From 25e699004b56cd266f6a1ba730f735a62159ec4d Mon Sep 17 00:00:00 2001 From: =?UTF-8?q?Gwendolyn=20O=2E=20D=C3=B6bel?= <81755070+GwennyGit@users.noreply.github.com> Date: Sun, 1 Sep 2024 14:36:41 +0200 Subject: [PATCH] Adjusted versions for new pre-release 2.0.0a1 #121 --- dev/tutorial.ipynb | 2 +- docs/source/conf.py | 2 +- docs/source/index.rst | 7 ------- pyproject.toml | 2 +- 4 files changed, 3 insertions(+), 10 deletions(-) diff --git a/dev/tutorial.ipynb b/dev/tutorial.ipynb index af8c310..409aebf 100644 --- a/dev/tutorial.ipynb +++ b/dev/tutorial.ipynb @@ -9,7 +9,7 @@ "You need Python to use refineGEMs. It runs with versions 3.10+.\n", "\n", "Install refineGEMs' latest pre-release in an environment with:\n", - "`pip install refineGEMs==2.0.0a0`\n", + "`pip install refineGEMs==2.0.0a1`\n", "\n", "refineGEMs also requires the tools MassChargeCuration and BOFdat. Please install these in the same environment with:\n", "\n", diff --git a/docs/source/conf.py b/docs/source/conf.py index e5f9ebc..19bcb14 100644 --- a/docs/source/conf.py +++ b/docs/source/conf.py @@ -28,7 +28,7 @@ author = 'Famke Bäuerle, Gwendolyn O. Döbel and Carolin Brune' # The full version, including alpha/beta/rc tags -release = '2.0.0-alpha.0' +release = '2.0.0-alpha.1' # -- General configuration --------------------------------------------------- diff --git a/docs/source/index.rst b/docs/source/index.rst index be70937..5e1588f 100644 --- a/docs/source/index.rst +++ b/docs/source/index.rst @@ -2,13 +2,6 @@ Welcome to refineGEMs! ====================================== ``refineGEMs`` is a Python-based toolbox for the curation and analysis of genome-scale metabolic models (GEMS). -.. warning:: - | *Will be deprecated from version 2.0.0 onwards.* - | Due to massive restructuring and extension, all functions have been moved into new modules. - | If you used any functions from refineGEMs until now and want to use version 2.0.0 in the future, make sure to check your code after the version change. - | For the main pipeline in main.py see `SPECIMEN `__ as it will be deprecated from version 2.0.0 onwards. - | Beware that SPECIMEN only runs with refineGEMs 2.0.0 (starting with developmental versions). - Overview -------- diff --git a/pyproject.toml b/pyproject.toml index a20b27c..68853a9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -5,7 +5,7 @@ build-backend = "setuptools.build_meta" [project] name = "refineGEMs" -version = "2.0.0-alpha.0" +version = "2.0.0-alpha.1" requires-python = ">=3.10, <3.12" authors = [ {name = "Famke Baeuerle", email = "famke.baeuerle@gmail.com"},