cobratoolbox
cobratoolbox copied to clipboard
opencobra
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
When I run `[reconVersion,refinedFolder,translatedDraftsFolder,summaryFolder] = runPipeline(draftFolder, 'infoFilePath', infoFilePath, 'inputDataFolder', inputDataFolder,'numWorkers', numWorkers, 'reconVersion', reconVersion);` When executing this command, the following error occurs:  What is the reason for this? Thank you...
*Please include a short description of problem here* Hi all, when I try to initialise the cobratoolbox on my desktop with "initCobraToolbox", my Matlab instance crashes. The following error was...
*Please include a short description of problem here* **I hereby confirm that I have:** - [x] Tried to solve the issue on my own - [x] Retried to run my...
When I run: `[reconVersion,refinedFolder,translatedDraftsFolder,summaryFolder] = runPipeline(draftFolder, 'infoFilePath', infoFilePath, 'inputDataFolder', inputDataFolder,'numWorkers', numWorkers, 'reconVersion', reconVersion);` The error is as follows: `Combining metabolite lists: Error using solveCobraLP (line 899)` `Gurobi error 10010: Model...
model=readCbModel('e_coli_core.xml') Unrecognized function or variable 'TranslateSBML'. Error in readSBML (line 31) modelSBML = TranslateSBML(fileName,0,0,[1 1]); Error in readCbModel (line 211) model = readSBML(fileName,defaultBound); I got this error. How can solve?
Two test functions "testExteremePathways" & "testExtremePools" are failing because of the missing function "lrsInputHalfSpace" **I hereby confirm that I have:** - [X] Tried to solve the issue on my own...
function "findTranscriptionValue" is missing. This is causing problems in running the "createContextSpecificModel" function. **I hereby confirm that I have:** - [X] Tried to solve the issue on my own -...
In this tutorial https://opencobra.github.io/cobratoolbox/stable/tutorials/tutorialCOBRA_primer_2.html Function "deleteModelRxn" is depreciated and replaced with "removeRxn", so the tutorial should be reviewed. On a separate note, we are currently using "deleteModelGenes" for gene deletion...
I am trying to predict interactions between microbes using the simulatePairwiseInteractions function with my models created through CarveMe. I modified the 'HighFiberDiet_Oxygen' condition provided in the tutorial ("https://opencobra.github.io/cobratoolbox/stable/tutorials/tutorialMicrobeMicrobeInteractions.html") to fit...
Hi! I have been trying to run fastFVA (I installed verions R2019b together with CPLEX 12.10. ), and I'm nearly there, but I'm getting the following error: ``` 368 else...
