consistent.

76564f0873 Fixed package url. Using 14.04 instead of 12.04.

git-subtree-dir: moose-gui
git-subtree-split: 76564f0873dc24ba1fb5af5c73ebfed6b9721d14

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.
6eca687a68 Added deploy section in travis. Deploy on PyPi. Needs to add script t… (#251)
c8f9101621 Fixed cmake error on osx when not compiled in debug mode. Affect only >=cmake-3.6
f6ab07d0ef Update README.md
0d3f850fe5 Update README.md
cc94e3bd61 Set VERSION_MOOSE only
948406bc17 Marked as release candidate 3.2.0rc1.
b675c4d1bf Fixed build failure due to newline in output variable.
bf8d39351e Add git hash to version.
d95e58650f Python wheel for pymoose (#250)
edbb4ce966 Fixing VERSION; MOOSE_VERSION; project name is moose-core.
e245ef6a4d call project moose-core.
9061927ca7 Build GSL with fPIC.
230466ff32 updated dockerfile. Added missing gsl library.
69bc228b34 rename to pymoose.
41ef965e75 Heredocs are not supported in docker.
f370b4aa19 Docker file has the script inline.
b8b9679943 Time to merge into master branch.
9c7241f1bd Wheels are built. Now use manylinux docker file to build them.
c439f55046 Build in manylinux environment.
108f71809d Wheel is created.
d08ddf290f removed file.
9d654b4cba no need to link with PYTHON_LIBS.

git-subtree-dir: moose-core
git-subtree-split: 49d5b3ef6b585ff1c64734f447ac08cd67d9996a

