Prepare a 4.3.2 release

Revert commit df7032f (see Github issue #229 for explanation)

Author: marcelzwiers

Dockerfile

@@ -31,7 +31,7 @@ RUN mkdir -p /opt/miniconda3; \
 # Clone bidscoin and switch to the qt5 branch \
     git clone https://github.com/Donders-Institute/bidscoin.git /opt/bidscoin; \
     cd /opt/bidscoin; \
-    git checkout v4.3.1+qt5; \
+    git checkout v4.3.2+qt5; \
     rm -rf docs tests .git
 
 

apptainer.def

@@ -36,7 +36,7 @@ Stage: builder
     # Clone bidscoin and switch to the qt5 branch
     git clone https://github.com/Donders-Institute/bidscoin.git /opt/bidscoin
     cd /opt/bidscoin
-    git checkout v4.3.1+qt5
+    git checkout v4.3.2+qt5
     rm -rf docs tests .git
 
 
@@ -48,7 +48,7 @@ Stage: final
     This BIDScoin Apptainer image includes:
 
     * Debian stable,
-    * The latest stable release of BIDScoin (v4.3.1+qt5)
+    * The latest stable release of BIDScoin (v4.3.2+qt5)
     * The latest versions of dcm2niix, pydeface, spec2nii and some FSL tools
 
     The general form to run BIDScoin commands is:

bidscoin/heuristics/bidsmap_bids2bids.yaml

@@ -22,7 +22,7 @@ Options:
 # General BIDScoin and plugin options
 # --------------------------------------------------------------------------------
   bidscoin:
-    version: 4.3.1+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
+    version: 4.3.2+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
     subprefix: sub-                 # The subject prefix of the source data
     sesprefix: ses-                 # The session prefix of the source data
     bidsignore: [mrs/, extra_data/, sub-*_ct.*]    # List of entries that are added to the .bidsignore file (for more info, see BIDS specifications), e.g. [extra_data/, pet/, myfile.txt, yourfile.csv]

bidscoin/heuristics/bidsmap_dccn.yaml

@@ -23,7 +23,7 @@ Options:
 # General BIDScoin and plugin options
 # --------------------------------------------------------------------------------
   bidscoin:
-    version: 4.3.1+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
+    version: 4.3.2+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
     subprefix: sub-                 # The subject prefix of the source data
     sesprefix: ses-                 # The session prefix of the source data
     bidsignore: [mrs/, extra_data/, sub-*_ct.*]    # List of entries that are added to the .bidsignore file (for more info, see BIDS specifications), e.g. [extra_data/, pet/, myfile.txt, yourfile.csv]

bidscoin/heuristics/bidsmap_sst.yaml

@@ -22,7 +22,7 @@ Options:
 # General BIDScoin and plugin options
 # --------------------------------------------------------------------------------
   bidscoin:
-    version: 4.3.1+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
+    version: 4.3.2+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
     subprefix: sub-                 # The subject prefix of the source data
     sesprefix: ses-                 # The session prefix of the source data
     bidsignore: [mrs/, extra_data/, sub-*_ct.*]    # List of entries that are added to the .bidsignore file (for more info, see BIDS specifications), e.g. [extra_data/, pet/, myfile.txt, yourfile.csv]

docs/CHANGELOG.md

@@ -4,6 +4,11 @@
 
 ## [dev]
 
+## [4.3.2] - 2024-03-29
+
+### Fixed
+- A regression was introduced when fixing Github issue #229 (now reverted)
+
 ## [4.3.1] - 2024-03-27
 
 ### Added
@@ -438,7 +443,8 @@ A first stable release of BIDScoin :-)
 ### To do
 - Add support for non-imaging data
 
-[dev]: https://github.com/Donders-Institute/bidscoin/compare/4.3.1...HEAD
+[dev]: https://github.com/Donders-Institute/bidscoin/compare/4.3.2...HEAD
+[4.3.2]: https://github.com/Donders-Institute/bidscoin/compare/4.3.1...4.3.2
 [4.3.1]: https://github.com/Donders-Institute/bidscoin/compare/4.3.0...4.3.1
 [4.3.0]: https://github.com/Donders-Institute/bidscoin/compare/4.2.1...4.3.0
 [4.2.1]: https://github.com/Donders-Institute/bidscoin/compare/4.2.0...4.2.1

docs/installation.rst

@@ -35,11 +35,11 @@ If you do not have git (or any other version control system) installed you can `
 
