Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

fix: getExchangeRxns uptake and excrete options #560

Merged
merged 2 commits into from
Oct 9, 2024
Merged

Conversation

edkerk
Copy link
Member

@edkerk edkerk commented Sep 27, 2024

Main improvements in this PR:

Instructions on merging this PR:

  • This PR has develop as target branch, and will be resolved with a squash-merge.
  • This PR has main as target branch, and will be resolved with a merge commit.

Copy link

github-actions bot commented Sep 27, 2024

This PR has been automatically tested with GH Actions. Here is the output of the tests:

 > Installation type                    Advanced (via git)
> Installing from location /home/m/actions-runner/_work/RAVEN/RAVEN
> Checking RAVEN release DEVELOPMENT
> Checking MATLAB release 2020b
> Checking system architecture glnxa64
> Set RAVEN in MATLAB path Pass
> Save MATLAB path Pass
> Make binaries executable Pass

> Add Java paths for Excel format Pass
> Checking libSBML version 5.20.2
> Checking model import and export
> Import Excel format Pass
> Export Excel format Pass
> Import SBML format Pass
> Export SBML format Pass

> Checking for LP solvers
> glpk Pass
> gurobi Pass
> scip Fail
> cobra Pass
> Set RAVEN solver glpk

> Checking BLAST+ Pass
> Checking DIAMOND Pass
> Checking HMMER Pass

> Checking function uniqueness Pass

*** checkInstallation complete ***

SCIP MEX binary not installed or not functional, some fillGapsLargeTests skipped.
SCIP MEX binary not installed or not functional, some fillGapsSmallTests skipped.
Running blastPlusTests
.
Done blastPlusTests

Running cdhitTests
.
Done cdhitTests

Running checkTasksTests
.
Done checkTasksTests

Running diamondTests
.
Done diamondTests

Running fillGapsLargeTests
.
Done fillGapsLargeTests

Running fillGapsSmallTests
.
Done fillGapsSmallTests

Running hmmerTests
.
Done hmmerTests

Running importExportTests
....
Done importExportTests

Running mafftTests
.
Done mafftTests

Running miriamTests
.
Done miriamTests

Running modelAbilitiesTests
........
Done modelAbilitiesTests

Running modelConversionTests
.
Done modelConversionTests

Running modelCurationTests
.......... ........
Done modelCurationTests

Running modelSortingTests
..
Done modelSortingTests

Running solverTests
..
Error occurred in solverTests/testSCIP and it did not run to completion.
---------
Error ID:
---------
''
--------------
Error Details:
--------------
Error using solverTests>testSCIP (line 77)
SCIP MEX binary not installed or not functional.
..
Done solverTests

Running tinitTests
..........
Done tinitTests

Failure Summary:

Name Failed Incomplete Reason(s)
=====================================================
solverTests/testSCIP X X Errored.

Note: In the case of multiple test runs, this post will be edited.

@edkerk edkerk marked this pull request as ready for review October 3, 2024 12:54
@edkerk
Copy link
Member Author

edkerk commented Oct 9, 2024

The problem mentioned in #555 was resolved with these changes.

@edkerk edkerk merged commit e9acdb1 into develop Oct 9, 2024
1 check passed
@edkerk edkerk deleted the fix/getExchangeRxns branch October 9, 2024 18:34
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

1 participant