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 DEBUG mode.
2e6524b9cf if libneuroml and pyneuroml is not found, do not load NML2 support .     Ignore silently. Print help message when user call NML2 related function.
30fc7d0636 Turned it into a module so 'absolute_import' can work.
d9853b5322 Merge branch 'chennapoda'
00170beb15 Merge pull request #247 from dilawar/master
b0adf404cc Added libneuroml and pyneuroml in dependencies on travis.
0d831227cd renamed tests/python/neuroml to test/python/_neuroml so it does not clash with import neuroml. Ready to be a PR. Integrate BhallaLab/moose-core#246 into moose import system. Exposed moose.mooseReadNML2 function for gui etc. Added dummy docstring. Deleted redundant files.
792b4e7d43 Added nml2 test script.
1e3413349e Integrated NML2 support BhallaLab/moose-core#246 Made is compatible with python2/python3. Needs testing before merging into upstream.
596b9d2e1a Merge branch 'master' of github.com:BhallaLab/moose-core
740f9c6eb4 Added jenkinsfile for local testing over jenkins.
7dcd970481 Merge pull request #246 from pgleeson/master
bb8c8a94b3 Minor edits
c2872f7d4e Merge pull request #2 from BhallaLab/master
a520f8aed8 t test script to test BhallaLab/moose-core#242 .
d6ba37e003 Merge pull request #244 from upibhalla/master
d8ad6d6e53 Exposed field Stoich::allowNegative to control whether the solver permits negative values in simulations.
0e460485e5 Merge pull request #243 from upibhalla/master
f2553db028 Merge branch 'master' of https://github.com/BhallaLab/moose-core
32430d1f1d Oops, another silly error in the negative concentration test.
a2fee560b8 Merge pull request #242 from upibhalla/master
53244691c4 Merge branch 'master' of https://github.com/BhallaLab/moose-core
369b26c369 Fixed major error in GSL solver in VoxelPools. I had introduced this when putting in check for negative concs, for some reason first set of tests didn't identify this bug. Works for several tests now.
394032dcfe Merge pull request #241 from hrani/master
bce317e34c Few clean up while reading and writing from/to SBML
d7dbc9997a Added flag Stoich::allowNegative. This defaults to False. If true it allows pools to take negative concs, needed for general ODE solutions but illegal for chemical systems.
158db52f1f Merge pull request #238 from BhallaLab/brew
8c93330ca3 Improved temperature dep
afd925b101 Merge branch 'master' into brew
818ad2df5f Improved unit handling
54b505d6da Merge pull request #237 from hrani/master
fe628d39ae Test homebrew formula as well on travis.
337bab4ce5 Update .travis.yml
2b54325545 clean up in print stm
a592ec8875 existence of model path is checked, clean check is made for enzyme and function before writting into file
1398206c9d Merge branch 'master' of https://github.com/BhallaLab/moose-core
3b920f3fc4 Improvements
3cc29d3fe5 Improved saving of rates
24710aa103 More general
2a1b06477f Installable
f2188a3903 Read populations/inputs from nml
fc689f018f Allowing -nogui
1bc8a23cfc qMerge branch 'master' of https://github.com/BhallaLab/moose-core
abf8e5465a Now works with libNeuroML
2ec562cba7 Working HH example!
010b0f9db8 Passive test on new cell
2cb3edaf20 Working passive example
cdfb8e1fc7 More tests
3f6de38f50 Not completely failing...
152857db78 Ignore build dir
2b36a6b4d8 Update example files
f7228682d4 Merge branch 'BhallaLab-master'
61453b8a9c Merge branch 'master' of https://github.com/BhallaLab/moose-core into BhallaLab-master
9cc0e101d0 Merge branch 'master' of https://github.com/BhallaLab/moose-core
f3c6a71b9c added python3 for compliation which was removed
0920cfaf1b instead of importing rmoogli in init file replaced in rdesigneur.py,checking if travis passes for python3
6a4b102099 Updated pre-commit hooks in chamcham branch.
411a71798a Updated moose_test module. Function test( ) can accept timeout parameter.
226e8662c4 Force --install-layout=deb when on debian/ubuntu.
7032ffdfe7 Fixed kkit tests.
f0ec0c3759 No inbuild test should depends on matplotlib.
ccb43d16a7 Fixes to debian related python install. When --prefix=/usr is given, its installs in site-packages rather than dist-pacakges.
65954b71e8 Minor changes to test script: Dont wait till test is over to print which test is being executed.
327d0aa4ff Updated sanity test with version information in ctest.
8bc1994345 __version__ = version( ) is both python2 and python3 compatible.
fac27902c2 Added __version__ string in __init__.py file.
ab03233775 Merge branch 'chamcham' of github.com:BhallaLab/moose-core into chamcham
a567aa1d5b Added __version__ and version( ) info.
85f1f1ef2f Added `moose.test` to test `moose-examples` online (#189)
6fe5f5c7c4 Using absolute imports in 3.1.3  (#190)
027e40bfdb Fixes absolute import in chamcham branch as well.
474faafe51 Python3 compatible import mechanism,  NML parser fixes (#188)
4e915e0b0f Fixes to chemUtil import.
13e3cb8ad8 More import fixes.
25d3c43252 Merge branch 'chamcham' of github.com:BhallaLab/moose-core into chamcham
2ed651fc37 Fixed the plot util function (again).
4d4b275958 Deleted old/junk functions. Force python2 to honor python3 style import.
b899ada38b More fixes in plot utility library. If some function breaks on python3/python2, do not import the whole utility library.
f2a6d7b8d1 Removed junk utility functions. Forced python3 import style (PEP8).
a7a03c7852 Some renames.
ff84f3d0dd Added another function plotTables wrapper on plotRecords .
2fb7676353 Fixed error in plotRecords functions.
b32a39b444 Merge commit '9355916f' into chamcham
1eb8ca281c More changes to NetworkML BhallaLab/moose-core#218 .
0e0615c816 Fixes to #186 are integrated into chamcham release.
4a0d4f37df Fixed a typo in install instructions.
3498c1801a Bumped version to 3.1.2
fc14920945 Added AUTHOR and bumped the version up.
b5898ac306 Added missing 'moose.chemUtil' module.
d7c938283e Fixed revision issue.
1c1bbe059d Added GetRevision macro to get current timestamp.
ba9ec990eb Write the version to VERSION file so setup.py file can use it.
4e9aa317f2 Not reading version file anymore.
315837d775 Changes from master branch.
557184389c Packaging related changes from master branch to chamcham branch.
4d5c6a5d87 NO version file should be in-source.
de25310563 Merge commit 'efa006c9' into chamcham
52eeb541ef CMake related bugfixes from master branch.
9df1ba7fad Merge commit 'efc1324a' into chamcham
815a79a9db Fixed the VERSION file creation.
726e71c063 cleanup in demo, filemenu links
d5c5391949 adding missing files
5291f7c4fc missing folder/files
760274cbcc Changes made to gui to work with moose-core
be92816c83 Merge commit '36ca236d' into chamcham
74b43c3ef6 Enabled travis emails to developers for this release branch.
76bf85476e Related to #169 Dropped the support for VERSION file. 1) It would cause lot of merge issues if VERSION file is left in source tree.
00ea9d3c10 Close #169. Renamed MOOSE_VERSION to _MOOSE_VERSION.
da0db901b4 Changed MOOSE_VERSION to __VERSION__ since new cmake 3.7.1 sets it to empty. See cmake policy CMP0048.
a6a05eff71 Merge commit '41be11d5' into chamcham
b8a8b6d150 hotfix from branch issue167.
8a6346d029 Merge branch 'chamcham' of github.com:BhallaLab/moose-core into chamcham
7d4cf8b84b Changes from master branch. Test on macosx as well as linux. Quantified import to avoid self-recursion. Ran autopep8 on files.
de3d964f65 Changes from master branch. Test on macosx as well as linux.
9156b897da Fixes for issue #164. Also hotfix for branch chamcham.
34429e228e Using correct import
e2574fb25f Uses the MOOSE_VERSION value from CMakeLists.txt in setup.py

