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

Allow missing conda_exec #1384

Merged
merged 1 commit into from Aug 30, 2023
Merged

Allow missing conda_exec #1384

merged 1 commit into from Aug 30, 2023

Conversation

mstabrin
Copy link
Contributor

Hello everybody,
The command line option conda_exec was ignored during building the conda command.

Command:
planemo conda_install ./seqtk_seq.xml --conda_channels conda-forge,bioconda,defaults,rapidsai --conda_exec /opt/user_software/miniconda3/bin/mamba

Got the output:

Install conda target CondaTarget[rapids,version=23]
/home/stabrin/miniconda3/bin/conda list -f --json conda-libmamba-solver
...

Expected output:

Install conda target CondaTarget[seqtk,version=1.2]
/opt/user_software/miniconda3/bin/mamba list -f --json conda-libmamba-solver
...

It looked like the conda_exec option was not passed over to the CondaContext object.

The command line option `conda_exec` was ignored during building the conda command.
@mvdbeek
Copy link
Member

mvdbeek commented Aug 30, 2023

Awesome, thank you!

@mvdbeek mvdbeek merged commit b413fe4 into galaxyproject:master Aug 30, 2023
7 of 14 checks passed
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.

None yet

2 participants