e5868beb9 Merge pull request #329 from upibhalla/master
a56b7e883 Fix to rdesigneurProtos so that the classic HH Na and K_DR channels now work properly.
0bdebdf6f Merge pull request #328 from upibhalla/master
bc3ff9ccd Got rid of printf debug line
788bce98b Merge branch 'master' of https://github.com/upibhalla/moose-core
b8eeb9d5f Merge branch 'master' of https://github.com/BhallaLab/moose-core
47ee21c36 Fixes to rdesigneur so that chemProto without chemDistrib will not fail confusingly.
50f03b860 Fixes to EndoMesh (#327)
552ca01a1 Merge branch 'master' into master
905c98332 Merge pull request #323 from hrani/master
aca01be2e Fixed numDimentions to 3
12e429d47 Merge branch 'master' of https://github.com/BhallaLab/moose-core
1f91c76fc Added dummy CubeMesh as default parent for EndoMesh to avert segvs on several methods
5a8ec044e Merge branch 'master' into master
e4c19935e Merge pull request #324 from upibhalla/master
0327eb9e7 Fixed test_Xchan1.py to match bugfix for Dsolve.
2e2227649 Merge branch 'master' of https://github.com/BhallaLab/moose-core
182e95c52 Bugfix for ConcChan to correct scaling for permeability to SI units of millimolar
865e99dbb Merge branch 'master' of http://github.com/hrani/moose-core
70f116ad9 cleanup in print statement
83afd0fe3 Merge branch 'master' into master
9b0569b93 while reading the sbml model validator can be switched off
5b0bbe1be Merge pull request #322 from hrani/master
05eba8faa Channel are written back to genesis and zeroth voxel moose object is written for both cubeMesh or CylMesh
53cbe3656 reading info field for channel from kkit file (#321)
ba88932fb CylMesh are written to SBML with annotation field and only zeroth ele… (#318)
f917df152 Merge pull request #319 from dilawar/master
637583439 Works after disabling alpha and beta properties.
0b208c8c9 Now user can pass verbose option to mooseReadNML2
556ebef64 Hotfix. If self.network not found, sett the temperate to 25 deg C.
7c86d4ebc Merge branch 'master' of https://github.com/BhallaLab/moose-core
3a655cd06 Minor typo in warning report for Dsolve
b4637b21a Merge pull request #317 from upibhalla/master
d6e35de32 Merge branch 'master' into master
ecfca8401 Update README.md (#312)
f66ba9003 Merge branch 'master' of https://github.com/BhallaLab/moose-core
51dd77625 Rdesigneur passiveDistrib modified to handle legacy commands
5d20e0433 corrected the spell of CyclMesh-->CylMesh, negating the yaxis for kkit is corrected as now saving the value of scene coOrdinates (#313)
a8769f2c4 Update CMakeLists.txt
f0e4db0e9 Fixes to build failure on OSX because cmake does not MACOSX but APPLE on (#316)
2fb51c9a5 Hotfix: Neuroml2 fixes. (#315)
e46429530 Merge pull request #314 from upibhalla/master
b57a6d0df Merge branch 'master' into master
d2749931d Build System Tweaks  (#309)
293d44144 Some fixes to Ca-dependent channel prototypes in rdesigneur.
88bcf0797 Merge pull request #311 from upibhalla/master
aaf589ab2 Merge branch 'master' of https://github.com/BhallaLab/moose-core
0909ceb32 Fixes as suggested by PyLint. Added a target pylint in cmake file. (#308)
cdbf917b2 Merge branch 'master' of https://github.com/BhallaLab/moose-core
79e2d65f5 hotfix for running Boost, Added NMDAR to rdesigneurProtos.
eb4e83662 Fixed boost segfault with dense solver.  Also remove GSL specific attrib from the test. (#310)
8463cc73e Update setup.cmake.py (#307)
8c38fc6d6 Removed deprecated warnings from neuroml2 reader (#305)
6df4332d2 Fixes to BOOST based steadystate solver (#306)
99dd7d250 Merge pull request #302 from BhallaLab/chhennapoda
86c424452 Merge branch 'master' into chhennapoda
ec06b242a HotFix: Fix regression in StreadyState solver caused by #293. (#304)
6b79f6701 prefer .so suffix over CPython version specific suffix . this way a wheel compiled by any version of python3 will work with any python3.
92da6a7fb removed python-libsbml from install dependencies; added matplotlib. sbml and neuroml packages should be installed by user and not automatically. They may not be available for all distribution of python on all OSes.
e2bc19c0e Merge branch 'master' into chhennapoda
385a5cf0a Merge pull request #303 from upibhalla/master
080767c5a Fixes to rdesigneur due to bad merge. Cleanup on rmoogli
62f8bc89e Tweak to Neuron.cpp so it can handle insertion of spines with uniform spacing.
b6088109b Fixes for linux.
406fee2a0 Temp commit to test on OSX.
cc3c604b9 Merge branch 'master' into chhennapoda
342092829 Update moose_test.py (#301)
61f4f6684 show timeout in moose.test() .
abf822c4a with python2, just test with GSL. Build python3 first.
088c61673 Made changes to build system so that pymoose directory can be built in isolation. Build system is bit more module. Ideally I should make sure that each subdirectory can built in isolation.
3c0ff2790 Few changes to build with python3.6.
5d688f63d Use option --relative in setup.py and tell cmake not to look into usr prefix anymore.
1f3fe9fc3 Merge branch 'chhennapoda' of github.com:BhallaLab/moose-core into chhennapoda
3e19983c8 removed unneeded library which is never used.
c2fbab872 cmake related changes to build on centos5 (manylinux docker image).
f1230f151 Merge branch 'master' of https://github.com/upibhalla/moose-core
23a2892cc Merge branch 'master' of https://github.com/BhallaLab/moose-core
8a835c133 minor bugfix to rdesigneur
6ef1d567e Merge branch 'master' into master
a9a2e758f Merge branch 'master' of https://github.com/BhallaLab/moose-core
5e1294d99 Further updates to rdesigneur for argument handling
a702bded5 Put in kwargs based specification of plotList, stimList and moogList. Folded savePlots into plotList but not yet tested.