git-subtree-dir: moose-core
git-subtree-split: 0c33b2c3339d8a43f9de1fb31573cbea621739f6

5d7f7633f Too many python3 incompatibility issues. For now on, gui is only compatible with python2.
599dbd6d3 Testing with python3 as well. If python3 support is not intented, we can fallback this commit.
83be02e60 changes made after addition of groups, some of action are implemented
24cba7d6f  some more clean
cdf16259d at file load dialog, a clean round trip is done
08fc6cd0b at loading time, kkit model is checked for the atleast for 1 compartment and atleast 2 species
373efaa6d check if moose object already exist, if yes use element, else create a object
e37368553 in mousePressEvent further check made for group object along with compartment and other moose object
ae6265ed8 travis is failing, while installing python-libsbml trying to fix providing -H
c70f30098 some clean up with co-ordinates while saving into XML files
dd177002c wrong comparsion with path and moose object was done corrected
24ecdccac some clean up with groups
84be91147 changes made ...

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

6e8a629 Merge branch 'master' of github.com:BhallaLab/moose-examples
d4e4fb0 Increased timeout to 60 sec.
b4ca7ef Merge branch 'master' of github.com:BhallaLab/moose-examples
2628bfb Potential fix to travis-ci/travis-ci#6307.
56c2805 Argument 1 to run_script is optional, by default its value is 60 secs.
24c45c2 Increased timeout to 60 sec.
c4395a4 Using ruby2.2 for jekyll on travis build.
8917843 Removed wait statement after parallel section.
f75bf0c Install travis using gem2.2
1a62999 Merge branch 'master' of github.com:BhallaLab/moose-examples
3f7399f Added colors in script itself. Download and test travis is called from .travis.yml now. At the end of test print summary of models. Fixed typo in bash-function. Passes on local machine.
516885b Fixed typo in bash-function.
ed06ca1 At the end of test print summary of models.
6778aed Download and test travis is called from .travis.yml now.
bf1cae8 Added colors in script itself.
2abbc43 Timeout with 3 minuts.
6316728 Added script to test genesis scripts.
9127f4f Testing deploy again with changes to config file.
416f650 If travis fails to generate static page, do not consider it as build failure. Update to travis script.
4715089 pip install python-networkx to pip install networkx.

git-subtree-dir: moose-examples
git-subtree-split: 6e8a629e31d05bc2c98ce817e7fcde8fd0d5c2cd