    $ pip install ./bidscoin[dcm2niix2bids]
 
-If you are installing BIDScoin on an older system and you are getting Qt6 errors, you can try to install a ``+qt5`` build, e.g. for version 4.3.1:
+If you are installing BIDScoin on an older system and you are getting Qt6 errors, you can try to install a ``+qt5`` build, e.g. for version 4.3.2:
 
 .. code-block:: console
 
-   $ pip install bidscoin[dcm2niix2bids]@git+https://github.com/Donders-Institute/[email protected].1+qt5
+   $ pip install bidscoin[dcm2niix2bids]@git+https://github.com/Donders-Institute/[email protected].2+qt5
 
 Updating BIDScoin
 ^^^^^^^^^^^^^^^^^
@@ -92,7 +92,7 @@ An alternative for installing Python, BIDScoin and it's dependencies yourself is
 The current Apptainer image includes:
 
 * Debian stable,
-* The latest stable release (v4.3.1+qt5) of BIDScoin
+* The latest stable release (v4.3.2+qt5) of BIDScoin
 * The latest versions of dcm2niix, pydeface, spec2nii
 
 This image does not include FreeSurfer/synthstrip (needed for ``skullstrip``)
@@ -148,7 +148,7 @@ If the Apptainer container is not working for you, it is also possible to use a
 The current Docker image includes the same as the Apptainer image:
 
 * Debian stable,
-* The latest stable release of BIDScoin (v4.3.1+qt5)
+* The latest stable release of BIDScoin (v4.3.2+qt5)
 * The latest versions of dcm2niix, pydeface, spec2nii and some FSL tools
 
 Likewise, the current image does not include FreeSurfer/synthstrip (needed for ``skullstrip``)

pyproject.toml

@@ -7,7 +7,7 @@ build-backend    = 'setuptools.build_meta'
 [project]
 name             = 'bidscoin'
 description      = 'Converts and organises raw MRI data-sets according to the Brain Imaging Data Structure (BIDS)'
-version          = '4.3.1+qt5'
+version          = '4.3.2+qt5'
 readme           = 'README.rst'
 requires-python  = '>= 3.8'
 license          = {file = 'LICENSE.txt'}

release_procedure.rst

@@ -12,7 +12,7 @@ This document describes how to prepare a new BIDScoin release from within the DC
 6. Manually run the bidscoin, bidsmapper, bidscoiner, bids-validator and other integration tests
 7. Run tox@DCCN::
 
-    VERSION="4.3.1"
+    VERSION="4.3.2"
     cd ~/python/bidscoin
     git checkout v${VERSION}+qt5
     module load bidscoin/dev
@@ -62,6 +62,7 @@ Dockerhub
 
 1. In the VM, build, test and push a Docker image::
 
+    VERSION="4.3.2"
     sudo docker build -t marcelzwiers/bidscoin:$VERSION .
     sudo docker run --rm marcelzwiers/bidscoin:$VERSION bidscoin -v
     sudo docker run --rm marcelzwiers/bidscoin:$VERSION pngappend

tests/test_data/bidsmap.yaml

@@ -22,7 +22,7 @@ Options:
 # General options and plugins
 # --------------------------------------------------------------------------------
   bidscoin:
-    version: 4.3.1+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
+    version: 4.3.2+qt5              # BIDScoin version (should correspond with the version in pyproject.toml)
     bidsignore: mrs/;extra_data/    # Semicolon-separated list of entries that are added to the .bidsignore file (for more info, see BIDS specifications), e.g. extra_data/;pet/;myfile.txt;yourfile.csv
     subprefix: sub-                 # The subject prefix of the source data
     sesprefix: ses-                 # The session prefix of the source data