for Python 3.8, add support for Python 3.13 and make Python 3.12
+  the base for code coverage by `Synchon Mandal`_ (:gh:`372`)
+- Add Dockerfile for docs CI and a corresponding action for building and
+  publishing the image by `Synchon Mandal`_ (:gh:`373`)
+- Adopt usage of custom docs CI image for building and previewing docs actions
+  by `Synchon Mandal`_ (:gh:`374`)
+- Update Dependabot GitHub Action to support groups by `Synchon Mandal`_
+  (:gh:`380`)
+- Add Dockerfile for CI and a corresponding action for building and publishing
+  the image by `Synchon Mandal`_ (:gh:`382`)
+- Adopt usage of custom CI image for testing junifer action by `Synchon
+  Mandal`_ (:gh:`383`)
+- Improve docs publishing action and add a manual trigger for it by `Synchon
+  Mandal`_ (:gh:`384`)
+- Refactor ``Singleton`` class to use a metaclass instead of a class decorator
+  by `Fede Raimondo`_ (:gh:`391`)
+- Update type hints across codebase to be Python>=3.9 compatible by `Synchon
+  Mandal`_ (:gh:`393`)
+- Update Docker image recipes and GitHub Actions workflows by `Synchon Mandal`_
+  (:gh:`396`)
+- Simplify logic for parcellation and mask space warping by `Synchon Mandal`_
+  (:gh:`414`)
+- Remove ``httpx`` as a dependency by `Synchon Mandal`_ (:gh:`418`)
+- Fix coverage in CI by `Fede Raimondo`_ (:gh:`424`)
+- Use ``junifer-data`` in CI images by `Synchon Mandal`_ (:gh:`427`)
+- Improve GitHub Actions workflows by `Synchon Mandal`_ (:gh:`428`)
+- Bump ``junifer-data`` to ``v2`` for CI workflows, remove ``Power`` and add
+  ``Seitzman2018`` to :class:`.CoordinatesRegistry` by `Synchon Mandal`_
+  (:gh:`437`)
+- Bump ``junifer-data`` to ``v2`` for Docker images by `Synchon Mandal`_
+  (:gh:`438`)
 Junifer 0.0.5 (2024-07-22)
 --------------------------

{junifer-0.0.6.dev536 → junifer-0.0.6.dev538}/junifer/_version.py RENAMED Viewed

@@ -17,5 +17,5 @@ __version__: str
 __version_tuple__: VERSION_TUPLE
 version_tuple: VERSION_TUPLE
-__version__ = version = '0.0.6.dev536'
-__version_tuple__ = version_tuple = (0, 0, 6, 'dev536')
+__version__ = version = '0.0.6.dev538'
+__version_tuple__ = version_tuple = (0, 0, 6, 'dev538')

{junifer-0.0.6.dev536 → junifer-0.0.6.dev538}/junifer.egg-info/PKG-INFO RENAMED Viewed

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: junifer
-Version: 0.0.6.dev536
+Version: 0.0.6.dev538
 Summary: JUelich NeuroImaging FEature extractoR
 Author-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>
 Maintainer-email: Fede Raimondo <f.raimondo@fz-juelich.de>, Synchon Mandal <s.mandal@fz-juelich.de>

{junifer-0.0.6.dev536 → junifer-0.0.6.dev538}/junifer.egg-info/SOURCES.txt RENAMED Viewed