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 'master' of github.com:BhallaLab/moose-core
18c8759 Test docqs agains gsl version/python2 moose-core.
d6ca9cc Fixes by pre-commit hooks. - Removed trailing whitespaces automatically. - insert * coding - utf8 * line on top of each python script automatically.
d4a6939 Using version v0.8 now.
f944afe Added pre-commit pip install pre-commit --user to activate it.
030bfe0 Merge pull request #195 from dilawar/master
d00a5d1 All tests are passing and new code is protected by appropriate macros.
1959771 Merge branch 'async' of github.com:dilawar/moose-core
0f6aba0 Merge branch 'master' of github.com:BhallaLab/moose-core
ac0a4cd Added note on what to do.
b3bf54e Slower version but results are same.
6bc71c9 Async version is slower (80sec vs 70 sec).
d838267 asyncing clock is not producing great results.
eeaafbf Implemented first parallel version.
166f84e Equivalent serial code which can easily be called from std::async now.
e09a0c1 Merge pull request #194 from dilawar/master
d2d1097 Added MACRO to integrate serial and parallel version.
e68acd6 This is good but do parallelism at Clock.cpp
4cebbca Rdesigneur has python3 default import : absolute_import.
f431cca Merge branch 'master' of github.com:BhallaLab/moose-core
85afa6d Some changes to Ksolve. Still seg-faults.
47e023e Time to test the Gsolve performance when threads are enabled.
2bbfd4f Commented out code appropriately.
91c2da6 moose.test( ) is added not cmake but not enabled. Enable them once all scripts are fixed in moose-examples.
a1699fc Optimized GSolve with default 2 threads.
00a9d9e Removed the debug message. Lets check it now. By default it should be not slower than the default version.
7700c07 Fast Ksolve with 2 default threads.
d154eb3 Parallel ksolve.

git-subtree-dir: moose-core
git-subtree-split: 891f2f8bf7359d61f186c3792c6f12b61d8c0afb

build fails.

7ab9e3c Let static page generation fail.
c26d7c7 Build using travis and deploy onto github pages.
feeaf6b Added theme for static pages.
ae1fecb Merge branch 'dirty' of github.com:BhallaLab/moose-examples
c25e57e Passing locally.
2a2db61 Moved the integration to branch 'dirty'
83a516c Test the dirty branch with jekyll.
9667dee Added jekyll to create static page.
742362a Testing Jekyll and travis integration.
9aa4a3d Prepare index.md  file post test.
e885ea5 Modified shell script so it does not hang.
828464a Code to update README.md file with broken scripts.
9a6b3b1 Deploy keys are added. Testing...
74fb0ae Set theme jekyll-theme-minimal
a4e7ce1 Deploy to github pages. Testing.
e3f9a41 Added code to deploy on moose-examples static page.
ab45904 Default timeout is 30 secs [ skip ci ]
3e30131 Added python-pygraphviz to dependencies.
b825107 Added python-scipy on travis.
73d8bff Merge branch 'master' into traub_2005
60a9f7d Update README.md
4d30457 Updated VClamp commandIn destFinfo name in test_tcr
8846ae5 Fixes for nonexistent NRN data
03735e8 Fixed syntax error
24c349d Multiple workarounds to directory paths and data files from neuron
ccc1039 Fixed typo with data directory creation in traub 2005
a15893b Fixed issue where new ZombieCompartment breaks old code using Compartment
024aa0e Added attempt to automatic data directory creation
96a815c updated ref to old table API
78dcbb1 Merge branch 'traub_2005' of https://github.com/BhallaLab/moose-examples into traub_2005
bc5c37d Added fix for #28 (metaclass portability)
b347fa4 Fixes to load-sbml script.
202bb51 Merge branch 'master' of git://github.com/malav4994/moose-examples into PR-25
a20f451 On this branch, making traub_2005 test with recent release. Added subha on this branch. Removed everyone else.
ac68f92 Ignore the traub_2015 directory on travis BhallaLab/moose-examples#28.
caaa45e Removed a png file [skip ci]
cf27b12 Added python-h5py on travis. The hdf5 related scripts needs this module to run on travis.
afbb591 Merge remote-tracking branch 'origin/traub_2005'
dc92ae8 Include traub_2005 in scripts to be tested on travis.
ee70916 If a script is timedout after 30sec, dont consider it a failure. Fixed the result status of timeout command on 14.04 as indicated in manual http://git.savannah.gnu.org/cgit/coreutils.git/tree/src/timeout.c
9f70d7f Fixes to import in loadSbmlmodel file. Read SBML fails.
bbb3fe0 Increased timeout to 3m and using 4 parallel process.
b5a856e Using backend agg to overcome build failure on travis. This way we will not launch the graphics on travis.
450b3da Removed debug print
d34a833 Fix to issue 28
41f5c8b modified some of the snippets files for documentation

