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lanl
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PyBNF
An application for parameterization of biological models available in SBML and BNGL formats. Features include parallelization, metaheuristic optimization algorithms, and an adaptive Markov chain Monte Carlo (MCMC) sampling algorithm.
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Fix citation in docs
#247
emitra17
closed
5 years ago
0
LANL licenses
#246
emitra17
closed
5 years ago
0
WIP: Plotting
#245
emitra17
opened
5 years ago
0
Save failed simulation logs
#244
emitra17
closed
5 years ago
1
Update 0.3.1
#243
emitra17
closed
5 years ago
0
Scheduler file fix
#242
emitra17
closed
5 years ago
0
Dask warnings print to terminal
#241
emitra17
closed
5 years ago
2
Catch job errors version 2.1
#240
emitra17
closed
5 years ago
2
Add support for scheduler file
#239
emitra17
closed
5 years ago
0
Update to v0.3.0
#238
emitra17
closed
5 years ago
0
Cluster scheduling revamp
#237
emitra17
closed
5 years ago
0
Reuse client for bootstrapping
#236
emitra17
closed
5 years ago
1
Add Dockerfile
#235
joshuacolvin0
closed
5 years ago
2
Add support for scheduler-file argument
#234
joshuacolvin0
closed
5 years ago
3
Change example output directories
#233
joshuacolvin0
closed
5 years ago
4
Avoid divide by zero
#232
joshuacolvin0
closed
5 years ago
0
Bootstrapping memory leak?
#231
emitra17
closed
5 years ago
1
WIP: Catch job errors - version 2
#230
emitra17
closed
5 years ago
4
Update version to 0.2.3
#229
emitra17
closed
5 years ago
0
Add __setitem__ to Data class
#228
emitra17
closed
5 years ago
0
Data does not support item assignment
#227
emitra17
closed
5 years ago
0
Allow different parameter bounds than initialization setting
#226
emitra17
opened
5 years ago
0
WIP: Catch miscellaneous job errors
#225
emitra17
closed
5 years ago
7
Revised Logging
#224
emitra17
closed
5 years ago
1
Bootstrap edits
#223
emitra17
closed
5 years ago
0
Config cleanup
#222
emitra17
closed
5 years ago
0
Dask stalling out on long local runs
#221
emitra17
opened
5 years ago
0
Roadrunner simulation fix
#220
emitra17
closed
5 years ago
0
Wrong roadrunner simulations only when running in PyBNF
#219
emitra17
closed
5 years ago
2
Remove vestigal keys from parse.py
#218
emitra17
closed
5 years ago
0
Documentation updates
#217
emitra17
closed
5 years ago
0
Resume Bootstrapping
#216
emitra17
closed
5 years ago
1
Better error message if missing required key
#215
emitra17
closed
5 years ago
0
Save failed simulation logs
#214
emitra17
closed
5 years ago
1
Minor Fixes
#213
emitra17
closed
5 years ago
0
Pre-compiled Binary
#212
emitra17
opened
5 years ago
6
Update TCR example
#211
emitra17
closed
5 years ago
0
Pass parameters directly to postprocessing
#210
emitra17
opened
5 years ago
0
In MCMC, initialize different from prior
#209
emitra17
opened
5 years ago
0
'var' should not have a lower bound of 0
#208
emitra17
opened
5 years ago
1
Simplex sanity check
#207
emitra17
opened
5 years ago
1
Misleading postprocess error
#206
emitra17
closed
5 years ago
0
Recover from empty sorted_params_backup
#205
emitra17
closed
5 years ago
0
Wrong warning with parameter_scan({method=>"nf"})
#204
emitra17
closed
5 years ago
0
Bootstrap fix
#203
emitra17
closed
5 years ago
2
Save best gdat/scan files
#202
emitra17
closed
5 years ago
0
Parallel local algorithm?
#201
emitra17
opened
6 years ago
2
dask-ssh random missed node
#200
emitra17
opened
6 years ago
0
Update 0.2.2
#199
emitra17
closed
6 years ago
0
Wrong bootstrapping with objfunc=sos?
#198
emitra17
closed
5 years ago
0
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