diff --git a/ComplementaryScripts/dependencies.txt b/ComplementaryScripts/dependencies.txt index e97f2948..30550175 100644 --- a/ComplementaryScripts/dependencies.txt +++ b/ComplementaryScripts/dependencies.txt @@ -1,6 +1,5 @@ -SBML_toolbox v4.1.0 +RAVEN_toolbox v2.0.0-rc.1 +COBRA_toolbox commit b80de23 SBML_level 3 SBML_version 1 fbc_version 2 -RAVEN_toolbox v2.0.0-rc.1 -COBRA_toolbox commit 6d48ef7 diff --git a/ComplementaryScripts/saveYeastModel.m b/ComplementaryScripts/saveYeastModel.m index 0eee7710..ded76c5b 100644 --- a/ComplementaryScripts/saveYeastModel.m +++ b/ComplementaryScripts/saveYeastModel.m @@ -22,9 +22,6 @@ function saveYeastModel(model) end fclose(fid); -%Retrieve SBML toolbox version: -SBMLTver = getVersion('SBMLToolbox.m','VERSION.txt'); - %Retrieve RAVEN version: RAVENver = getVersion('checkInstallation.m','version.txt'); @@ -39,14 +36,13 @@ function saveYeastModel(model) %Save file with versions: fid = fopen('dependencies.txt','wt'); -fprintf(fid,['SBML_toolbox\tv' SBMLTver '\n']); +fprintf(fid,['RAVEN_toolbox\tv' RAVENver '\n']); +fprintf(fid,['COBRA_toolbox\tcommit ' COBRAcommit(1:7) '\n']); fields = fieldnames(model.modelVersion); for i = 1:length(fields) value = model.modelVersion.(fields{i}); fprintf(fid,[fields{i} '\t' num2str(value) '\n']); end -fprintf(fid,['RAVEN_toolbox\tv' RAVENver '\n']); -fprintf(fid,['COBRA_toolbox\tcommit ' COBRAcommit(1:7) '\n']); fclose(fid); end diff --git a/README.md b/README.md index a0410eb6..5449536f 100644 --- a/README.md +++ b/README.md @@ -32,7 +32,7 @@ This repository contains the current genome-scale metabolic model of _Saccharomy **GEM Category:** Species; **Utilisation:** maximising growth; **Field:** metabolic-network reconstruction; **Type of Model:** curated, reconstruction; **Model Source:** [Yeast 7.6](https://sourceforge.net/projects/yeast/); **Taxonomy:** _Saccharomyces cerevisiae_; **Metabolic System:** General Metabolism; **Bioreactor** -* Last update: 2018-02-23 +* Last update: 2018-02-28 * The model: @@ -55,7 +55,6 @@ This repository is administered by Benjamín J. Sánchez ([@BenjaSanchez](https: ### Dependencies - Recommended Software: * libSBML MATLAB API (version [5.15.0](https://sourceforge.net/projects/sbml/files/libsbml/5.15.0/stable/MATLAB%20interface/) is recommended). -* The SBML Toolbox (version [4.1.0](https://sourceforge.net/projects/sbml/files/SBMLToolbox/4.1.0/) is recommended). * Gurobi Optimizer for MATLAB (version [6.5.2](http://www.gurobi.com/registration/download-reg) is recommended). ### Installation Instructions