Added squid demo to tutorials. Removed squid demo from quickstart. Wrote a bit of theory and history about squid demo. removed redundant modules.rst file.

removed pyrun1.py documentation as it is exactly the same as pyrun.py.

updated vec information in quickstart to reflect actual ouput.

Recovered rdesigneur tutorial. Modified file by adding extended contents, commented out incomplete sections. Modified rdesigneur snippets page title to 'more rdesigneur examples' instead of just 'Rdesigneur'

enabled.
May be some other test to test the gui without lauching it?

better formatting at the top of readme.

Quick link to packages and documents.

since -X is not enabled.

92dd345eb5  clean up

git-subtree-dir: moose-gui
git-subtree-split: 92dd345eb549c51dfd6a007675d09f214103d416

renamed it.

[skip ci]

cmake.

Conflicts:
	moose-core/python/setup.cmake.py

bda9742 Merge pull request #236 from upibhalla/master
86751f2 Added more accurate error messages to ZombieEnz for reporting missing messages during solver setup
5d93f75 Merge pull request #233 from upibhalla/master
cc47a2d Merge branch 'master' into master
a7ac8f4 Merge pull request #234 from BhallaLab/fix_travis_nov_30
5a08c96 pip is renamed to pip2. This commit passes on local machine.
bf8585d Possible fixes to travis build failure on osx.
f61a591 Added hack for channel not scaling when compartment size is scaled. Checks for child object called scaleFormula.
dff5731 Merge branch 'master' of https://github.com/BhallaLab/moose-core
7f0eb4b Merge pull request #231 from BhallaLab/prefix_python3
1d99906 Fix for spine ordering. Added capability to do unordered_map which may help with some of the performance issues during setup.
296c030 moose-core does not handle debian layout anymore. This should be handled in BhallaLab/moose.
0433574 commenting out changes introduced by 985af4e. Reopened BhallaLab/moose#224.

git-subtree-dir: moose-core
git-subtree-split: bda97426c899b2f366d08bdf30cf0f69876c9567

Updated installation documentation with new mac osx brew install procedure. Made new section for OSX for consistency of format.

Recovered quickstart section in html, added tutorials placeholder and implemented rudimentary integration between doxygen and sphinx (dependecy on breathe sphinx extension)

found.