basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
Removing duplicate jNeuroMLBackend import (#251)
Update Unit Test Cases and Other Improvements (#249)
Add test_get_files
Update .travis.yml
Drop Python 2 support
Minor update
Update dependency requirenments.
Update .travis.yml
Change allensdk version to 0.16.3 (#1)
Make it to be setup.cfg-only project
Make it to be setup.cfg-only project 2
Update unit tests.
Update test cases
fix
Update parameter
Update test cases
Drop support of Python 2
Import new test cases in init.py in unit_test directory
remove PYTHON_MAJOR_VERSION constant
Fix error
Update dependency
Drop Python 2 support
Update bluepyopt
Update unit tests
Update unit tests
Improved logic in url_to_path method
Update unit tests
Update unit tests
Update unit tests
Update unit tests
Update unit tests
Update unit tests
forceobj = true for jit decorator
add test_geppetto_backend
Update unit tests
Requiring Python version >= 3.5
Clean up __future__ import something
Import deepcopy, and improve coding style.
Import available_backends
Make ExternalModel inherits from RunnableModel instead of Model
Fix warning
Make ExternalModel call constructor of the parent class
Improve ReducedModel, make unit test cases for it.
get pynn and pyneuroml from Github
Update unit tests
Update unit tests
Try to fix a shell command
Update unit tests
Update unit tests
Update unit tests
Delete useless code
Update address of BBP microcircuit portal. Add test cases for bbp.py
Ran bbp.ipynb
Update unit tests
Update unit tests
Update unit tests
Update unit tests
Change sciunit.settings to sciunit.config_set
update
merger
first incremental pull request
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
adding in continuous integration
update
update circle
refactor code
continuous integration plus coverage related deletions
Removing duplicate jNeuroMLBackend import (#251)
update
merger
first incremental pull request
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
adding in continuous integration
update
update circle
refactor code
continuous integration plus coverage related deletions
resolved merge
rebuild and squash circle ci
test NU
test NU sqaush
squash circle
circle squash
squash circle
better chance of working
squash circle
circle squash
circle squash
squash circle
circle squash
circle squash
circle squash
squash circle ci
rebase confusion
Added StaticBackend
resolve rebase
Removing duplicate jNeuroMLBackend import (#251)
fixed cannot be safely interpretated as integer linspace
merge
Added StaticBackend
fixup! Added StaticBackend
Removing duplicate jNeuroMLBackend import (#251)
Fix mistake in Izhikevich equation markdown
merge
plotly added
plotly added
circle squash
squash circle
squash circle
squash circle
squash circle
squash circle
modified requirements
circle squash
moved allen api from BPO to NU
refactor
circle squash
circle squash
circle squash
redirectory circle squash
will this work
circle squash
circle squash
circle squash
circle squash
circle ci squash
perhaps fix minor travis annoyance on scidash
try to make scidash travis work too
Update README.md
Update README.md
Update README.md
Update README.md
replace some unit testing files
adding back in important looking tests
circle squash
clean up
brutal clean up but unit tests work
brutal clean up but unit tests work
brutal clean up but unit tests work
easier target
easier target
travis squash
travis squash
Update README.md
travis might work now
setter property methods added to adexp model
circle ci squash
better method stacking and encapsulation, removed redundancy
fix circle squash
circle squash
travis circle squash
circle travis squash
travis update
circle squash
updates before checkout
delete silly bug
unit test for rick to check
unit tests built in to continuous integration for relative difference sciunit debug
unit tests built in to continuous integration for relative difference sciunit debug
unit tests built in to continuous integration for relative difference sciunit debug
unit tests built in to continuous integration for relative difference sciunit debug
graphical unit test made
graphical unit test made
both Relative difference and ZScore working now
after change to BPO source code where I remove special treatment for models not ADEXP in BPO
continuous integration updated
before merge
before merge branch
perhaps branch fixed now
merge into merge
meaningless
simplified best model
now ephys properties and multispiking optimize, as well as allen examples
better integration of unit testing
introduced some typing to optimization management, and some code comments, reduced opt_man file size by 50%
added back in neuroelectro api
fixing unit tests for neuroelectro
removed erroneous path from travis build