git-subtree-dir: moose-core
git-subtree-split: e5868beb97afcb778d6a945c38e80300c953b39a

d229eba6bb Parallel solvers (#293)

git-subtree-dir: moose-core
git-subtree-split: d229eba6bbc957c97bac44d24d513543956942c1

d5b330dc02 Merge pull request #296 from hrani/master
5a606df86c Merge remote-tracking branch 'upstream/master'
ce545cf507 Rdesigneur updates (#295)
9869046490 Merge branch 'master' into master
753b189063 changes made after fixXreacs is moved from python to python/moose for package
5eca1a3620 moved fixXreacs.py from python to python/moose for packaging, changes made to get fixXreacs files
3a519cec39 mooseAddChemSolver and mooseDeleteChemSolver is meant for chemical models only (#292)
9ba0e85532 check for enz parent is done by neighbors['enzDes'] rather than enz.parent and if enzyme parent is not pool then raise an exception
161c475e2c Merge branch 'master' into master
f9d869da24 Merge pull request #294 from upibhalla/master
a76dd524b4 Merge branch 'master' of https://github.com/BhallaLab/moose-core
c0d5ba6d9b Added plot y limits to rdesigneur
5fa7226e60 clean up modelRoot while printing
3c6972aae3 mooseAddChemSolver and mooseDeleteChemSolver is meant for chemical models only, a check is made to see if modelroot has just cube/CylMesh
3790376c3e Merge pull request #291 from BhallaLab/dilawar-patch-2
c52740323a Update README.md
5843c73ab5 Merge pull request #289 from upibhalla/master
e3baee2dce Merge branch 'master' of https://github.com/BhallaLab/moose-core
7a1b0d8ff6 Test xreacs (#287)
869522d04c Merge branch 'master' of https://github.com/BhallaLab/moose-core
bb274ee43c loadmodel with add_delete_chemSolver (#288)
7d563c7c23 Merge branch 'master' of https://github.com/BhallaLab/moose-core
637d2233a1 setting up dsolver and by passing loadModel from moosemodule.cpp to m… (#277)
9f5a2697f6 Merge branch 'master' of https://github.com/BhallaLab/moose-core
3a8489c475 All random number generators are based on c++11  (#280)
8e29d8eaa7 Minor updates to rdesigneur waveplotting
46718b9c04 Added wavePlot option to rdeisgneur.
506067669c Minor fixes to rdesigneur for setting up stims
5ab1a3c621 Merge branch 'master' of https://github.com/BhallaLab/moose-core
ea487f3ee0 Updated rdesigneur so it can handle a chem system with only a dendrite and spine compartment, no PSD.
7c321bfe94 Merge pull request #284 from upibhalla/master
d9bd29c97d Fix for units of permeability of ConcChan, as computed in Dsolve.cpp. Now it is 1/(mM.sec).
3056c917fe Merge branch 'master' of https://github.com/BhallaLab/moose-core
ae8f2336ce Fixed bug with NeuroMesh
9271d0ba22 Fixes to ReadKkit, Dsolve, rdesigneur to handle EndoMesh to insert in neuronal geometries.
f4ba9362e4 Intermediate save of rdesigneur with partial changes for handling endoMesh. Works with old examples, not tested for EndoMeshes

git-subtree-dir: moose-core
git-subtree-split: d5b330dc02ed938fcb7cff95d8ae0e2cd388d0ea

1271dcd Merge pull request #278 from upibhalla/master
c400af3 Minor extension to rdesigneur to handle display of the passive electrical parameters of compartments: Rm, Ra, Cm. These will be scaled if spine geometry changes.
a77c611 Fixes to rdesigneur for NeuroMesh models. Key bugfix to Dsolve for NeuroMesh models. Some code cleanup to eliminate compiler warnings about uninitialized variables.
840021f Added lots of channel prototypes to rdesigneurProtos. Small fixes to rdesigneur for multiscale models.
c4f9fa5 Updates to Rdesigneur to handle synaptic input stimulus. Modified RandSpike with a doPeriodic flag, so it can be used for periodic stimuli as well.
cb2dd4b Merge branch 'master' of https://github.com/BhallaLab/moose-core
fc6ca10 Updates to rdesigneur to handle voltage clamp specification as a stimulus. Added doEvalAtReinit flag to Function so that it can initialize at a precomputed value rather than zero.
0445da5 Merge pull request #276 from upibhalla/master
48d1d4c Updates to rdesigneur to handle soma parameters and ball-and-stick model in cellProto argument
694fe5e Merge branch 'master' of https://github.com/BhallaLab/moose-core
180109a Changed Enz number-rate scaling to use the volume of the enzyme molecule, rather than the volume of the substrate. This usage gives results consistent with Genesis/kkit
f9de66e Merge pull request #273 from upibhalla/master
c2d1a6f Fixed grotesque bug with Dsolve.cpp which manifested only if pool names were of length 13 and they were diffusing.
b9448c0 Merge branch 'master' of https://github.com/BhallaLab/moose-core
bcd9ddb Fixes to Enz so that kcat of zero doesn't set up NaNs in Km and K1. Display updates to rdesigneur, rmoogli, moogul.
eeea183 Merge pull request #270 from upibhalla/master
5e840d2 Merge branch 'master' into master
9ac8d79 Merge pull request #272 from BhallaLab/dilawar-patch-2
8f276ef Update travis_prepare_osx.sh
2d00294 Update rmoogli.py
5e793c3 Update moogul.py
5108d7e Update rmoogli.py
42a4f3b Merge branch 'master' of https://github.com/BhallaLab/moose-core
8ea8b2e Fixes to moogli when run from outside the rdesigneur directory
c411242 minor cleanup on rdesigneur
ea99dcc Updated version of moogul, integrated now with rdesigneur
d81e796 Merge pull request #264 from hrani/master
bf0119b Update test_negative_value_flag.py
6e71d8e Update test_kkit.py
fdc7d66 cleaned up print stm
51dfc2c cleaned up print stm
b055a5c cleaned up wrt to python3 compilation problem
09da84b indentation corrected
00bc557 indentation corrected
b55acd9 Cleaned wrt to diffusion,clean up to remove in ReadKKit removed the setting up of solver, in mooseaddsolver() cleaned up in setting and deleting the solver, added utils.loadmodel function to call loadmodel function with setting for solver
9441bf9 Merge branch 'master' into master
08f0804 Merge pull request #266 from upibhalla/master
0ad961c Update rdesigneur.py
3ec65d7 Update rdesigneur.py
b6b58a4 Moved fixXreacs.py from python/rdesigneur directory to python directory
736f7f5 Merge branch 'master' of https://github.com/BhallaLab/moose-core
38a1d03 Bugfix for fixXreacs so that it works properly if there was already some text in the notes.
b8fcd11 Merge branch 'master' of http://github.com/hrani/moose-core
ad6925f Merge branch 'master' of https://github.com/BhallaLab/moose-core
9d5be9d Merge branch 'master' into master
cc13c50 travis failing with libgfortran not found, hopefully this should fix it
b246358 rename modelA and modelB to modelS and modelD, cleanup while copying the object at Neutral level
ad7236b enzcomplex pool cleaned-up
8fce41c indentation corrected while writting annotation for enzymecomplex

