gapreport

[zahraazimzadeh]

Description of the issue:

*Try to be as clear as possible, e.g.:

• Is there a functionality missing?
• Did an existing function fail? yes gapreport
• What is the exact error message, and other output that you got? Gap analysis for iMT1026v3 - Torres2019 - Contextualized P. pastoris GSMM under glucose growth and various oxygenation levels

Index exceeds the number of array elements (0).

Error in haveFlux (line 52) J(abs(sol.x(mixIndexes))>cutOff)=true;

Error in gapReport (line 64) I=haveFlux(model);

• What have you tried yourself to fix it? I tried the gapreport for the small yeast model in the tutorial folder and didn't get any error. Actually I want to check the latest model of pichia pastoris so I tried gapreport for the xml file of it.

Reproducing this issue:

*If applicable, please attach the problematic code.

model=importModel('iMT.xml',true,false,true); gapReport(model);

System information

• Please report:
  1. RAVEN version (stabile release, devel branch?) RAVEN 2
  2. Operating system (Windows/Mac/Linux; include version) Windows

I hereby confirm that I have:

• [X] Followed the guidelines to install RAVEN.
• [X] Checked that a similar issue does not already exist
• [X] If suitable, needed, asked first in the Gitter chat room about the issue

Note: replace [ ] with [X] to check the box. PLEASE DELETE THIS LINE

[edkerk]

This is solved in #408 (haveFlux), but the underlying problem is probably that the model is not functional to start with (if this model is the same as the one downloaded from BioModels).

[edkerk]

Now in main #417

[zahraazimzadeh]

Thanks

[zahraazimzadeh]

👌