removed erroneous path from travis build
renamed get_neab neuroelectro_api added in more typing and documentation tried to fix broken import paths
aggressive typing probably broke some methods
aggressive typing probably broke some methods
fixed typing issues
run black over everything
fix bug caused by refactor of efel_evaluation revealed in continuous integration
fix typing bug caused by refactor revealed in continuous integration
fix typing bug caused by refactor revealed in continuous integration
fix typing bug caused by refactor revealed in continuous integration
fixed small bug in constructing neuronunit tests from allen data and neuronunit static models
updated travis script
shortened CI tests to avoid timeouts
made a score obs prediction reformatter in data transport container, did more typing, removed more unnecessary methods used more inheritance in BPO
reduced cell optimization
almost ready for pull request take two
changes
files changed
fix skip decorators so that CI works again
changed circle ci config file to point to BPO circle-ci-branch
gentle refactor and typing
ran black over everything
ran black over everything
typing accident fixup
fix ci requirement accident
fixing ci dependency issue
merge circle ci
merge circle ci
fixed None return type
refactor unit testing return type
refactored unit tests
fixed tab spaces issue
unit test refactor
update unit test for refactor rheobase_dtc_tests
refactor small test
refactor target current into method
fixed new method missing argument
fixed new method missing argument
fix
update code
passing travis tests
update content
speed up travis ci unit tests
speed up travis ci unit tests
make opt work passable on shorter test duration ci
reduce travis burden
reduce travis burden
make more unit tests pass
clean up for passing more unit tests, especially import tests
overall cleaned up unit tests, this commmit represents greater test passing than dev branch
overall cleaned up unit tests, this commmit represents greater test passing than dev branch
update for PR
update for PR
applied black to all files again
Update README.md
izhi optimization slowed down checking out what went wrong
very effected by mutpb, eta, cxptb
very effected by mutpb, eta, cxptb
push changes to ci
update
update
last commit before going backwards through reflog
make stale branch functional again
Jan 28th end of day
found new problems with dtc/model param over ride in dtc class, made variance explained error possible, identified conceptually that brute force is necessary to optimize, made it so that algorithms has functional time diminishing eta
factored out redundant rheobase seeking method
added in some comments
improved documentation
refactor optimization_management documentation improvements simplify return value of functions
removed backends depricated/not supported
removed backends depricated/not supported
refactor optimization_management documentation improvements simplify return value of functions
refactor optimization_management documentation improvements simplify return value of functions
fixing rheobase solving management code
applied black updated methods called in Allen API
applied black to unit test directory, and made it so recursively importing eveything should work in theory over CI
Coverage decreased (-35.6%) to 0.0% when pulling e9d41e4d035af2705d46859c0fec07c7cfb2e32e on optimization into 701c33a70150e0db3505ed3c88d8ed31194ae60c on dev.
update
merger
first incremental pull request
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
Removing duplicate jNeuroMLBackend import (#251)
Update Unit Test Cases and Other Improvements (#249)
Add test_get_files
Update .travis.yml
Drop Python 2 support
Minor update
Update dependency requirenments.
Update .travis.yml
Change allensdk version to 0.16.3 (#1)
Make it to be setup.cfg-only project
Make it to be setup.cfg-only project 2
Update unit tests.
Update test cases
fix
Update parameter
Update test cases
Drop support of Python 2
Import new test cases in init.py in unit_test directory
remove PYTHON_MAJOR_VERSION constant
Fix error
Update dependency
Drop Python 2 support
Update bluepyopt
Update unit tests
Update unit tests
Improved logic in url_to_path method
Update unit tests
Update unit tests
Update unit tests
Update unit tests
Update unit tests
Update unit tests
forceobj = true for jit decorator
add test_geppetto_backend
Update unit tests
Requiring Python version >= 3.5
Clean up
__future__ import something
Import deepcopy, and improve coding style.
Import available_backends
Make ExternalModel inherits from RunnableModel instead of Model
Fix warning
Make ExternalModel call constructor of the parent class
Improve ReducedModel, make unit test cases for it.
