small adjustments for the CI

NicolasSompairac · Nov 17, 2017 · 952382c · 952382c
1 parent 04015fb
commit 952382c
Showing 1 changed file with 4 additions and 3 deletions.
diff --git a/docs/prepareTutorials.sh b/docs/prepareTutorials.sh
@@ -1,4 +1,4 @@
-#!/bin/bash
+#!/usr/local/bin/bash
 usage="$(basename $0) -p=pdfPath -c=cobraToolBoxPath [-f=folderNameOfATutorial] [-h] [-l] [-m=mode] -- script to create tutorial documentation for the COBRA Toolbox.
 
 where:
@@ -79,7 +79,7 @@ createLocalVariables(){
 }
 
 buildHTMLTutorials(){
-    # /Applications/MATLAB_$MATLAB_VER_DOC.app/bin/matlab -nodesktop -nosplash -r "restoredefaultpath;initCobraToolbox;addpath('.ci');generateTutorials('$pdfPath');exit;"
+    /Applications/MATLAB_R2016b.app/bin/matlab -nodesktop -nosplash -r "restoredefaultpath;initCobraToolbox;addpath('.ci');generateTutorials('$pdfPath');exit;"
     for tutorial in "${tutorials[@]}" #"${tutorials[@]}"
     do
         createLocalVariables $tutorial
@@ -90,7 +90,7 @@ buildHTMLTutorials(){
 
 buildHTMLSpecificTutorial(){
     specificTutorial=$1
-    /Applications/MATLAB_$MATLAB_VER_DOC.app/bin/matlab -nodesktop -nosplash -r "restoredefaultpath;initCobraToolbox;addpath('.ci');generateTutorials('$pdfPath', '$specificTutorial');exit;"
+    /Applications/MATLAB_R2016b.app/bin/matlab -nodesktop -nosplash -r "restoredefaultpath;initCobraToolbox;addpath('.ci');generateTutorials('$pdfPath', '$specificTutorial');exit;"
     createLocalVariables $specificTutorial
     # create html file
     sed 's#<html><head>#&<script type="text/javascript" src="https://cdn.rawgit.com/opencobra/cobratoolbox/gh-pages/latest/_static/js/iframeResizer.contentWindow.min.js"></script>#g' "$pdfPath/tutorials/$tutorialFolder/$tutorialName.html" > "$pdfPath/tutorials/$tutorialFolder/iframe_$tutorialName.html"
@@ -225,6 +225,7 @@ if [ $buildPNG = true ] || [ $buildMD = true ] || [ $buildRST = true ]; then
                 rm $pngPath/${tutorialName}.png
             fi
 	    echo $pdfPath/tutorials/$tutorialFolder/$tutorialName.pdf
+	    export PATH=/usr/local/bin:$PATH;
             /usr/local/bin/convert -density 125 "$pdfPath/tutorials/$tutorialFolder/$tutorialName.pdf" ${tutorialName}_%04d.png
             /usr/local/bin/convert -shave 4%x5% -append ${tutorialName}*.png ${tutorialName}2.png && rm ${tutorialName}_*.png
             /usr/local/bin/pngquant ${tutorialName}2.png --ext -2.png && mv ${tutorialName}2-2.png $pngPath/${tutorialName}.png && rm ${tutorialName}2.png