Update CHANGELOG (#335)

* Update changelog for version 1.1.1

* Update to the latest dependencies versions

* Prepare release version and update Python version in installation instructions

* Update Python minimal version verification

* Add flag to list_models subcommand

* Update version on pyproject.toml file

* Remove unnnecesary files in MANIFEST and initialization

CHANGELOG

@@ -5,6 +5,26 @@ Main changes to this code/ project are documented in this file.
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## ClinicaDL 1.1.1
+
+### Changed
+
+** Core: **
+
+- Dependencies versions were updated in order to support Python equal or
+greater than 3.8.
+- Security updates for some dependencies.
+- Include the `--save_tensor` and `--save_nifty` options into the `predict`
+sub-command (before `save_tensor` was also subcommand`).
+- Update some paper references in the documentation.
+- Add a description for the available models.
+- Add the flag `--model_layers` to the `clinicadl train list_models` subcommad
+to visualize the model layers.
+
+### Fixed
+
+- Fix bug when using the `clinicadl train list_models` command.
+
 ## ClinicaDL 1.1.0
 
 ### Changed

MANIFEST.in

@@ -1,4 +1,3 @@
 include README.md
-include clinicadl/VERSION
 include LICENSE.txt
 include clinicadl/clinicadl/preprocessing/t1_extensive/info.json

README.md

@@ -50,7 +50,7 @@ as it guarantees the correct management of libraries depending on common
 packages:
 
 ```{.sourceCode .bash}
-conda create --name ClinicaDL python=3.7
+conda create --name ClinicaDL python=3.8
 conda activate ClinicaDL
 pip install clinicadl
 ```

clinicadl/__init__.py

@@ -1,19 +1,7 @@
+from importlib.metadata import version
+
 from .utils.maps_manager import MapsManager
 
 __all__ = ["__version__", "MapsManager"]
 
-# Load the Clinica package version
-import pkgutil
-import sys
-
-__version__ = pkgutil.get_data(__package__, "VERSION").decode("ascii").strip()
-version = __version__
-
-# import pkg_resources
-# version = pkg_resources.require("Clinica")[0].version
-# __version__ = version
-
-# python 3.6 minimum version is required
-if sys.version_info < (3, 7):
-    print(f"ClinicaDL {__version__} requires Python 3.7")
-    sys.exit(1)
+__version__ = version("clinicadl")

docs/Installation.md

@@ -30,7 +30,7 @@ bash /tmp/miniconda-installer.sh
 The latest release of ClinicaDL can be installed using `pip` as follows:
 
 ```{.sourceCode .bash}
-conda create --name clinicadlEnv python=3.7
+conda create --name clinicadlEnv python=3.8
 conda activate clinicadlEnv
 pip install clinicadl
 ```