git-subtree-dir: moose-core
git-subtree-split: 1271dcd74baf95a973debcdef0fc8b348010bb78

cddc3bd16d Merge pull request #265 from upibhalla/master
5856ac1fa7 Fixes for travis.yml
219f474a2e Fix to HSolve to prevent segv during destruction. Update to rdesigneur to not create HSolve when turnOffElec flag is set
9ca16e8246 Merge branch 'master' of https://github.com/BhallaLab/moose-core
58e630b4dc Updates to the Voltage clamp modules. The key thing to note is to use the standalone VClamp object in preference to individually building the circuit with DiffAmp. RC and PID.
12cf83e17a Updates to Hsolve to be able to delete and recreate it. Still problematic for HHChannels. Also added Vclamp to the rdesigneurProtos.
3dc99b53e6 Changes made to object name which had number in starting
3ec52cd9e4 Small bugfix to rdesigneur
241c3d59cb Use sys.executable to execute test. It breaks on python3.
f527490ff0 Fixes to rdesigneur to use the new system for cross-compartment reactions
501ff45939 Major cleanup to get rid of legacy cross-compartment code
f4b4...

0cceb29 packaging related changes (#262)
dc861b2 Prepare binary distribution before installing  (#261)

git-subtree-dir: moose-core
git-subtree-split: 0cceb296d06cf021f4fb7120d3f4854c4b219143

f38dc5d On tumbleweed, cmake returns python3 default but python-numpy is python2 version. Won't fix it. Its a upstream problem.
REVERT: f1dcea8 Install in debian layout in packages. Added option in setup.cfg file Its delicate solution. Added a note.
REVERT: 5a73acb Finally. Needs to write setup.cfg file to make /usr/local  and /usr prefix consistent.
REVERT: d7c41e4 bdist_egg is more consistent on both RPM and DEB based systems.
REVERT: be42fd2 Merge commit 'bcf5c52d' into chennapoda
REVERT: d27db9c Do not use -p switch. its not easy to get required info from all linux-distributions.
REVERT: e667953 Fixed message to set in cmake.
REVERT: 8523290 Fixed typo in command.
REVERT: 0b125f6 Fixed typo in cmake file.
REVERT: f3118f0 multiple fix to build system. - dont use python setup.py install . It does not work anymore if --prefix   directory is not in PYTHONPATH. - Use python setup.py bdist -d INSTALL_DIR and let cmake unarc...

f1dcea8 Install in debian layout in packages. Added option in setup.cfg file Its delicate solution. Added a note.
5a73acb Finally. Needs to write setup.cfg file to make /usr/local  and /usr prefix consistent.
d7c41e4 bdist_egg is more consistent on both RPM and DEB based systems.
be42fd2 Merge commit 'bcf5c52d' into chennapoda
d27db9c Do not use -p switch. its not easy to get required info from all linux-distributions.
e667953 Fixed message to set in cmake.
8523290 Fixed typo in command.
0b125f6 Fixed typo in cmake file.
f3118f0 multiple fix to build system. - dont use python setup.py install . It does not work anymore if --prefix   directory is not in PYTHONPATH. - Use python setup.py bdist -d INSTALL_DIR and let cmake unarchive and copy it   to desired location. This is much better solution.
03d5899 Use bdist instead of install for creating binay distrution. During installation, untar this to destination.
a08658e Tweaks to setup.cmake.py file.
c5f1d91 Test on travis.
6b32fde Merge commit '6d651b60'
324a20c Merge commit 'e0b8959c'
59f6e9e On debian/ubuntu install-layout option is set to deb. [skip ci]
62201d9 Merge commit 'f80ae40d'
9b81dfc This fixes moose but a better solution to install pymoose in moose-core must be found.
7e27f80 Merge commit '6f7697fb'
939c734 Merge commit '627f1ce1'
4775933 Merge commit '7b3c355a'
43c0674 Squashed 'moose-core/' changes from d4417dcffd..2657e3345e (#222)
8c9ad49 Fixed the syntax causing failure.
397efaf Handling MOOSE_VERSION is better way.

git-subtree-dir: moose-core
git-subtree-split: f1dcea850568ddaabc765771566ab93891ceb312

49d5b3ef6b Merge pull request #255 from dilawar/master
f498d7c6a4 Merge branch 'master' of github.com:dilawar/moose-core
c09dd9936f Cut down on unneccessary looping. It is logically equivalent to original block.
aab34e125d Merge branch 'master' into master
3568083113 replace has_key with python3 compatible statement.
026d0a39b1 updated pre-commit config.
b811def3bd Merge branch 'master' of github.com:BhallaLab/moose-core
5bc1e1410a Merge pull request #254 from upibhalla/master
b08b888f56 Merge branch 'master' of https://github.com/BhallaLab/moose-core
945fb6b961 Added funcDt to rdesigneur arguments, set sensible defaults
760f554966 Update Function.cpp
8e9bcb58ac Merge pull request #253 from upibhalla/master
2f8dc9fcfe Merge branch 'master' of https://github.com/BhallaLab/moose-core
b55e1a74ea Update to Synapse to permit set/get access to addSpike. Cascaded onto all SynHandlers. Update to rdesigneur to permit fullscreen display of Moogli.
6eca687a6...

0c33b2c333 remove setup.py. It has been renamed to setup.cmake.py to avoid confusion. This file is to be used only by cmake.
079730d06d Added missing package data.
59d374fa48 removed deprecated setup.py file.
9d3f7439f6 Merge remote-tracking branch 'origin/chamcham'
28ded4be72 matplotlib is not essential dependencies in tests or in any moose import. If NSDF support is not found, do not fail the test.
b7294b2814 More informative message if plot utilities are not loaded.
4678f1a263 Merge branch 'master' of github.com:BhallaLab/moose-core
667a3d254f more detailed error message if neuroml2 import fails.
5d504a5a1e Merge branch 'master' of https://github.com/BhallaLab/moose-core
c5c5854fe8 Added extra args to setup.py.
07f19011c8 install using debian layout.
0c3c2b7416 Merge pull request #249 from dilawar/master
03951bd314 When build in DEBUG mode, we never go to negative values in this test script. This causes test to fail on some unix platform in DEB...

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...

