checkInstallation reports that all solvers fail, but they work anyway

[WHEREISSHE]

*** THE RAVEN TOOLBOX ***

 > Installation type                    Medium (as downloaded ZIP file)
 > Installing from location             ~\RAVEN-main
 > Checking RAVEN release               2.11.0
   > Checking for latest RAVEN release  Fail
     Cannot reach GitHub for release info
 > Checking MATLAB release              2025b
 > Checking system architecture         win64
 > Set RAVEN in MATLAB path             Pass
 > Save MATLAB path                     Pass
 > Store RAVEN path as MATLAB pref      Pass

=== Model import and export ===
 > Add Java paths for Excel format      Pass
 > Checking libSBML version             5.20.2
 > Checking model import and export
   > Import Excel format                Fail
   Excel import/export is incompatible with MATLAB Text Analytics Toolbox.
   Further instructions => https://github.com/SysBioChalmers/RAVEN/issues/55#issuecomment-1514369299
   > Export Excel format                Fail
   > Import SBML format                 Fail
   > Export SBML format                 Fail
   > Import YAML format                 Fail
   > Export YAML format                 Fail

=== Model solvers ===
 > Checking for LP solvers
   > glpk                               Fail
   > gurobi                             Fail
   > scip                               Fail
   > cobra                              Fail
 > Set RAVEN solver                     None, no functional solvers
    The glpk should always be working, check your RAVEN installation to make sure all files are present

=== Essential binary executables ===
 > Checking BLAST+                      Fail
   Download/compile the binary and rerun checkInstallation
   This is essential to run getBlast()
 > Checking DIAMOND                     Fail
   Download/compile the binary and rerun checkInstallation
   This is essential to run the getDiamond()
 > Checking HMMER                       Pass

=== Compatibility ===
 > Checking function uniqueness         Pass

*** checkInstallation complete ***

ans =

    '2.11.0'

[edkerk]

Are you maybe running MATLAB in WSL? It seems odd that it reports Checking system architecture win64, while > Installing from location ~\RAVEN-main is a unix-style path.

[WHEREISSHE]

Are you maybe running MATLAB in WSL? It seems odd that it reports Checking system architecture win64, while > Installing from location ~\RAVEN-main is a unix-style path.

No, I hide part of the path. the original is like C:\Users\user\ Documents\MATLAB. Actually, I have checked gurobi in MATLAB, which worked well, but when running checkInstallation failed.

[edkerk]

Ok, but what if you run setRavenSolver('gurobi') and then run an FBA with solveLP(model)?

[WHEREISSHE]

Ok, but what if you run setRavenSolver('gurobi') and then run an FBA with solveLP(model)?
`ans =

struct with fields:

     x: [4131×1 double]
     f: 0.0858
  stat: 1
   msg: 'Optimal solution found'
sPrice: [2806×1 double]
 rCost: [4131×1 double]

It seems to work properly, but checkInstallation` still failed.

[estoquoaudes]

I came across the same problem after updating RAVEN TOOLBOX to the latest version. And by changing RAVEN TOOLBOX back to the v.2.10.5, it worked well like it previously did again.

[WHEREISSHE]

I came across the same problem after updating RAVEN TOOLBOX to the latest version. And by changing RAVEN TOOLBOX back to the v.2.10.5, it worked well like it previously did again.

THANKS! I will try.

[edkerk]

If the problem is just with checkInstallation, while setRavenSolver('gurobi') followed by solveLP(model) work fine, then just stick with version 2.11.0. That checkInstallation is incorrectly reporting a Fail does not have any further implications. I haven't had the time yet to figure out why this happens.

[WHEREISSHE]

If the problem is just with checkInstallation, while setRavenSolver('gurobi') followed by solveLP(model) work fine, then just stick with version 2.11.0. That checkInstallation is incorrectly reporting a Fail does not have any further implications. I haven't had the time yet to figure out why this happens.

understood, thank you!

[edkerk]

Will remain open until resolved, appears to affect more people #603