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NeuroML
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pyNeuroML
A single package in Python unifying scripts and modules for reading, writing, simulating and analysing NeuroML2/LEMS models.
https://docs.neuroml.org/Userdocs/Software/pyNeuroML.html
GNU Lesser General Public License v3.0
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Provide shorter aliases to `run...` methods?
#131
sanjayankur31
closed
2 years ago
0
Allow generation of connectivity matrics using the API
#130
sanjayankur31
opened
2 years ago
0
Would it be useful to add functionality to search neuromldb in `pynml`?
#129
sanjayankur31
closed
2 years ago
0
To v0.5.18
#128
pgleeson
closed
3 years ago
0
Feat/issue 126: allow programmatic access to output of jnml from validation
#127
sanjayankur31
closed
3 years ago
5
Expose programmatic access to error messages
#126
jonrkarr
closed
2 years ago
8
Provide cleaner error messages
#125
jonrkarr
closed
6 months ago
1
feat: format with black
#124
sanjayankur31
closed
3 years ago
1
improvement: add typing as requirements for py<3.5
#123
sanjayankur31
closed
3 years ago
0
Upgrading jneuroml JAR and addressing some warnings
#122
mwatts15
closed
3 years ago
0
PR: list recordables
#121
sanjayankur31
closed
3 years ago
3
Add option to generate and save simulation output plots using matplotlib when Display is used in LEMS
#120
sanjayankur31
closed
5 months ago
1
ci: make ci install deps from necessary branches
#119
sanjayankur31
closed
3 years ago
2
Add util functions to list recordables in a NeuroML model
#118
sanjayankur31
closed
3 years ago
4
[Bug] Check the `install_requires` etc. information in setup.py
#117
sanjayankur31
closed
3 years ago
0
Finish consolidating logging
#116
sanjayankur31
closed
3 years ago
0
Feat/document pynml
#115
sanjayankur31
closed
3 years ago
1
Create python-publish.yml
#114
sanjayankur31
closed
1 year ago
3
Use black to format all our python tools for consistency?
#113
sanjayankur31
closed
3 years ago
1
Consolidate logging (and other minor tweaks)
#112
sanjayankur31
closed
3 years ago
4
Enable documentation on RTD
#111
sanjayankur31
closed
3 years ago
0
[Bug] pynml-channelanalysis cannot find include file in same folder (Windows)
#110
psyogi-o
opened
3 years ago
3
LEMS validation misses errors in nested NeuroML documents
#109
jonrkarr
opened
3 years ago
3
feat: add function to validate NeuroML2 LEMS file
#108
sanjayankur31
closed
3 years ago
0
Add cell builder utility functions
#107
sanjayankur31
closed
2 years ago
10
Replace `print_comment*` methods with a logging class implementation
#106
sanjayankur31
closed
3 years ago
2
Add helper methods to build cells
#105
sanjayankur31
closed
1 year ago
0
How can a LEMS file with standard imported content be validated?
#104
jonrkarr
opened
3 years ago
8
How can a list of possible observable quantities be retrieved from a LEMS file?
#103
jonrkarr
closed
3 years ago
9
Automate releasing to BioSimulators
#102
jonrkarr
opened
3 years ago
0
LEMS files unexpectedly have to be pritty-printed
#100
jonrkarr
closed
3 years ago
6
Output directories must exist before run_lems_with_jneuroml is executed
#99
jonrkarr
opened
3 years ago
2
What is the affect of the Simulation/@method attribute?
#98
jonrkarr
opened
3 years ago
3
Brian 2 simulation appears to be incompletely implemented
#97
jonrkarr
closed
2 years ago
1
feat: update matplotlib usage to remove deprecated methods
#96
sanjayankur31
closed
3 years ago
1
[Bug] MatplotlibDeprecationWarning: The set_window_title function was deprecated in Matplotlib 3.4 and will be removed two minor releases later
#95
sanjayankur31
closed
3 years ago
0
enh(pynml): add -netpyne option
#94
sanjayankur31
closed
3 years ago
0
Add `-moose` option to pynml to export models to MOOSE
#93
sanjayankur31
closed
2 years ago
0
Add `-netpyne` in pynml option to generate and run models in NetPyNE
#92
sanjayankur31
closed
3 years ago
1
enh: allow pynml to process multiple files
#91
sanjayankur31
closed
3 years ago
0
For NML v2.1 release
#90
pgleeson
closed
3 years ago
0
Create a pure Python SWC -> NeuroML converter
#89
pgleeson
closed
1 month ago
18
[Bug] circular import errors when importing pynml
#88
sanjayankur31
closed
1 year ago
1
Double check that all scripts we include in PyNeuroML have usage documentation included in them
#87
sanjayankur31
closed
3 years ago
0
Generate API documentation
#86
sanjayankur31
closed
3 years ago
1
docs: add information about necessary dependencies
#85
sanjayankur31
closed
3 years ago
1
fix(ghactions): fix yaml syntax
#84
sanjayankur31
closed
3 years ago
0
enh(ci): enable GH actions
#83
sanjayankur31
closed
3 years ago
1
doc: document usage of generate_plots utility function
#82
sanjayankur31
closed
3 years ago
1
Add -netpyne-ui option to convert a simulation into netpyne-ui importable format, and accompanying function to API to do this directly from Python also.
#81
sanjayankur31
closed
1 year ago
0
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