33d4803ee Merge pull request #228 from upibhalla/master
c9e9fa6fd Update test_muparser.py
419661b6e Update test_muparser.py
7c8ca61a6 Merge branch 'master' of https://github.com/upibhalla/moose-core
b13fc98cc Fix for muparser tests
7eefdca47 Merge branch 'master' into master
1ad271b07 Merge pull request #229 from dilawar/master
30fe94cda Optimizations for rdesigneur in _parseComptField function
d862de4e9 Merge branch 'master' of https://github.com/BhallaLab/moose-core
3eef327f1 Added instructions on what to do post-build.
985af4e11 Fixes BhallaLab/moose#224 and BhallaLab/moose-core#230 .
917d68db0 Merge branch 'master' of github.com:BhallaLab/moose-core
586d48a62 Merge pull request #222 from hrani/master
3c7ce10fa New line added
e7c8d0e81 Merge branch 'master' of http://github.com/hrani/moose-core
7ce91a0f2 import rdesigneur.rmoogli as rmoogli is added at init file, otherwise script that uses rmoogli gives and error "NameError: global name \'rmoogli...

e5ba823ba Merge pull request #227 from dilawar/master
9742b9e87 auto_ptr -> unique_ptr .
6f6015e46 scaled down chemDt and diffDt.
68c7001fc Added test.
c57990604 Fixed import issues in rdesigneur.

git-subtree-dir: moose-core
git-subtree-split: e5ba823ba8abd740f2d3323a5dd0c29f727309d0

268a28862 Merge pull request #224 from upibhalla/master
3ab452e97 Fixed test_nsdf.py. It had relied on the old (and incorrect) function of the spike message to the Table. I have now updated the test_nsdf.py to work with the fixed version of the Table.
616f33a60 Fixed spike timing functionality in Table class. Incorporated into rdesigneur so that tables can record spike times for saving, and users can plot spike times as a dot raster.
7f372b6aa Merge pull request #223 from upibhalla/master
186e91d68 Merge branch 'master' into master
d91a681bf Fix on diffusion scaling in spines, and added Pool::volume field for plotting in rdesigneur.
41c71b147 Merge pull request #221 from upibhalla/master
e27ef8a45 Merge branch 'master' of https://github.com/BhallaLab/moose-core
b07046e15 New Neuron::getSpineIdsFromCompartmentIds function, needed for rdesineur to connect adaptors for spine size and other spine properties.
69d985877 Merge pull request #220 from bhanu1...

2657e3345e Merge pull request #199 from dilawar/master
973dd380ba Deleted Makefile.
545b4241c8 Restore synapse folder back to 933b259 . synapseOrder is now working.
90711a865c execute_process is now used to get the extension of python module. See http://bugs.python.org/issue16754 in case build fails on some unix because of 'SO'.
5b0a529c4e We do not reply on VERSION file to create version. TODO: Use config.h.in file to populate VERSION information.
2749918927 Accessing an existing object (#198)
220128f284 Do not run DOQCS with moose-core. Test DOQCS with released package only. Do so in moose-examples repo.
ad2c63da12 Use QUIET_MODE=ON on travis.

git-subtree-dir: moose-core
git-subtree-split: 2657e3345e8b783cf22634680c7561f8dbd9f127

d4417dcffd Fixes to missing function declaration, post cherry-pick.

git-subtree-dir: moose-core
git-subtree-split: d4417dcffdd939de91bebf447ad776945c2fcc65

891f2f8 Removed trailing spaces from code by pre-commit hook utility.
0ed2535 Cherry-pick "Added connectionList field to SparseMsg to allow direct control over connection matrix. Some sanity checks in SparseMatrix to go with this"
d62d10d The bug on travis is still not bypassed. If this does not work, disable DOQCS tests on OSX.
618b4d6 Install moose on osx as well. Prerequisite to test DOQCS.
f717f82 Merge branch 'master' of github.com:BhallaLab/moose-core
908820e Lets see if this is a good workaround travis issue travis-ci/travis-ci#6522.
e251f53 Lets see if is a workaround fixes the OSX bug.
4ff7cff Hopefully this will fix issue on travis-osx build failure. Related to travis-ci/travis-ci#6522.
590c09e Don't use timeout in script. So that we can run on macosx as well. Removed timeout command from script. Now it can run on OSX as well.
e2f8afd Only test doqcs on LinuxOS, not on MacOSX.
dc7b55a Fix to travis-ci/travis-ci#6307.
54b8471 Merge branch 'mast...

95fe1a7 Force --install-layout=deb when on debian/ubuntu.

git-subtree-dir: moose-core
git-subtree-split: 95fe1a7b8f24b50d600d5e7c3a1d0171a809b9aa

a13dbd9 Better formatted output on running tests. These tests are moose-examples scripts which are known to pass.
1409792 Fixes to debian related python install. When --prefix=/usr is given, its installs in site-packages rather than dist-pacakges.
4f3e773 If for some reason matplotlib is not imported successfully, disable kkit import.
4f6f8b1 Fixes to debian related python install. When --prefix=/usr is given, its installs in site-packages rather than dist-pacakges.
7771173 Merge branch 'master' of github.com:BhallaLab/moose-core
8fff67d Refactoring in cmake file.
3e1e043 Minor changes to test script: Dont wait till test is over to print which test is being executed.

git-subtree-dir: moose-core
git-subtree-split: a13dbd9f31f93d915faee59f440cfe6bbc8ce428

1cbe2f063 __version__ = version( ) is both python2 and python3 compatible.

git-subtree-dir: moose-core
git-subtree-split: 1cbe2f06372d760333681952d6f81e2087c90aac

d1130b7 Merge branch 'master' of github.com:BhallaLab/moose-core
967ac3b Added VERSION info moose.version( ) or moose.__version__ returns the version. It was lost somewhere in rrefactoring the code.
457850e Added version( ) and __version__ string.
2625fd0 Added `moose.test` to test `moose-examples` online (#189)
2a822a2 Added assertion in test case and remove import of matplotlib. BhallaLab/moose#221.
2484214 absolute imports are forced with python2 as well.
6c92901 All tests passes locally with python3.
bd78e14 Fixes to import statements.
5c3811e Print time information as well.
a7e715c Inbuilt moose.test( ) functions to run moose-examples. BhallaLab/moose-core#184.
c424e0d Fixes to chemUtil import.
f29e35e Merge branch 'master' of github.com:BhallaLab/moose-core
087aad0 moose.Compartment -> moose.element( ) in couple of more place. One more (#187)
d618fe6 Merge branch 'master' into master
4aca08a Merge branch 'master' of github.com:BhallaLab/moose-core
b8266b3 Fixes to test failure. Not sure if it is correct.  BhallaLab/moose#218 .
56870e8 Merge branch 'master' of github.com:BhallaLab/moose-core
d1e37cb Changed the assert statement. Not sure if this is correct to do BhallaLab/moose-core#218. Need to ask developer for confirmation.
cf44570 We are no longer testing Makefile base flow. Only cmake will be tested from now on.
cf7ff18 moose.Compartment -> moose.element( ) in couple of more place. One more scripts passes the test now.

