[MAINT]: Release 0.0.3 #246
25 changed files with 97 additions and 31 deletions
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Expose ``types`` parameter for :class:`.DataladAOMICID1000`, :class:`.DataladAOMICPIOP1`, :class:`.DataladAOMICPIOP2` and :class:`.JuselessUCLA` by `Synchon Mandal`_
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Change validation of ``types`` against ``patterns`` to allow a subset of ``patterns``'s types to be used for ``DataGrabber`` data fetch by `Synchon Mandal`_
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Add ``AICHA v1`` and ``AICHA v2`` parcellations to ``junifer.data`` by `Synchon Mandal`_
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Add ``Shen 2013``, ``Shen 2015`` and ``Shen 2019`` parcellations to ``junifer.data`` by `Synchon Mandal`_
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Improve general prose, formatting and code blocks in docs and set line length for ``.rst`` files to 80 by `Synchon Mandal`_
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Rename ``junifer.testing.datagrabbers.SPMAuditoryTestingDatagrabber`` to :class:`.SPMAuditoryTestingDataGrabber` and ``junifer.testing.datagrabbers.OasisVBMTestingDatagrabber`` to :class:`.OasisVBMTestingDataGrabber` by `Synchon Mandal`_
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Rename instances of "Datagrabber" to "DataGrabber" especially in ``junifer.testing`` to be consistent by `Synchon Mandal`_
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Enable YAML 1.2 support and allow multiline strings in YAML which would not work earlier by `Synchon Mandal`_
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Use ``ruamel.yaml`` instead of ``pyyaml`` as YAML I/O library by `Synchon Mandal`_
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Add ``Yan 2023`` parcellation to ``junifer.data`` by `Synchon Mandal`_
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@ -1 +0,0 @@
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Adopt ``DataGrabber`` consistently throughout codebase to match with the documentation by `Synchon Mandal`_
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@ -1 +0,0 @@
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Adopt ``DataReader`` consistently throughout codebase to match with the documentation by `Synchon Mandal`_
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@ -1 +0,0 @@
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Consistent docstrings for pytest fixtures used in the test suite by `Synchon Mandal`_
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@ -1 +0,0 @@
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Adopt ``ruff`` as the only linter for the codebase by `Synchon Mandal`_
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@ -1 +0,0 @@
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Improve ``codespell`` support by fixing typos in documentation by `Synchon Mandal`_
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Adopt ``pre-commmit`` for adding and managing git pre-commit hooks by `Synchon Mandal`_
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Enable ``stdout`` and ``stderr`` capture for AFNI commands by `Synchon Mandal`_
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Handle ``datalad.IncompleteResultsError`` exception for partial clone in :class:`.DataladDataGrabber` by `Synchon Mandal`_
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Add :meth:`.BaseFeatureStorage.read` method for storage-like objects by `Synchon Mandal`_
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Adapt :meth:`.HDF5FeatureStorage.read_df` due to addition of :meth:`.HDF5FeatureStorage.read` by `Synchon Mandal`_
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Introduce :mod:`.onthefly` sub-module and :func:`.read_transform` for quick transform operations on stored data by `Synchon Mandal`_
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Improve docstrings and code style and parametrize remaining tests for ``junifer.data.parcellations`` by `Synchon Mandal`_
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Bump ``numpy`` version constraint to ``>=1.24,<1.26`` by `Synchon Mandal`_
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Update ``julearn`` example under ``examples`` by `Synchon Mandal`_
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@ -8,6 +8,91 @@ What's new
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.. towncrier release notes start
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.. towncrier release notes start
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Junifer 0.0.3 (2023-07-21)
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---------------------------------
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Bugfixes
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^^^^^^^^
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- Enable YAML 1.2 support and allow multiline strings in YAML which would not
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work earlier by `Synchon Mandal`_ (:gh:`223`)
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- Handle ``datalad.IncompleteResultsError`` exception for partial clone in
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:class:`.DataladDataGrabber` by `Synchon Mandal`_ (:gh:`235`)
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API Changes
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^^^^^^^^^^^
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- Expose ``types`` parameter for :class:`.DataladAOMICID1000`,
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:class:`.DataladAOMICPIOP1`, :class:`.DataladAOMICPIOP2` and
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:class:`.JuselessUCLA` by `Synchon Mandal`_ (:gh:`132`)
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- Rename ``junifer.testing.datagrabbers.SPMAuditoryTestingDatagrabber`` to
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:class:`.SPMAuditoryTestingDataGrabber` and
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``junifer.testing.datagrabbers.OasisVBMTestingDatagrabber`` to
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:class:`.OasisVBMTestingDataGrabber` by `Synchon Mandal`_ (:gh:`222`)
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- Add :meth:`.BaseFeatureStorage.read` method for storage-like objects by
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`Synchon Mandal`_ (:gh:`236`)
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Improved Documentation
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^^^^^^^^^^^^^^^^^^^^^^
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- Improve general prose, formatting and code blocks in docs and set line length
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for ``.rst`` files to 80 by `Synchon Mandal`_ (:gh:`220`)
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- Update ``julearn`` example under ``examples`` by `Synchon Mandal`_
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(:gh:`242`)
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Enhancements
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^^^^^^^^^^^^
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- Change validation of ``types`` against ``patterns`` to allow a subset of
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``patterns``'s types to be used for ``DataGrabber`` data fetch by `Synchon
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Mandal`_ (:gh:`132`)
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- Rename instances of "Datagrabber" to "DataGrabber" especially in
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``junifer.testing`` to be consistent by `Synchon Mandal`_ (:gh:`222`)
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- Use ``ruamel.yaml`` instead of ``pyyaml`` as YAML I/O library by `Synchon
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Mandal`_ (:gh:`223`)
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- Adopt ``DataGrabber`` consistently throughout codebase to match with the
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documentation by `Synchon Mandal`_ (:gh:`226`)