@@ -63,82 +63,6 @@ docs/api/testing.rst
 docs/api/utils.rst
 docs/changes/contributors.inc
 docs/changes/newsfragments/.gitignore
-docs/changes/newsfragments/319.enh
-docs/changes/newsfragments/335.enh
-docs/changes/newsfragments/354.feature
-docs/changes/newsfragments/355.misc
-docs/changes/newsfragments/356.bugfix
-docs/changes/newsfragments/357.enh
-docs/changes/newsfragments/358.doc
-docs/changes/newsfragments/359.doc
-docs/changes/newsfragments/360.bugfix
-docs/changes/newsfragments/361.misc
-docs/changes/newsfragments/362.feature
-docs/changes/newsfragments/363.enh
-docs/changes/newsfragments/363.misc
-docs/changes/newsfragments/366.doc
-docs/changes/newsfragments/366.feature
-docs/changes/newsfragments/367.enh
-docs/changes/newsfragments/368.enh
-docs/changes/newsfragments/369.bugfix
-docs/changes/newsfragments/370.bugfix
-docs/changes/newsfragments/372.misc
-docs/changes/newsfragments/373.misc
-docs/changes/newsfragments/374.misc
-docs/changes/newsfragments/380.misc
-docs/changes/newsfragments/382.misc
-docs/changes/newsfragments/383.misc
-docs/changes/newsfragments/384.misc
-docs/changes/newsfragments/385.bugfix
-docs/changes/newsfragments/386.bugfix
-docs/changes/newsfragments/387.change
-docs/changes/newsfragments/387.feature
-docs/changes/newsfragments/388.bugfix
-docs/changes/newsfragments/389.enh
-docs/changes/newsfragments/390.change
-docs/changes/newsfragments/390.enh
-docs/changes/newsfragments/391.misc
-docs/changes/newsfragments/392.feature
-docs/changes/newsfragments/393.misc
-docs/changes/newsfragments/395.enh
-docs/changes/newsfragments/396.misc
-docs/changes/newsfragments/398.bugfix
-docs/changes/newsfragments/401.feature
-docs/changes/newsfragments/402.change
-docs/changes/newsfragments/402.enh
-docs/changes/newsfragments/403.enh
-docs/changes/newsfragments/404.change
-docs/changes/newsfragments/404.enh
-docs/changes/newsfragments/405.change
-docs/changes/newsfragments/405.enh
-docs/changes/newsfragments/407.feature
-docs/changes/newsfragments/408.enh
-docs/changes/newsfragments/408.feature
-docs/changes/newsfragments/409.bugfix
-docs/changes/newsfragments/409.enh
-docs/changes/newsfragments/411.change
-docs/changes/newsfragments/411.enh
-docs/changes/newsfragments/412.change
-docs/changes/newsfragments/412.feature
-docs/changes/newsfragments/413.change
-docs/changes/newsfragments/414.misc
-docs/changes/newsfragments/415.change
-docs/changes/newsfragments/416.enh
-docs/changes/newsfragments/418.enh
-docs/changes/newsfragments/418.misc
-docs/changes/newsfragments/420.bugfix
-docs/changes/newsfragments/421.change
-docs/changes/newsfragments/421.enh
-docs/changes/newsfragments/422.feature
-docs/changes/newsfragments/424.misc
-docs/changes/newsfragments/427.misc
-docs/changes/newsfragments/428.misc
-docs/changes/newsfragments/431.bugfix
-docs/changes/newsfragments/434.enh
-docs/changes/newsfragments/436.bugfix
-docs/changes/newsfragments/437.misc
-docs/changes/newsfragments/438.misc
-docs/changes/newsfragments/439.bugfix
 docs/extending/coordinates.rst
 docs/extending/datagrabber.rst
 docs/extending/dependencies.rst

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1	- Raise error when partial or complete element selectors are invalid when running the pipeline by `Synchon Mandal`_

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1	- Add support for Spearman's correlation in :class:`.JuniferConnectivityMeasure` by `Leonard Sasse`_

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1	- Introduce :func:`.normalize` and :func:`.reweight` functions for downstream BrainPrint analysis in :mod:`.onthefly.brainprint` by `Synchon Mandal`_

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1	- Adopt lazy-import mechanism for the package by `Synchon Mandal`_

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1	- Fix ``mri_binarize`` command preparation for structures with multiple indices in :class:`.BrainPrint` by `Fede Raimondo`_

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1	- Set proper stdout encoding for :func:`.run_ext_cmd` to ease human readability by `Fede Raimondo`_

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1	- Improve Sphinx configuration and extensions by `Synchon Mandal`_

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1	- Add documentation on analysing extracted features by `Synchon Mandal`_

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1	- Enable ``spike`` mapping from ``adhoc`` to ``fmriprep`` for :class:`.fMRIPrepConfoundRemover` by `Leonard Sasse`_ and `Synchon Mandal`_

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1	- Refactor ``api`` sub-package and introduce new ``cli`` sub-package by `Synchon Mandal`_

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1	- Introduce :class:`junifer.pipeline.PipelineComponentRegistry` to centralise pipeline component management by `Synchon Mandal`_