git-subtree-dir: moose-core
git-subtree-split: d1130b78bd744e01d045459adb20d5bcebdb34a0

ba97d4cc0 Merge commit '0014d826'
6aac85bad Follow up fixes to calcium-hsolve  (#221)

git-subtree-dir: moose-core
git-subtree-split: ba97d4cc05425dc8b8b42ee6f8976989e229a144

052318cb4 [skip ci] Moved git precommit script into script. if someone wants to activate it in her repo, rename it to .pre-commit-config.yaml and enable it
d15e77649 Removed legacy makefile #180. These appeared again because of push from subtree in moose repo. Sigh!
ed708e01b No-longer supporting Makefile based old flow on travis.
bea1f4a9d Integrated test script from PR BhallaLab/moose#218 . I need to confirm if results are correct.

git-subtree-dir: moose-core
git-subtree-split: 052318cb48027ca0c401a13be9fddd2b0d5a66b7

2c3fe7516a Merge branch 'master' into asiaszmek
9f3ffcb261 Merge commit 'e6e83b76' as 'moose-core'
be87aea0 Deleted moose-core due to dirty history in upstream moose-core.
1051706f Merge commit '48fc9733'
48fc9733 Squashed 'moose-examples/' changes from 2eb5fa888f..80169bcc5c
304173cc Merge commit 'd27e942f'
d27e942f Squashed 'moose-core/' changes from 69e0354705..b096503233
0f741382 Calcium hsolve (#218)
fbf9dbd4 Fixes to bad-merging.
2ea8560e Travis required changes after yesterday upgrade.
849103d0 Merge commit '320e525a'
320e525a Squashed 'moose-gui/' changes from d282884250..49779ba730
7fe1c2e7 Squashed 'moose-core/' changes from 2ecab963b2..69e0354705
faf993a1 Merge commit '7fe1c2e7'
edd901da Squashed 'moose-examples/' content from commit 2eb5fa888
be2d4ec3 Merge commit 'edd901da' as 'moose-examples'
423c4759 Removed moose-examples due to screwed up history with https://github.com/BhallaLab/moose-examples.
45f9e9b9 Squashed 'moose-core/' changes from b3b597f41..2ecab963b
7b366bcb Merge commit '45f9e9b9'
4c60725d Merge commit 'af3c29a4'
af3c29a4 Squashed 'moose-core/' changes from ef066f704..b3b597f41
60f3632e Fixes to allow moose module to be installed and imported (#220)
7ffff42d documentation branch merge request (#219)
ec194c8a Documentation final PR (#217)
0318bd7e Added python-lxml in dependencies.
226eb630 Added --git-ignore-branch option.
42cb3feb Fixes in timeformat of debina changelog. The debian parser has gotten very strict about formatting of time.
94e2ff2c git buildpackage is renamed to gbp buildpackage.
0fcf8252 Using dist:trusty by default on travis. Recent updated in travis Trusty's image has made installing openscenegraph-dev error-prone.
18ec171e Fixes to launcher.
6d0693d7 Changes from PR by Malav.
6e6051e4 Gettting docs from Malav pull request. Pull request is revered back.
a843c585 Local .gitignore. If exists, merge please!
813f7bc4 Adding doxygen file.
0cf3a18c Adding rst files.
24ebac50 All changes from previous repository. No new file is added here.
0f6f5d27 Squashed 'moose-core/' changes from 6099142d6..ef066f704
ec32a6f5 Merge commit '0f6f5d27'
57ffc864 Adding local changes.
cc8759c2 Squashed 'moose-core/' changes from 4f391e1..6099142
a9798ffc Merge commit 'cc8759c2'
b2fda562 Added missing Revision macro file from chamcham branch.
cc540278 Merge commit 'b4d20b7c'
b4d20b7c Squashed 'moose-core/' changes from eb878dd..4f391e1
2b8d61d3 Fixed revision issue.
5805bdf3 Added missing file after merging branches.
64799ebd Travis fixes.
b8673be3 Fixed to cmake which were causing launchpad failure.
5ace57ba Cmake changes from chamcham branch. Build for launchpad.
7bef269a Do not copy VERSION file for python. Lets find a better and more portable solution.
2ebd41f9 Updated default version in setup.py file.
25a907eb Squashed 'moose-gui/' changes from 6104940..d282884
224487f4 Merge commit '25a907eb'
02fcf721 Merge commit 'c37dddbf'
c37dddbf Squashed 'moose-examples/' changes from 7054325..8c7c00c
0ff1b77a Squashed 'moose-core/' changes from 270c880..eb878dd
2bd23400 Merge commit '0ff1b77a'
b498916c VERSION string is fixed to today's date if not given.
8287330a Enable chamcham branch on travis.
9cb49e27 Fixed for snappy builds.
debc6e63 Let cmake find path of Python.h file.
2ae2b209 Merge commit '4489d159'
4489d159 Squashed 'moose-core/' changes from 669b981..270c880
9e888548 More changes to snap. Needs to add Python.h path [skip ci]
0d29983a On master branch, the snap channel is edge [skip ci].
70fbb707 launched script is now snap friendly.
503c9ade Removed <<<<, ===  and >>> from improper merge.
de659651 Merge commit '349abe7e'
349abe7e Squashed 'moose-examples/' changes from 69062d9..7054325
7088b0c5 Added snapcraft file.
de4e03f5 added deleted files
7cb7cc7a temp deleted
0015fd23 Resolved merge conflict
15733245 temp deletion
6ed2f701 Squashed 'moose-examples/' changes from 7318878..69062d9
f890fa08 deleted unwanted files and added new files
0e491aa4 Squashed 'moose-examples/' changes from 8038f56..7318878
ccf3e614 Squashed 'moose-core/' changes from c15c1b1..669b981
593b3f73 Merge commit 'ccf3e614'
e565756c Squashed 'moose-gui/' changes from 2a1f94f..6104940
50279060 Merge commit 'e565756c'
c50a82a9 VERSION conflict file is added
24dea426 Squashed 'moose-core/' changes from 434c478..c15c1b1
ae611181 Create LICENCE
83152c5a Fixed assert by Upi
0e5351e9 Merge branch 'master' of github.com:BhallaLab/moose
9f653729 Removed generated doc from source tree.
0208d06a Merge pull request #210 from malav4994/master
ae36bc57 little bit change in docs/
55a2f09e Merge commit '628138cb'
628138cb Squashed 'moose-core/' changes from f3d0477..434c478
acafba2c Merge commit 'edb505a7'
edb505a7 Squashed 'moose-gui/' changes from 2ba6bd5..2a1f94f
fe2d8940 Deleted temp files.
88e9ca95 Merge pull request #208 from malav4994/master
12b07199 khali khali
30a89548 to put documentation in BhallaLab/moose
2936ba85 Merge commit '7c713058'
7c713058 Squashed 'moose-core/' changes from 14e2d78..f3d0477
f2b5cfdc Merge pull request #206 from asiaszmek/difshell-tests
3618469d Script testing DifShells
ac0b8002 Merge commit 'a5122cfb'
a5122cfb Squashed 'moose-core/' changes from 1b5b9a9..14e2d78