get pynn and pyneuroml from Github
Update unit tests
Update unit tests
Try to fix a shell command
Update unit tests
Update unit tests
Update unit tests
Delete useless code
Update address of BBP microcircuit portal. Add test cases for bbp.py
Ran bbp.ipynb
Update unit tests
Update unit tests
Update unit tests
Update unit tests
Change sciunit.settings to sciunit.config_set
update
merger
first incremental pull request
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
adding in continuous integration
update
update circle
refactor code
continuous integration plus coverage related deletions
Removing duplicate jNeuroMLBackend import (#251)
update
merger
first incremental pull request
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
basic NeuronUnit dev fork from scidash with minimalist changes to support multispiking optimization
adding in continuous integration
update
update circle
refactor code
continuous integration plus coverage related deletions
resolved merge
rebuild and squash circle ci
test NU
test NU sqaush
squash circle
circle squash
squash circle
better chance of working
squash circle
circle squash
circle squash
squash circle
circle squash
circle squash
circle squash
squash circle ci
rebase confusion
Added StaticBackend
resolve rebase
Removing duplicate jNeuroMLBackend import (#251)
fixed cannot be safely interpretated as integer linspace
merge
Added StaticBackend
fixup! Added StaticBackend
Removing duplicate jNeuroMLBackend import (#251)
Fix mistake in Izhikevich equation markdown
merge
plotly added
plotly added
circle squash
squash circle
squash circle
squash circle
squash circle
squash circle
modified requirements
circle squash
moved allen api from BPO to NU
refactor
circle squash
circle squash
circle squash
redirectory circle squash
will this work
circle squash
circle squash
circle squash
circle squash
circle ci squash
perhaps fix minor travis annoyance on scidash
try to make scidash travis work too
Update README.md
Update README.md
Update README.md
Update README.md
replace some unit testing files
adding back in important looking tests
circle squash
clean up
brutal clean up but unit tests work
brutal clean up but unit tests work
brutal clean up but unit tests work
easier target
easier target
travis squash
travis squash
Update README.md
travis might work now
setter property methods added to adexp model
circle ci squash
better method stacking and encapsulation, removed redundancy
fix circle squash
circle squash
travis circle squash
circle travis squash
travis update
circle squash
updates before checkout
delete silly bug
unit test for rick to check
unit tests built in to continuous integration for relative difference sciunit debug
unit tests built in to continuous integration for relative difference sciunit debug
unit tests built in to continuous integration for relative difference sciunit debug
unit tests built in to continuous integration for relative difference sciunit debug
graphical unit test made
graphical unit test made
both Relative difference and ZScore working now
after change to BPO source code where I remove special treatment for models not ADEXP in BPO
continuous integration updated
before merge
before merge branch
perhaps branch fixed now
merge into merge
meaningless
simplified best model
now ephys properties and multispiking optimize, as well as allen examples
better integration of unit testing
introduced some typing to optimization management, and some code comments, reduced opt_man file size by 50%
added back in neuroelectro api
fixing unit tests for neuroelectro
removed erroneous path from travis build
removed erroneous path from travis build
renamed get_neab neuroelectro_api added in more typing and documentation tried to fix broken import paths
aggressive typing probably broke some methods
aggressive typing probably broke some methods
fixed typing issues
run black over everything
fix bug caused by refactor of efel_evaluation revealed in continuous integration
fix typing bug caused by refactor revealed in continuous integration
fix typing bug caused by refactor revealed in continuous integration
fix typing bug caused by refactor revealed in continuous integration
fixed small bug in constructing neuronunit tests from allen data and neuronunit static models
updated travis script
shortened CI tests to avoid timeouts
made a score obs prediction reformatter in data transport container, did more typing, removed more unnecessary methods used more inheritance in BPO
reduced cell optimization
almost ready for pull request take two
changes
files changed
fix skip decorators so that CI works again
changed circle ci config file to point to BPO circle-ci-branch
gentle refactor and typing
ran black over everything
ran black over everything
typing accident fixup
fix ci requirement accident
fixing ci dependency issue
merge circle ci
merge circle ci
fixed None return type
refactor unit testing return type
refactored unit tests
fixed tab spaces issue
unit test refactor
update unit test for refactor rheobase_dtc_tests
refactor small test
refactor target current into method
fixed new method missing argument
fixed new method missing argument
fix
update code
passing travis tests
update content
speed up travis ci unit tests
speed up travis ci unit tests
make opt work passable on shorter test duration ci
reduce travis burden
reduce travis burden
make more unit tests pass
clean up for passing more unit tests, especially import tests
overall cleaned up unit tests, this commmit represents greater test passing than dev branch
overall cleaned up unit tests, this commmit represents greater test passing than dev branch
update for PR
update for PR
applied black to all files again
Update README.md
izhi optimization slowed down checking out what went wrong
very effected by mutpb, eta, cxptb
very effected by mutpb, eta, cxptb
push changes to ci
update
update
last commit before going backwards through reflog
make stale branch functional again
Jan 28th end of day
found new problems with dtc/model param over ride in dtc class, made variance explained error possible, identified conceptually that brute force is necessary to optimize, made it so that algorithms has functional time diminishing eta
factored out redundant rheobase seeking method
added in some comments
improved documentation
refactor optimization_management documentation improvements simplify return value of functions
removed backends depricated/not supported
removed backends depricated/not supported
refactor optimization_management documentation improvements simplify return value of functions
refactor optimization_management documentation improvements simplify return value of functions
fixing rheobase solving management code
applied black updated methods called in Allen API
applied black to unit test directory, and made it so recursively importing eveything should work in theory over CI
update code for passing CI
ran black over all neuronunit test files
rheobase test on CI
rheobase test on CI
update ci
elitism in bpo via neuronunit flag in constructor
ci will probably work again now
ci fix
update ci unit test passing
shorter build
turns out the right efel package is important
updated travis ci build
update travis build
Co-authored-by: Mark Watts mwatts15@users.noreply.github.com Co-authored-by: Zhiwei zhi.wei.liang@outlook.com Co-authored-by: Russell Jarvis russelljarvis@protonmail.com Co-authored-by: Richard Gerkin rgerkin@asu.edu