git-subtree-dir: moose-examples
git-subtree-split: 7ab9e3cfd8d74f79a73282572d4df4301b6df976

git-subtree-dir: moose-examples
git-subtree-split: cd2a2b99b4aff3a581bfbfc5786ff9504f0f2cb8

git-subtree-dir: moose-examples
git-subtree-split: 3a960983fe23dad8e0b34883e61510d05a2f3b2a

3a960983fe Merge branch 'master' into asiaszmek

git-subtree-dir: moose-examples
git-subtree-split: 3a960983fe23dad8e0b34883e61510d05a2f3b2a

38da92b048 Fixes to bad-merging.
812d2d97f8 Merge commit '320e525a'
6fc726e560 All changes from previous repository. No new file is added here.

git-subtree-dir: moose-gui
git-subtree-split: 38da92b0481f53ffd2cdc75d8f7aec49408dc4ae

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

80169bcc5c Resolved a merge error.
d5caa39361 use moose.element over  moose.HHChannel.
26e9aac794 Merge branch 'master' of github.com:BhallaLab/moose-examples
9b83291de6 Merge branch 'master' of github.com:BhallaLab/moose-examples
2f46ad096d Convert u'ABCD' to 'ABCD' to probably fix the python3 issue on travis. Works fine with python3 on ubuntu 16.04/Debian8.
6232b3a888 Send email to malav if build fails.
4a92db239b Merge branch 'master' of github.com:BhallaLab/moose-examples
4800cd62df Adding python-libsbml to dependencies.
c045972c2e Fixed second script as well.
e927a88875 Merge branch 'master' of github.com:BhallaLab/moose-examples
626afb8242 Added a hack to make this script work with both python3 and python2.
24fdc9e1b7 Indentation for python3
e9e5d92828  Using force-yes with -y
3c60a8263a Upi fix the assert error
ca2d4090e7 Upi cleaned up the file
a9ddced2bc Merge branch 'master' of https://github.com/BhallaLab/moose-examples
b4715d09ba First commit.

git-subtree-dir: moose-examples
git-subtree-split: 80169bcc5c7263fa76f53b4ebd54b0fe20c5cef5

49779ba730 As per Upi suggestion, co-ordinates are reprocessed for genesis file (yaxis is negated) at loading time so that, at the interface level co-ordinate are played around independently and while saving scene co-ordinates are save.
1f32b418d2 Kd is calculated for second order reaction only and value is displayed in object editor,Notes header is added, and unit for Kd is added in default.py
254d1f077a Enzyme can't be connected for second order reaction
3038c31d1a missing import math
355d721e4f added libsbml and moogli is removed
0343ce3e11 Added a Model information, like number of compartment,group,pool,function,reaction etc when model is loaded for the first time

git-subtree-dir: moose-gui
git-subtree-split: 49779ba730bbbb214728c86d3550fc2b27d8ef24