2edfcf15 Fixed docstring on example.
f95d827b Merge commit 'f0fd0e53'
f0fd0e53 Squashed 'moose-gui/' changes from e49ca7d..2ba6bd5
3324aa5a Merge commit '07ef36e1'
07ef36e1 Squashed 'moose-examples/' changes from ed3253d..8038f56
5bceacfe Squashed 'moose-core/' changes from 7c9fe23..1b5b9a9
d92afeeb Merge commit '5bceacfe'
1effa957 Merge branch 'asiaszmek-difshell'
bb650ae8 Merge branch 'difshell' of https://github.com/asiaszmek/moose into asiaszmek-difshell
6aa27cac Change order of operations to slightly improve accuracy
bc28246b Small changes to make the code more alike genesis and other moose objects
a4d7de8f Difshells and difbuffers initialize close to equilibrium
f6805f17 Add forgotten setting of helper variables to zero after calculations
f32bef60 Add state in t(i-1)
a7bf1414 Fix wrong definitions
118484ec Fix errors in volume calculation
08f2e43a Indentation
d0c7b374 Add MMPump to scheduling and makefiles
e5152fe3 Add MMPump to DifShell
91d10224 Implementation of MMPump
8cb32de5 Add ticks for DifBufferBase and DifShellBase
a56de071 Fix bugs: DifShell now compiles and seems to give correct results
4a99131d Fix a typo in zombify
7537d1c7 Rewrite DifShell. Inherit from DifShellBase
7b9b3174 Write base class for DifShell
c4bcadef Indentation
8cd96163 Implement exponential Euler for DifShell
5d2cb8a8 Move source messages to class. Correctly initialize Faraday's constant
41b15f25 Move source messages to class
1a014489 Make DifBuffer look more like other moose classes and fix ticks
8d67d853 Add DifBuffer to clocks
2dbbc214 Add DifBuffer to compilation
f411dc8e Fix no ticks when initializing difshells warning
65569a6d Remove useless variable
e4146c12 Reintroduce an old version of DifBuffer from moose
2feb865c Merge branch 'master' of github.com:BhallaLab/moose
f6df6f4d moose-core is tested on osx. No need to test this repo with osx.
a853687d Update index.rst
d9223838 Merge branch 'master' of github.com:BhallaLab/moose
88562db0 - Removed multiple conf.py file. Only a single file at top-level directory. If neccessary, this can be symlinked to other folders as well. - Cleanup in index.rst to make sure whole document build as whole one. - Cleanup toplevel index.rst. Removed non-existing entries. - Section numbers is currently disabled. It can be enabled in top-level `index.rst` file by putting `:numbered:` in ::toc.
10f313d3 Removed multiple conf.py file. Only a single file at top-level directory. If neccessary, this can be symlinked to other folders as well. Cleanup in index.rst to make sure whole document build as whole one.
be6e7176 Moved to cmake folder.
b94543d4 Merge commit '0d12ebb0'
0d12ebb0 Squashed 'moose-core/' changes from 3f8c345..7c9fe23
51b53b52 master branch.
4d697e96 Fixes to BhallaLab/moose#204.
ea50d83b BhallaLab/moose#204.
c0e1ef95 documentation gets picked up for some of the python class
d184c46d Set theme jekyll-theme-minimal
5304fbe8 Update index.rst
25a35d08 Instead of moosegui, install moose.
9aa87c84 Do not run gui tests.
f71343d4 Merge commit '04170cb4'
04170cb4 Squashed 'moose-core/' changes from bd86fb5..3f8c345
028b5cfc Updated.
1c9726ca Fixed, python2 incompatible print function use.
1aeca36e Some updates to fix static hdf5 libraries.
a844183e Added missing file.
46ca6d52 This project build pymoose, gui and its examples. TODO: ctest must check each example as well.
6baece11 Builds whole moose project.
625917a7 Added some sanity tests for both moose and moogli.
00a12e20 Squashed 'moose-examples/' changes from d7e9a97..ed3253d
bb393507 Merge commit '00a12e20'
1680bac6 Squashed 'moose-core/' changes from 6a6bcc1..bd86fb5
0e3c74d8 Merge commit '1680bac6'
ba8772f1 Changes to cmake file so that we can find the correct static library.
6bc4ced8 Fix a development warning in cmake.
8b3f4807 Removing shebangs from the python scripts. These scripts were never called as standalone executables.
03d15d00 Since none of the following files was executable, removed shebangs.
7ab6aa49 Removed shebangs from python scripts.
e3c8a188 Fixed the address of Free Software Foundation Inc.
2f9a0597 A test commit to package hdf5-devel BhallaLab/moose#201.
85a3b245 To run this file libsbml needs to be installed and not compile with moose as its at python level
909169d7 Merge branch 'master' of https://github.com/BhallaLab/moose
c5e7e5a3 Update README.md
15d6475d Fixed another typo in FindGSL. Library list was converted to string.
efd282df Fixed a typo in FindGSL file.
10e3fee1 sourceforge mailing is depreciated
68ca4c9b FindGSL also looks for GSL_VERSION now.
079927d7 Fixes to travis failure.
cbee1629 Update index.rst
eeb6e80d Updated CMake and FindGSL.
284b9e3c Fixes to extension bug.
7a560392 duplicate rdesigneur folder exists one level above
28caf3bb removing duplicate folder
da83bc1f rearrange python documentation as per website
64ec9591 Some fixes to static library dependencies [skip ci]
3bb481d5 Added script to merge changes from this repo to all subtrees. [ skip ci ]
4286c436 Cleanup in cmake files. Using bash scripts to generate subprojects. This way I can handle environment variables cleanly.
21f5e65e Clean up in README file and deleted unwanted files and folders
ff37cca1 Merge commit '76b621'
76b621c0 New hdf5 version generates static library with different name. Fix it.
78fe32b7 clean up
6f5289fc removing rst file which can be generated from "markdown" folder
474cbb26 deleting this folder
fe82fab1 Merge branch 'master' of https://github.com/BhallaLab/moose
7613fc1b Doxygen_1.8.9 is added which should be used to generate doxygen files,Rdesigneur folder is creater under "user" folder and corrected index.rst file is updated, deleted "html" folder,Rdesigneur markdown file with correct date,"snippet " and "tutorial"folder is created with relevant files to generate html files
f1d6aba3 This should pass on travis.
d0a6060b Squashed 'moose-core/' changes from 9eeca0c..6a6bcc1
7143a53a Merge commit 'd0a6060b'
b5a7c2e2 Squashed 'moose-core/' changes from 14cf2df..9eeca0c
15f18b90 Merge commit 'b5a7c2e2'
