segrelab comets issues - Githubissues

segrelab / comets

Computation of Microbial Ecosystems in Time and Space

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Update README.md

#53 dukovski opened 1 month ago
1
Gurobi package name changed from `gurobi` to `com.gurobi.gurobi` in new version and cause package not found error in COMETS

#52 gaospecial opened 1 month ago
1
Error 'runComets'

#51 2132030 closed 4 months ago
8
Selecting the GLPK solver

#50 LifeWorks closed 4 months ago
1
Lexicographic optimization

#49 liaochen1988 closed 4 months ago
1
Question

#48 liaochen1988 closed 4 months ago
1
Fluxes variation analysis/optimization

#47 zorzansi closed 4 months ago
2
Global static metabolite does not work in cometspy.

#46 dukovski opened 1 year ago
0
Installation web is not working

#45 beacamara closed 1 year ago
2
multitoxins basic implementation

#44 jeremymchacon closed 1 year ago
1
Varying dilution rate

#43 bigsuicideparty opened 2 years ago
3
added linear production rate when lower bound > 0.0

#42 behzadk closed 2 years ago
0
fixed off-by-one bug between signaling in comets and cometspy

#41 jeremymchacon closed 2 years ago
0
some bugfixes and better command line instructions

#40 jeremymchacon closed 3 years ago
1
comets --version implementation

#39 jeremymchacon opened 3 years ago
0
default diffusion constants should be in layout, not parameters

#38 jeremymchacon opened 3 years ago
0
Signal bugfix

#37 jeremymchacon closed 3 years ago
0
dependencies file

#36 jeremymchacon closed 3 years ago
0
bug fix in writing flux logs in COMETS format

#35 jeremymchacon closed 4 years ago
0
bug in the dimension of lb-array

#34 sulheim closed 4 years ago
0
Version 2.9.0

#33 sulheim closed 4 years ago
0
Include final source code with light absorption

#32 sulheim closed 4 years ago
0
signals and toxins take 2

#31 jeremymchacon closed 4 years ago
0
signals and toxins

#30 jeremymchacon closed 4 years ago
3
Add readme

#29 sulheim closed 4 years ago
0
merge master into exrxn_minconcentration, take 2

#28 mquintin closed 4 years ago
1
merge master into exrxn_minconcentration

#27 mquintin closed 4 years ago
1
Improving light modelling and fixing bug on exchange/media indexes

#26 sulheim closed 4 years ago
0
Sorting exchange reactions when loading model file

#25 mquintin opened 4 years ago
1
Nonlindiff

#24 dukovski closed 4 years ago
0
Death in COMETS

#23 sulheim opened 4 years ago
3
Periodic media concentrations

#22 sulheim closed 4 years ago
0
media_refresh now per unit time, not per time step

#21 jeremymchacon closed 4 years ago
0
two new functions: metaboliteDilutionRate and specificMedia

#20 jeremymchacon closed 4 years ago
1
Format outputs

#19 jccvila closed 4 years ago
0
Bug fix: objective reaction not adhering to upper bound

#18 mquintin opened 4 years ago
1
Timestep length-related instability

#17 mquintin closed 4 years ago
1
Media log has extra time step when simulation stops before maxCycles

#16 mquintin opened 4 years ago
0
Code cleanup: Remove concept of 2d worlds, treat as 3d with thickness 1

#15 mquintin opened 4 years ago
0
Feature request: "Load from script" in GUI to enable loading layout and params file with one action

#14 mquintin opened 4 years ago
0
Metabolite diffusion constants not carried over after Save/Load Simulation State

#13 mquintin opened 4 years ago
0
If pauseeachstep is false in a parameters file, the box does not show unchecked in the GUI

#12 mquintin opened 4 years ago
0
Death rate is not zero when set using the COMETS Toolbox and COMETS 2.0.3

#11 mquintin opened 4 years ago
0
Layout file reload fails

#10 mquintin opened 4 years ago
0
How to handle exchange reactions in models that have them in the wrong direction

#9 mquintin opened 4 years ago
0
Feeding sparse matrices to Gurobi for the evolution algorithm

#8 mquintin opened 4 years ago
0
Redesign media and flux logs?

#7 mquintin closed 4 years ago
3
Change standard FBA exchange and pseudomonod not to take excess metabolites

#6 mquintin opened 4 years ago
0
Max_obj_min_flux reported by Djordge

#5 mquintin closed 4 years ago
0
Negative biomass flux for tiny uptakes from GUROBI

#4 mquintin opened 4 years ago
0