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1	- Adapt usage of ``junifer-data`` client API to fetch parcellations, masks, coordinates and xfms by `Synchon Mandal`_

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1	- Add documentation on how to make a ``junifer`` plugin by `Synchon Mandal`_

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1	- Add support for plugins by `Synchon Mandal`_

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1	- Use ``datalad``-enabled repository for template space transform files in :func:`.get_xfm` by `Synchon Mandal`_

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1	- Correct listing for :class:`.fMRIPrepConfoundRemover` in ``junifer.pipeline.registry`` by `Synchon Mandal`_

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1	- Add ``'emomatching'`` task to :class:`.DataladAOMICPIOP2` by `Leonard Sasse`_

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1	- Drop support for Python 3.8, add support for Python 3.13 and make Python 3.12 the base for code coverage by `Synchon Mandal`_

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1	- Add Dockerfile for docs CI and a corresponding action for building and publishing the image by `Synchon Mandal`_

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1	- Adopt usage of custom docs CI image for building and previewing docs actions by `Synchon Mandal`_

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1	- Update Dependabot GitHub Action to support groups by `Synchon Mandal`_

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1	- Add Dockerfile for CI and a corresponding action for building and publishing the image by `Synchon Mandal`_

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1	- Improve docs publishing action and add a manual trigger for it by `Synchon Mandal`_

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1	- Use correct return code for ANTs commands while checking presence of external commands by `Synchon Mandal`_

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1	- Use the :class:`junifer.pipeline.WorkDirManager` for temporary directories in the :class:`.DataladDataGrabber` by `Fede Raimondo`_

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@@ -1 +0,0 @@

- ``get_parcellation``, ``load_parcellation``, ``list_parcellation``, ``register_parcellation`` , ``get_coordinates``, ``load_coordinates``, ``list_coordinates``, ``register_coordinates``, ``get_mask``, ``load_mask``, ``list_mask``, ``register_mask`` have been removed in favour of :func:`.get_data`, :func:`.load_data`, :func:`.list_data`, :func:`.register_data` and :func:`.deregister_data` by `Synchon Mandal`_

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1	- Introduce :class:`junifer.data.CoordinatesRegistry`, :class:`junifer.data.ParcellationRegistry` and :class:`junifer.data.MaskRegistry` to centralise data management by `Synchon Mandal`_

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1	- Fix coordinates space transformation using ANTs by `Synchon Mandal`_

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1	- Add a ``cleanup`` parameter to the :class:`junifer.pipeline.WorkDirManager`, which allows to disable cleaning up temporary directories by `Fede Raimondo`_

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1	- :class:`.SpaceWarper`'s ``using`` now supports ``"auto"`` allowing auto tool selection based on DataGrabber specification by `Synchon Mandal`_

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1	- Update ``Warp`` data type to be a list of dictionaries and adapt to allow multiple transforms to be specified by `Synchon Mandal`_

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1	- Refactor ``Singleton`` class to use a metaclass instead of a class decorator by `Fede Raimondo`_

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1	- Introduce ``junifer.typing`` sub-module to organise internal and external type hints by `Synchon Mandal`_

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1	- Update type hints across codebase to be Python>=3.9 compatible by `Synchon Mandal`_

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1	- Refactor the masking logic in the pipeline to account for and optimise space transformations and merges by `Synchon Mandal`_ and `Fede Raimondo`_

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1	- Update Docker image recipes and GitHub Actions workflows by `Synchon Mandal`_

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1	- Fix metadata update for :class:`.MultipleDataGrabber` and adjust :meth:`.PatternDataGrabber.get_elements` to check ``list``-like data type values by `Fede Raimondo`_ and `Synchon Mandal`_

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1	- Introduce :class:`junifer.utils.ConfigManager` singleton class to manage global configuration by `Fede Raimondo`_

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1	- Allow ``workdir`` to also be a mapping in YAML, with ``path`` and ``cleanup`` keys by `Synchon Mandal`_

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1	- Allow ``workdir`` mapping form in YAML for easy debugging of single element ``run`` by disabling cleanup of :class:`junifer.pipeline.WorkDirManager` by `Synchon Mandal`_