fef5e24c Merge commit '273124ec'
273124ec Squashed 'moose-core/' changes from 343cb02..14cf2df
7822c60b Merge commit '8bfef2e6'
8bfef2e6 Squashed 'moose-core/' changes from ed5f015..343cb02
fb9fba5e Merge commit 'aca40347'
aca40347 Squashed 'moose-gui/' changes from 1e5f537..e49ca7d
3c9138df Squashed 'moose-examples/' changes from 0494d05..d7e9a97
2f085e3e Merge commit '3c9138df'
6c8f2012 Squashed 'moose-core/' changes from c2c32b9..ed5f015
58de93dd Merge commit '6c8f2012'
9e7e1fa6 Update README.md
5bbb12f8 clean up, all markdown files will be placed under docs/user/markdown, images under /docs/images one can use markdown2rst.py to convert Rdesigner,MooseGui and Kkit docs which places the file under docs/user/GUI and docs/user/Rdesigneur and further one can use makefile to convert to rst to html which will be placed under _build folder in respective folders
5bdccdaf various cleanup in doc folder
d3dbb49e Cleanup in the images
ad5e43e0 function is replaced with summatation
fdca7481 Merge branch 'master' of github.com:BhallaLab/moose
f54fffde Pass moose version from command line BhallaLab/moose#200 .
eca66f7f Update README.md
b33e7096 Update README.md
a77c09fa No need of dpkg and sbml c++.
e5ac4a01 Merge commit '96580978'
96580978 Squashed 'moose-core/' changes from a15a538..c2c32b9
bcbc1c1a Added documentation sent by Upi.
e3fb24b3 Added documentation from Rahul.
7467592c removed USE_SBML=1 from the file "
5fddb6d2 removed all libsbml dependency
66617caa Changed build number to match all gsl packages. This should fix the build.
223ce2fa Fixed the link of gsl binary package version 1.16. Later I should upgrade the build environment from precise to trusty.
459dc9cf Fixing the upstream link of gsl debian package.
b53f9021 A test case test_sbml_support.py which inturn calls to write moosewriteSBML which needs networkx which is added as a dependency for travis
65960cdf fixed broken path which was due to doc folder moved from moose-core to moose
6b07347e update date correction
3cc12841 update date correction
0c31b014 Clean up in the document
df31522a Added axon model and documentation for rdesigneur
1628fa03 Squashed 'moose-gui/' changes from 1ef13c9-1ef13c9
f0054556 Oops moment. Fixed the typo in compiler flag for apple-clang
0d098851 updated apple-clang flags in compiler. Fix to missing symbols from stl.
2c8c4dcd Squashed 'moose-gui/' changes from c21a557..1e5f537
f68eadb5 Merge commit '2c8c4dcd'
5cf6177c Squashed 'moose-gui/' changes from bc510df..c21a557
65698f84 Merge commit '5cf6177c'
d2a4eeed Merge branch 'master' of https://github.com/BhallaLab/moose
382e5d39 Fixing version.
dbb2ab99 Use rsync instead of cp.
3d82717f Merge branch 'master' of https://github.com/BhallaLab/moose
9a7917a1 better script.
2247ee17 Updated. Try on strudel.
ca9c7ff8 Updated script.
5e5b17f8 Fixing scripts to build DMG file.
2fed9a35 Added packaging script for mac.
63601c5b Added scripts to build packages for MaC.
c8e99801 Squashed 'moose-gui/' changes from a3d3a06..bc510df
498a2aee Merge commit 'c8e99801'
2af833a0 Squashed 'moose-core/' changes from 1318029..a15a538
1eb469f6 Merge commit '2af833a0'
c31c9eb8 Scripts to pull the subtree into moose working tree.
e402660f Update index.rst
ba5c43de Merge branch 'master' of github.com:BhallaLab/moose
61754bb9 Needs more cleaning. This is for testing how document looks on RTD.
9db92946 Added streamer class to list
a83a2caf Fixed some more image links.
f6be0690 Fixed author and date directive. Integrated with other docs.
930a7955 Added images.
7e7d77a3 Added Rdesigneur documentation also.
30f4f342 Update index.rst
8637590a Merge branch 'master' of github.com:BhallaLab/moose
13ca5cc1 INstallation page is almost over.
eb128ef1 Update INSTALL.md
66a50a05 Update README.md
147301f6 Added links to issue in rst.
b7416fbf Update README.md
6db7335e Merge branch 'master' of github.com:BhallaLab/moose
0e0b838c Fixed formatting and added issue page.
7856aa34 Update .travis.yml
b305d886 Fixed formatting and added more install instructions.
b7327320 Merge pull request #196 from BhallaLab/dilawar-patch-2
6f5ceea5 Some more changes to make formatting consistent with RST
7d9c3f84 Update index.rst
f8908825 Formatting can be fixed on github now.
6d3d8491 Fixed the link to documentation on RTD
e9d20501 Changes from md to rst
d4ba03e0 Added markdown install instructions, need to update on github with proper rst formatting.
67fea2d3 Layed out the structure of documentation for installation, changelog, known_issues and release notes.
6b6828a2 Added missing file which should have installation instructions.
36c23d2e Merge branch 'master' of github.com:BhallaLab/moose
8012451a Enabling todo.ext with sphinx.
84cfe95d Fixed typo. Added a todo not.
cd5ea17c deleted unneccessary file.
dce53aa8 Some more rearranging to make sure the <no title> does not appear in final documentation.
266aec94 Rearraged documentation a bit to suit the latest directory sturcture.
ed088fcb Few more changes for local build testing.
ff035060 Fixed a typo in readthedocs-pip-requirements.txt file. Added file with instruction to install.
a49282d6 Added numpydoc as a dependency on rtd.
f5515c92 Started template for building and installing moose.
9e4bc321 Fixed logo path for latex latex build on rtd.
790a32df Moved docs to moose. Removed temp directory.
aa2deb82 Adding docs from moose-core.
a72f52bb Adding document folder to test building on read-the-docs.
7f43a2ec typo in WITH_CUDA [skip ci]
008a3f19 Added /usr/lib64 to ldconfig. SBML installs its library to this non-standard path.
edccf663 Making test command empty.
7d355710 Passes on ghevar.
d1d5740d Merge branch 'master' of github.com:BhallaLab/moose
1f4535a6 Don't run ctest before install. Needs to find a better way to integrate test.
79c42058 Update INSTALL.md
847cd59c Update README.md
bdf8b8c3 Update README.md
b9d2394b Added file to install.
a7eacd0c Updated readme file.
082ae66c Merge branch 'master' of github.com:BhallaLab/moose