69e0354705 Create CONTRIBUTING.md
b096503233 Added travis related setttings update.
REVERT: 2ecab963b2 Merge commit 'af3c29a4'
REVERT: b3b597f411 Removed legacy Makefile based build flow. CMake is only build-system now. #180.
REVERT: 20dc0a5989 a warning message is sent out \n 1.if function is not connected to output and \n 2.yet to write back StimulusTable is to genesis. \n No more transformation with y axis as it has already taken care in kkit.py file
REVERT: 9373d1bc16 python Counter function removed, just to give backward compatibility for Centos6 for python 2.6
REVERT: e8300d7e92 added to ask User if merged model to be saved
REVERT: 933b259710 Made ReadSwc less verbose. Fixed bug in SeqSynHandler in application of sequencePower.
REVERT: 662eaa2e13 Added sequencePower term to SeqSynHandler to achieve greater specificity for sequences vs all inputs on at once.
REVERT: 7ccc8a2b1e Merge branch 'master' of https://github.com/BhallaLab/moose-core
REVERT: fe5765ca7b More fixes to plot_utils
REVERT: 6a9a618e72 Fixed the error in plot_tables utility.
REVERT: 658af76a47 Fix for Table.vector bug (#179)
REVERT: 423dc9dc69 Merge branch 'master' of https://github.com/BhallaLab/moose-core
REVERT: 200871a9f7 Added in hack for rmoogli to display time
REVERT: 157c501b98 reaction or enzyme name is empty then id is taken as name while reading files from SBML
REVERT: 43a2350406 color and textcolor inchanged for enzyme
REVERT: 02de4c37ee Bugfix for SparseMsg, corrects allocation of synapses when setting connectionList

git-subtree-dir: moose-core
git-subtree-split: 69e0354705cd27d3dad42ba33610f960d270660e

git-subtree-dir: moose-examples
git-subtree-split: 2eb5fa888ff20afdc478366881255201b51a58b8

installing openscenegraph-dev error-prone.

7318878 cleanups
9b83291 Merge branch 'master' of github.com:BhallaLab/moose-examples
2f46ad0 Convert u'ABCD' to 'ABCD' to probably fix the python3 issue on travis. Works fine with python3 on ubuntu 16.04/Debian8.
6232b3a Send email to malav if build fails.
4a92db2 Merge branch 'master' of github.com:BhallaLab/moose-examples
4800cd6 Adding python-libsbml to dependencies.
c045972 Fixed second script as well.
e927a88 Merge branch 'master' of github.com:BhallaLab/moose-examples
626afb8 Added a hack to make this script work with both python3 and python2.
24fdc9e Indentation for python3
e9e5d92  Using force-yes with -y
3c60a82 Upi fix the assert error
ca2d409 Upi cleaned up the file
a9ddced Merge branch 'master' of https://github.com/BhallaLab/moose-examples
b4715d0 First commit.
2c4fa33 This is removed b'cos Rdesignuer does the job
4ca1f6d missing closing braces
d120484 small correction for input eval with is str
18990fd enter key replaced to zero, as function \'input\' with \'enter\' key give SyntaxError: unexpected EOF while parsing
0db144c Ready for put into demo #15.
39aa6e4 Closed docstring.
f2dc6be Merge commit '07ef36e1'

git-subtree-dir: moose-examples
git-subtree-split: 731887849ac227fa304780406ff913c69af425ca

6104940 units added to k1,k2,k3
a3a80bf Using force-yes with -y to avoid problem with gpg keys. Probably breaking due to policy change in apt install.
c994d93 one more attempt -y is removed
b869143 one more attempt expired key
a172670 checking with travis expired key
8ee7c22 checking with travis expired key
a208321 travis has a problem installing moose with -y opition trying this
ff92eb5 print stm with python3 and changes made WRT to pool and bufpool with isBuffered flag
744f262 isbuffered is editable and if value is set/unset
a46cec9 cleanup in demo, filemenu links

git-subtree-dir: moose-gui
git-subtree-split: 61049405f17b22f27c74e7834dc1b2cfbab61699

f3d0477 Merge branch 'master' of https://github.com/BhallaLab/moose-core
176a5f0 solver's short form should also be taken
8624e24 Merge branch 'master' of https://github.com/BhallaLab/moose-core
6c964b1 Added isBuffered field to Pool to let users convert the object class to BufPool, and vice versa.
97db69e moose::Neuron uses global RNG object. Global RNG object behaviour is following. - moose.seed(0) or moose.seed( ) assign a random value to seed. Use   random_device if avaible else time(NULL) is used. - moose.seed( x) set moose.seed to x.
c1dec94 Fixed long argument for mtseed in moosemodule.cpp
54c94f7 Modified travis scripts and reenabled developers to the list.
31dd779 Fixed import error with python3. No module should be imported in python/moose/__init__.py . Added a note for developers. This should fix the travis.