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- Adopt ``DataReader`` consistently throughout codebase to match with the
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documentation by `Synchon Mandal`_ (:gh:`227`)
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- Enable ``stdout`` and ``stderr`` capture for AFNI commands by `Synchon
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Mandal`_ (:gh:`234`)
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- Adapt :meth:`.HDF5FeatureStorage.read_df` due to addition of
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:meth:`.HDF5FeatureStorage.read` by `Synchon Mandal`_ (:gh:`236`)
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Features
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^^^^^^^^
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- Add ``AICHA v1`` and ``AICHA v2`` parcellations to ``junifer.data`` by
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`Synchon Mandal`_ (:gh:`173`)
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- Add ``Shen 2013``, ``Shen 2015`` and ``Shen 2019`` parcellations to
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``junifer.data`` by `Synchon Mandal`_ (:gh:`184`)
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- Add ``Yan 2023`` parcellation to ``junifer.data`` by `Synchon Mandal`_
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(:gh:`225`)
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- Introduce :mod:`.onthefly` sub-module and :func:`.read_transform` for quick
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transform operations on stored data by `Synchon Mandal`_ (:gh:`237`)
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Misc
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^^^^
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- Consistent docstrings for pytest fixtures used in the test suite by `Synchon
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Mandal`_ (:gh:`228`)
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- Adopt ``ruff`` as the only linter for the codebase by `Synchon Mandal`_
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(:gh:`229`)
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- Improve ``codespell`` support by fixing typos in documentation by `Synchon
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Mandal`_ (:gh:`230`)
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- Adopt ``pre-commit`` for adding and managing git pre-commit hooks by
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`Synchon Mandal`_ (:gh:`232`)
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- Improve docstrings and code style and parametrize remaining tests for
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``junifer.data.parcellations`` by `Synchon Mandal`_ (:gh:`238`)
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- Bump ``numpy`` version constraint to ``>=1.24,<1.26`` by `Synchon Mandal`_
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(:gh:`241`)
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Junifer 0.0.2 (2023-03-31)
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Junifer 0.0.2 (2023-03-31)
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--------------------------
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--------------------------
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@ -140,15 +225,9 @@ Features
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when used as ``method`` in markers by `Fede Raimondo`_ (:gh:`190`)
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when used as ``method`` in markers by `Fede Raimondo`_ (:gh:`190`)
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junifer 0.0.1 (2022-12-20)
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Junifer 0.0.1 (2022-12-20)
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--------------------------
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--------------------------
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API Changes
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^^^^^^^^^^^
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- Change the ``single_output`` default parameter in storage classes from
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``False`` to ``True`` by `Fede Raimondo`_ (:gh:`134`)
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Bugfixes
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Bugfixes
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^^^^^^^^
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^^^^^^^^
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@ -168,6 +247,14 @@ Bugfixes
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- Fix a bug in which the generated DAG for HTCondor will not work by
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- Fix a bug in which the generated DAG for HTCondor will not work by
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`Fede Raimondo`_ (:gh:`143`)
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`Fede Raimondo`_ (:gh:`143`)
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API Changes
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^^^^^^^^^^^
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- Change the ``single_output`` default parameter in storage classes from
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``False`` to ``True`` by `Fede Raimondo`_ (:gh:`134`)
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Improved Documentation
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Improved Documentation
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^^^^^^^^^^^^^^^^^^^^^^
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^^^^^^^^^^^^^^^^^^^^^^
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@ -181,6 +268,7 @@ Improved Documentation
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- Change documentation template to furo. Fix references and standardize
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- Change documentation template to furo. Fix references and standardize
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documentation by `Fede Raimondo`_ (:gh:`114`)
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documentation by `Fede Raimondo`_ (:gh:`114`)
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Enhancements
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Enhancements
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^^^^^^^^^^^^
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^^^^^^^^^^^^
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@ -217,6 +305,7 @@ Enhancements
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- Refactor :class:`.PipelineStepMixin` to improve its implementation and
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- Refactor :class:`.PipelineStepMixin` to improve its implementation and
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validation for pipeline steps by `Synchon Mandal`_ (:gh:`152`)
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validation for pipeline steps by `Synchon Mandal`_ (:gh:`152`)
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Features
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Features
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^^^^^^^^
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^^^^^^^^
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@ -283,6 +372,7 @@ Features
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- Implement :class:`.ALFFParcels` and :class:`.ALFFSpheres` markers by
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- Implement :class:`.ALFFParcels` and :class:`.ALFFSpheres` markers by
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`Fede Raimondo`_ (:gh:`35`)
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`Fede Raimondo`_ (:gh:`35`)
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Misc
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Misc
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^^^^
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^^^^
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