bcbd49a6 Issue #195. Using external project to simplify the maintainence. centos-6 has cmake 2.8 which is now the minimum version required to build moose. Revered back Makefile in moose-core. Update README.md Fixed indentation.
513ccd28 Update README.md
894f881e Update README.md
0cda31e2 Squashed 'moose-gui/' content from commit a3d3a06
69456794 Merge commit '0cda31e2' as 'moose-gui'
e8f7e79c Squashed 'moose-examples/' content from commit 0494d05
c376ead0 Merge commit 'e8f7e79c' as 'moose-examples'
6b27e69e Squashed 'moose-core/' content from commit 1318029
64e5323b Merge commit '6b27e69e' as 'moose-core'
658e5413 Added scripts to pull subtree.
0a90e72d Removed submodules. Need to add subtree
8e0759fc After package is built, run the post-package tests. #BhallaLab/moose#194
39a577d2 Added python-nose as missing dependency. It shouldn't be there. I think it is needed to run python test
d64ae69f Merge branch 'master' of github.com:BhallaLab/moose
be28ed89 Don't check for gpg key and don't sign the package. This should fix the gpg key related exceptions.
47f92cf4 Don't pack libmoose.so. The lintian was complaining. libmoose.so is only used with moose.bin (for running unit-test in debug mode).
f691dc82 Do no install libmoose.so in package. Just install python interface and moosegui binary.
f58259ce Added cdbs to build dependency Travis was failing
25ae3229 Added wget to dependencies Fixed formatting error in yml file.
48dd2bc5 Install deb package instead of building from source code. --git-ignore-new  to git-buildpackage.
98579ee9 Added two very basic tests. Just import moose and moogli.
44b05aa9 Merge branch 'master' of github.com:BhallaLab/moose
d43d60e6 Instead of building source code using cmake, build the debian package whenever there is a commit.
00c90e68 Added debian folder to create debian on travis.
a7379219 Update README.md
63eab148 I should add packaing script to this repo. Ideally each merge to this repo must be tested for packaging.
1898ed1c Test pacakging.
9f2113f2 Submodules updated.
86089da2 cleanup folder too
7c25eb2e cleanup in setting up the pythonpath after the scripts where moved from moose to moose/scripts
5f77e25d update-repository is moved from scripts to moose folder which pull the code from submodule recursive
88a089d6 - moved the port file to package repo. Removing it from here. - Initialize git lfs support to add large files to repo without increasing its   size.
af869d41 Moving various install related scripts to ./scripts folder. Instructions are to be written on INSTALL.md file on how to build using this repository.
6e0544b9 make clean is also need
1afe9e87 Cleaned up readme. Added link to wiki.
58a0ad66 Updated submodules.
13dec237 Each submodule gets its own portfile.
6acd3e97 Added port file. Needs to improve the long description.
31bb3981 script to install dependencies on debian systems
99c11d77 Added build script to build all code in one go, modified update-repository to alleviate detached head issue in submodules
9c60afa1 The script now checkouts the correct branch
087fd797 Changed bootstrap to a logically correct and sensible name, modified it to checkout moogli correctly
fb851a95 Merge branch 'master' of https://github.com/BhallaLab/moose
8aeca9e4 Added new moogli, renamed old moogli
d4863ac8 Added port file [skip ci]
a7e79c66 Script to build mac bundle using cmake [skip ci]
341fab30 Added more instruction on how to build and install.
0da8d805 Added information about packages.
cee4e0e3 Update README.md
1dc477d0 merging submodules
f9e96888 Integrating changes from submodules.
77d497a7 Merged changes, fixed the build, updated readme.
479227a0 Updated submodules.
fbb7586c Merged submodules.
08c86ac8 Updating submodules.
3f84a9dd Updated submodule.
5e052a24 Merge branch 'master' of github.com:BhallaLab/moose
1ea6378c Merge branch 'master' of github.com:BhallaLab/moose
c49218ca Replaced tab with spaces, travis file now validates
a1091478 Corrected travis file format, removed the comment.
be72340a libsbml5.9.0 is support not libsbml-5.11.4
2f0111b3 Fixed travis. Doxygen and python-sphinx are in.
ff5f2177 readme with WITH_DOC option explained.
f60abf55 Updated submodules.
33e9ce9e Script which runs all demo and snippets in non-blocking mode.
4411e091 Updated readme file with details about subprojects and location of packages.
7a13e693 Updated readme.
0e1147cc Using pip to uninstall the moose-python. Also using cmake -P to install generated target rather than running make install.
1cf48e5b The uninstall happens successfully. Need to test if make install aslo runs make again.
df41948a make install also runs the target build. This should be fixed.
33418bff Still does not uninstall.
2bb84736 removed temp file.
76f75655 Added simple makefile to automate the process of installing, uninstalling the submodules. Testing needs to be done.
5a2e1536 make install instead of cmake install in cmake file now.
ac2b19f1 Merge branch 'master' of https://github.com/BhallaLab/moose
9be7ccd4 uninstsall does not work yet.
684f5183 make uninstall still not workinng.
f7fc67dc Updated readme file with installtion details.
ca1055fd A bootstrap script to pull the submodules and init them properly.
90d47d85 Fixed a typo in travis file.
cbb80549 Fix the typo in travis.
ed95e307 The install prefix in travis is changed to alocal path.
f2d679ac ctest --output-on-failure
1779f618 integrating new checkin.
a6f10072 This installs and build fine.
846f27c2 moosegui script.
876dc6be No point in making local package. Use launchpad and osc for that.
20fbde5e Added debian folder for launchpad.
26e6bbe5 Tiny changes. Paths of installation.
f706a4a6 Added moosegui scipt.
9d5c34ef moose-gui is installed to <prefix>/share/moose/gui folder.
eccc5bb2 Added travis for meta repo.
8a4afb1f Added readme file.
92919e07 Added submodules.

git-subtree-dir: moose-core
git-subtree-split: 2c3fe7516a3a462c6e408a0e8b3b8f0254c5e903

git-subtree-dir: moose-core
git-subtree-split: fe77059f98c5a6cab2e106f78b7eb505f4f62850