From 9561d246a55d44720c8436c080b43a1bd0cd508e Mon Sep 17 00:00:00 2001 From: BenjaSanchez Date: Wed, 28 Feb 2018 17:56:11 +0100 Subject: [PATCH] fix: drop SBML toolbox as requirement --- ComplementaryScripts/dependencies.txt | 1 - ComplementaryScripts/saveYeastModel.m | 4 ---- README.md | 3 +-- 3 files changed, 1 insertion(+), 7 deletions(-) diff --git a/ComplementaryScripts/dependencies.txt b/ComplementaryScripts/dependencies.txt index d7980238..30550175 100644 --- a/ComplementaryScripts/dependencies.txt +++ b/ComplementaryScripts/dependencies.txt @@ -1,6 +1,5 @@ RAVEN_toolbox v2.0.0-rc.1 COBRA_toolbox commit b80de23 -SBML_toolbox v4.1.0 SBML_level 3 SBML_version 1 fbc_version 2 diff --git a/ComplementaryScripts/saveYeastModel.m b/ComplementaryScripts/saveYeastModel.m index 0a31c839..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'); @@ -41,7 +38,6 @@ function saveYeastModel(model) fid = fopen('dependencies.txt','wt'); fprintf(fid,['RAVEN_toolbox\tv' RAVENver '\n']); fprintf(fid,['COBRA_toolbox\tcommit ' COBRAcommit(1:7) '\n']); -fprintf(fid,['SBML_toolbox\tv' SBMLTver '\n']); fields = fieldnames(model.modelVersion); for i = 1:length(fields) value = model.modelVersion.(fields{i}); 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