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1	- Use :func:`junifer.utils.ConfigManager` to skip time-consuming dataset ID and dirty checks for :class:`.DataladDataGrabber` by `Fede Raimondo`_

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1	- Add ``source`` parameter and resurrect ``extra_input`` parameter for ``compute_brain_mask`` by `Fede Raimondo`_

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1	- Enable ``compute_brain_mask`` to use subject-specific probseg files by `Fede Raimondo`_

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1	- ``native_t1w`` parameter has been replaced with ``space`` to allow :class:`.DataladAOMICID1000`, :class:`.DataladAOMICPIOP1` and :class:`.DataladAOMICPIOP2` to fetch data in all available spaces by `Fede Raimondo`_

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1	- Update :class:`.DataladAOMICID1000`, :class:`.DataladAOMICPIOP1` and :class:`.DataladAOMICPIOP2` to fetch data in all available spaces by `Fede Raimondo`_

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1	- Introduce ``BOLD.reference`` nested type and adapt :class:`.SpaceWarper` and necessary data components by `Fede Raimondo`_

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1	- Update Preprocessors to sync data their paths so that the results are idempotent by `Synchon Mandal`_

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1	- Allow masks to be warped, if found, in :class:`.SpaceWarper` by `Synchon Mandal`_

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1	- Use correct file output suffices for AFNI-based markers by `Synchon Mandal`_

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1	- Ease asset storage for AFNI-based markers by `Synchon Mandal`_

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1	- :meth:`.ParcellationRegistry.load` now has a new parameter ``target_space`` to provide parcellation in highest possible resolution if it does not match the space of the parcellation by `Fede Raimondo`_ and `Synchon Mandal`_

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1	- Refactor the parcellation logic in the pipeline to account for and optimise space transformations and merges by `Synchon Mandal`_ and `Fede Raimondo`_

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1	- Introduce new CLI parameter ``--verbose-datalad`` to control ``datalad``'s logging handler by `Fede Raimondo`_

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1	- Add support for coloured :class:`logging.Formatter` to use with ``junifer``'s :class:`logging.StreamHandler` based on environment by `Fede Raimondo`_

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1	- ``target_data`` parameter of :func:`.get_template` has been replaced with ``target_img`` by `Fede Raimondo`_

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1	- Simplify logic for parcellation and mask space warping by `Synchon Mandal`_

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1	- Add ``template_space`` parameter for ``compute_brain_mask`` and ``resolution`` parameter for :func:`.get_template` by `Fede Raimondo`_

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1	- Adapt mask warpers to use correct interpolation method based on the type of data by `Synchon Mandal`_ and `Fede Raimondo`_

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1	- Adapt usage of ``junifer-data`` DataLad dataset to fetch parcellations, masks, coordinates and xfms by `Synchon Mandal`_

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1	- Remove ``httpx`` as a dependency by `Synchon Mandal`_

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1	- Fix ``t_r`` tampering by :func:`nilearn.image.clean_img` in :class:`.fMRIPrepConfoundRemover` by `Fede Raimondo`_ and `Synchon Mandal`_

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1	- Add ``scrub``, ``fd_threshold`` and ``std_vars_threshold`` parameters to :class:`.fMRIPrepConfoundRemover` and allow ``"scrubbing"`` key of type bool for ``strategy`` by `Synchon Mandal`_

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1	- Add scrubbing support to :class:`.fMRIPrepConfoundRemover` by `Synchon Mandal`_

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1	- Allow storage of 2D timeseries, currently only supported by HDF5FeatureStorage by `Fede Raimondo`_

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1	- Fix coverage in CI by `Fede Raimondo`_

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1	- Use ``junifer-data`` in CI images by `Synchon Mandal`_

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1	- Improve GitHub Actions workflows by `Synchon Mandal`_

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1	- Fix coordinates fetching for Power and Dosenbach from ``junifer-data`` by `Synchon Mandal`_

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1	- Add commit SHA check for ``junifer_data`` to simplify data fetching by `Fede Raimondo`_

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1	- Remove ``Power2013`` from :class:`.CoordinatesRegistry` by `Synchon Mandal`_

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1	- Bump ``junifer-data`` to ``v2`` for CI workflows, remove ``Power`` and add ``Seitzman2018`` to :class:`.CoordinatesRegistry` by `Synchon Mandal`_