Changelog added in documentation

doc/Changelog.rst

@@ -0,0 +1,23 @@
+Changelog
+=========
+
+Version 2.0.1
+-------------
+
+- This fix addresses two minor issues where output was omitted for the SNR computation and the fornix evaluation whenever hires inputs were used.
+
+Version 2.0.0
+-------------
+
+- Name changes for the toolbox, repository, package, and scripts: the toolbox has been renamed to "fsqc tools", the python package name "qatoolspython" has been changed to "fsqc", and the "qatools.py" script has been renamed to "run_fsqc". The github repository is now located at "https://github.com/Deep-MI/fsqc", but requests to the old "https://github.com/Deep-MI/qatools-python" repository will be redirected.
+- Name changes for output files (replacing 'qatools' with 'fsqc').
+- Interface changes: importing and running the scripts has changed. In particular, `run_fsqc` is now an executable file and replaces the `qatools` or `qatools.py` command. `run_fsqc()` is now also a function that can be used in a Python environment. See `here <https://github.com/Deep-MI/fsqc#usage>`_ for details.
+- New names for main and dev branches: the main (default) branch is now called `stable` (was: `freesurfer-module-releases`), and the dev branch is now called `dev` (was: `freesurfer-module-dev`). The old branches will still be kept for a while in a deprecation state, but will not receive further updates or support.
+- Screenshots are now in radiological orientation (left is right). Before version 2.0, screenshots were in neurological orientation (left is left).
+- Addition of skullstrip, surfaces, hippocampus, and hypothalamus modules.
+- Improved logging, error handling, and testing frameworks.
+- Enhanced containerization support (docker, singularity, dockerhub).
+- Updated requirements, easier installation of the package and its dependencies, availability of the package on `pypi.org <https://pypi.org/>`_.
+- FreeSurfer is no longer required as a dependency (except for the optional 'shape analysis' module, which relies on the brainprint package).
+- Compatibility with earlier versions is not preserved.
+

doc/Development.rst

@@ -8,7 +8,7 @@ We are happy to announce the release of version 2.0 of the `fsqc` toolbox. With
 
 Recent changes include the addition of the hippocampus and hypothalamus modules as well as the addition of surface and skullstrip visualization modules. Technical changes include how the package is installed, imported, and run, see below for details.
 
-A list of changes is available :download:`here <../CHANGES.md>`.
+A list of changes is available Changelog section.
 
 Main and development branches
 -----------------------------

doc/index.rst

@@ -27,6 +27,7 @@ It has been augmented by additional functions from the `MRIQC toolbox <https://g
    Usage
    Installation
    Requirements
+   Changelog
    Authors
    Citations
    License