Merge branch 'master' of github.com:BhallaLab/moose

Conflicts:
	.travis.yml

.travis.yml

 language: cpp
-compiler: 
+compiler:
     - gcc os:
     - linux
     - osx
@@ -13,18 +13,23 @@ notifications:
     email:
         recipients:
             - dilawar.s.rajput@gmail.com
+            - bhalla@ncbs.res.in
+            - aviralg@ncbs.res.in
+            - hrani@ncbs.res.in
+            - ray.subhasis@gmail.com
+
         on_success: change
         on_failure: always
 
 env:
-    - CTEST_MODEL=Nightly 
+    - CTEST_MODEL=Nightly
 cache: apt
-before_script: 
+before_script:
     - sudo apt-get update -qq
-    - sudo apt-get install libxml2-dev libbz2-dev 
+    - sudo apt-get install libxml2-dev libbz2-dev
     - sudo apt-get install libhdf5-serial-dev
     - sudo apt-get install python-numpy python-setuptools python-networkx
-    - sudo apt-get install make texinfo cmake 
+    - sudo apt-get install make texinfo cmake
     - sudo apt-get install python-suds python-matplotlib
     - sudo apt-get install python-qt4-dev python-qt4-gl python-sip-dev libqt4-dev libopenscenegraph-dev
     - sudo apt-get install doxygen python-sphinx
@@ -33,11 +38,11 @@ install:
     - wget ftp://ftp.gnu.org/gnu/gsl/gsl-1.16.tar.gz
     - tar -xzvf gsl-1.16.tar.gz
     - cd gsl-1.16 && ./configure --prefix=/usr && make && sudo make install && cd ..
-    - wget http://sourceforge.net/projects/sbml/files/libsbml/5.11.4/stable/libSBML-5.11.4-core-src.tar.gz
-    - tar -xzvf libSBML-5.11.4-core-src.tar.gz 
-    - cd libsbml-5.11.4 && ./configure --prefix=/usr --with-zlib --with-bzip2 --with-libxml && make && sudo make install && cd ..
-script: 
-    - mkdir -p _build && cd _build && cmake -DCMAKE_INSTALL_PREFIX=`pwd`/_install -DDEBUG=ON -DWITH_DOC .. && make
+    - wget http://sourceforge.net/projects/sbml/files/libsbml/5.9.0/stable/libSBML-5.9.0-core-src.tar.gz
+    - tar -xzvf libSBML-5.9.0-core-src.tar.gz
+    - cd libsbml-5.9.0 && ./configure --prefix=/usr --with-zlib --with-bzip2 --with-libxml && make && sudo make install && cd ..
+script:
+    - mkdir -p _build && cd _build && cmake -DCMAKE_INSTALL_PREFIX=`pwd`/_install -DDEBUG=ON .. && make
 
 after_success:
-    - ctest --output-on-failure 
+    - ctest --output-on-failure

data/matplotlibrc

+# This is configuration file for matplotlib used in examples. 
+# We use this configuration file to test the examples. Copy this configuration
+# file in the current working directory and run the snippet. 
+
+# This configuration file does the followings:
+# - plt.show() function become non-blocking.
+
+backend = qt4agg
+
+# This makes all plots non-blocking.
+interactive = True

moose-core @ 21046e25

-Subproject commit 62ba292eb794fc4e7cd4d703cae07b4c56ac8b79
+Subproject commit 21046e25ca1a667fa095d492d396cd69101e7f14

test_examples.sh

+#!/bin/bash
+set -e
+declare -i a
+PYC=`which python`
+RUNDIR=./_test_dir_moose-examples_
+echo "Creating $RUNDIR"
+mkdir -p $RUNDIR
+MATPLOTRC=data/matplotlibrc
+echo "copying examples out of source"
+cp -r moose-examples/* $RUNDIR/
+PYFILES=`find $RUNDIR -name "*.py"`
+for pyf in $PYFILES; do
+    let a=a+1
+    dn=`dirname $pyf`
+    fn=`basename $pyf`
+    # copy matplotlibrc file to working directory
+    cp $MATPLOTRC $dn/
+    (
+        cd $dn
+        echo "Executing $fn in directory $dn"
+        $PYC $fn
+    )
+done
+echo "Total $a scripts run"