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copasi
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basico
A simplified python interface to COPASI.
https://basico.readthedocs.io/
Artistic License 2.0
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issue with display names
#59
fbergmann
opened
1 week ago
1
support for lyapunov exponents
#58
fbergmann
opened
1 month ago
0
get_task_settings(): subtask settings not read properly for Scan
#57
pmendes
closed
2 months ago
9
issue with set_reaction_mapping() when mappings are mixed to global quantities and values
#56
pmendes
closed
3 months ago
5
Inconsistency between COPASI UI parameter estimation and basico parameter estimation
#55
Theo-BRN
opened
3 months ago
3
Custom time values with get_simulation_results()
#54
Theo-BRN
opened
4 months ago
5
is it possible to get notes or annotations of reactions and events?
#53
pmendes
closed
4 months ago
3
if expressions returned incorrectly
#52
pmendes
closed
4 months ago
1
Multiple fit_items without all having 'affected'
#51
Theo-BRN
closed
3 months ago
1
Simultaneous Parameter Estimation
#50
Theo-BRN
opened
5 months ago
5
get_compartments() returns a type incompatible with set_compartments()
#49
pmendes
closed
5 months ago
3
Cannot find pure Python Wheel for python-copasi package from PyPI
#48
julien-rudmann
closed
5 months ago
4
Correct display names check
#47
Theo-BRN
closed
5 months ago
2
Clarification around Parameter Estimation Variables
#46
Theo-BRN
closed
5 months ago
2
Mapping bug for multiple experiments in parameter estimation
#45
Theo-BRN
closed
5 months ago
6
error exporting sbml with explicit level and version
#44
pmendes
closed
6 months ago
1
problems with get_events(), spurious spaces in trigger expression
#43
pmendes
closed
6 months ago
2
get_task_settings('Sensitivities') does not include Effect, Cause and Secondary cause
#42
pmendes
closed
6 months ago
3
get_task_settings('Cross Section') does not include variable
#41
pmendes
closed
6 months ago
8
problem setting model initial time
#40
pmendes
closed
6 months ago
2
Error running parameter estimation task
#39
lilijap
closed
8 months ago
5
installing basico 0.53 on remote ubuntu server via workflow
#38
lilijap
closed
10 months ago
5
JOSS Review: Errors with `pytest`
#37
ayush9pandey
closed
1 year ago
3
JOSS Review: Errros in Working_with_ipyparallel
#36
ayush9pandey
closed
1 year ago
2
JOSS Review: No output file defined in stochastic simulation
#35
ayush9pandey
closed
1 year ago
3
JOSS Review: Error in Working_with_Annotations ipynb
#34
ayush9pandey
closed
1 year ago
2
BASICO missing binding for Hybrid Runge Kutta method
#33
CodeByDrescher
closed
1 year ago
1
does basico use threading?
#32
syedzayyan
opened
1 year ago
1
Minor fixup of filename in docs
#31
jonasfoe
closed
1 year ago
2
Conditional Stochastic Events
#30
fabriciocravo
closed
1 year ago
7
setting a function that requires modifiers, should map them if specified
#29
fbergmann
closed
1 year ago
2
set_species failing to set initial concentration
#28
pmendes
closed
1 year ago
3
How to set mass-action rate constant for a reaction?
#27
stbachinger
closed
2 years ago
2
should `get_simulation_results` update parameters?
#26
fbergmann
closed
2 years ago
1
Progress Report
#25
fbergmann
closed
1 year ago
1
Names appear different in exp_data and sim_data dataframes
#24
DeepaMahm
closed
2 years ago
3
Plots of steady-state experiments
#23
DeepaMahm
opened
2 years ago
3
AttributeError: 'CDataObject' object has no attribute 'setDblValue' when running plot_per_dependent_variable()
#22
nicolas-huber
closed
2 years ago
3
Need help with parameter estimation
#21
hasanbaig
closed
2 years ago
2
File reading error in Parameter Estimation Task.
#20
hasanbaig
closed
2 years ago
2
changing transient values
#19
fbergmann
closed
2 years ago
1
Custom selection with parameter does not work
#18
matthiaskoenig
closed
2 years ago
4
Species missing from timecourse result
#17
matthiaskoenig
closed
2 years ago
2
Unexpected "ERROR:root:Error while running the simulation: >EXCEPTION 2022-02-22T11:21:58< CTrajectoryMethod (12): Internal step limit exceeded." when setting large stepsize
#16
TorkelE
closed
2 years ago
6
Slow ssa simulation of large-ish model
#15
TorkelE
closed
2 years ago
2
Increase step size to avoid "CTrajectoryMethod (12): Internal step limit exceeded." error
#14
TorkelE
closed
2 years ago
2
Running Gillespie simulatons
#13
TorkelE
closed
2 years ago
2
Retrieving information of <Problem> section in tasks.
#12
hasanbaig
closed
2 years ago
5
Retrieving Method details.
#11
hasanbaig
closed
2 years ago
4
Segfault in basico when simulating BIOMD0000000516 after BIOMD0000000513.
#10
CiaranWelsh
closed
2 years ago
10
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