diff --git a/ModelFiles/mat/yeastGEM.mat b/ModelFiles/mat/yeastGEM.mat index 108281a7..87bc71ee 100644 Binary files a/ModelFiles/mat/yeastGEM.mat and b/ModelFiles/mat/yeastGEM.mat differ diff --git a/ModelFiles/xlsx/yeastGEM.xlsx b/ModelFiles/xlsx/yeastGEM.xlsx index 19154906..7c9de54d 100644 Binary files a/ModelFiles/xlsx/yeastGEM.xlsx and b/ModelFiles/xlsx/yeastGEM.xlsx differ diff --git a/ModelFiles/xml/yeastGEM.xml b/ModelFiles/xml/yeastGEM.xml index 1bc31e16..53a8692b 100644 --- a/ModelFiles/xml/yeastGEM.xml +++ b/ModelFiles/xml/yeastGEM.xml @@ -1,6 +1,6 @@ - + diff --git a/history.md b/history.md index 5d8283db..bfadb20a 100644 --- a/history.md +++ b/history.md @@ -1,5 +1,19 @@ # History +### yeast 8.4.1: +* Features: + * Switched to `pip-tools` for managing python dependencies, distinguishing between user requirements `/requirements/requirements.txt` and developer requirements `/requirements/dev-requirements.txt` (PR #235). +* Fixes: + * Closes #201: Changed generic protein name to avoid confusion (PR #237). + * Closes #205: Finished correcting reactions' stoichiometry based on KEGG data (PR #237). + * Closes #215: Corrected wrong gene rule in reaction (PR #237). + * Closes #225: Moved MNX rxn ids from notes to the proper annotation field (PR #226). +* Documentation: + * Closes #223: Clarified releasing steps, including authorship criteria for Zenodo releases, in contributing guidelines (PR #233). + * Closes #227: Removed authorships/dates from all scripts, as it is redundant information (PR #230). + * Added admin guidelines for managing python dependencies (PR #235). + * Included links for model visualization in README file (PR #240). + ### yeast 8.4.0: * Features: * New functions `mapKEGGID.m ` and `mapMNXMID.m` for adding ids in model. Used them to add missing KEGG and MetaNetX ids for both metabolites and reactions (PR #220). @@ -195,5 +209,5 @@ First version of the yeast8 model, to separate it from previous versions: * NGAM rxn introduced * GAM in biomass pseudo-rxn fixed and refitted to chemostat data - ### yeast 7.6.0: +### yeast 7.6.0: First release of the yeast model in GitHub, identical to the last model available at https://sourceforge.net/projects/yeast/ diff --git a/version.txt b/version.txt index 9da0a092..f4131375 100644 --- a/version.txt +++ b/version.txt @@ -1 +1 @@ -8.4.0 \ No newline at end of file +8.4.1 \ No newline at end of file