git-subtree-dir: moose-core
git-subtree-split: f3d0477a3ea5045db044aaae94b46a133527dbc7

2ba6bd5 cleanup
d0f5918 replace writeKkit to moosewriteKkit
cb067ac correct from writeKkit to mooseWriteKkit
6b1bff4 Ubuntu16.04 with networkx and pygraphviz has some bug, for now small fix, automatic layout will be done spring_layout format
dbe6875 Update .travis.yml
8a71426 Update README.md
fcbacd5 Added travis file to moose-gui.
ddcfbdc Removed shebangs from python scripts.
d5cf170 Fixed the address of Free Software Foundation Inc.
b88d5cc Merge commit 'aca40347'
e0cea9f Squashed 'moose-gui/' changes from 1ef13c9-1ef13c9

git-subtree-dir: moose-gui
git-subtree-split: 2ba6bd5d8e6b022edf3f3aa1a567462ab7ddf6ed

8038f56 documentation is moved under main function
6ebca4d Corrected kkitwrite function
1726122 Merge branch 'master' of https://github.com/BhallaLab/moose-examples
fbcaef7 added line to show how to set solver to sbml files
07a11d3 Merge pull request #11 from dilawar/master
536b53e Construct absolute path relative to script directory.
f5a7d84 All files must be python2 and python3 compatible [skip ci]
6895e56 All compiles with python2 and python3.
d9cb5b7 This version compiles with python2.
d80ec97 print_statement is the first statement of file.
74c70bc Custom fixes to print end='' statement on python2. Whenever possible import from __future__.
8977107 python-qt4 instead of python-pyqt4 is valid name package.
5e47fd8 Install and do not use moogli.
7b8c680 Fixed all files breaking with python3 compielall module.
e00a845 Fixed two more files.
3f789a1 Fixed one more script.
54f9549 Fixed syntax of this file as well.
63b9c43 Fix some more syntax issues.
5446b0e All scripts are now python3 compatible.
e5e259f This script is broken.
3e420f0 Merge remote-tracking branch 'bhallalab/master'
92ba920 Merge branch 'master' of github.com:dilawar/moose-examples
8a47205 Fixed print( , end='' ) with python2
f756065 Fixed print_function in couple of scripts.
3c6fbe0 Converted files to be campatible with python3 with tool 2to3.
da8c0dc Ran 2to3 on all examples. See which scripts are failing on travis.
469e3f3 These scripts were not chmod to executable. Removed hashbang from header.
3429792 Merge branch 'master' of github.com:BhallaLab/moose-examples
d34c8df Merge branch 'master' of github.com:BhallaLab/moose-examples
d56f575 Changelog:     - No python3 incompatible file should be added to repo.     - moose contains moogli now. No need to install it separately.
31137eb Fixed, python2 incompatible print function use.
a5375cc Merge commit '00a12e20'
15de0ce Since none of the following files was executable, removed shebangs.
4a20952 To run this file libsbml needs to be installed and not compile with moose as its at python level
092eec8 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
bee94a1 Merge commit '3c9138df'
4590e9e Merge branch 'master' of https://github.com/BhallaLab/moose-examples
62e3218 Moved docs to moose. Removed temp directory.
dc5a230 Merge branch 'master' of https://github.com/BhallaLab/moose-examples
c8f96c5 Once simulation is done, store the results in png file.
5c36c87 Used 2to3 tool to make these scripts python3 compatibles. Also saving results to a png file after run is over.

git-subtree-dir: moose-examples
git-subtree-split: 8038f56ec24965353de70fb460ceccff3861f7b1