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Add Snakemake workflow profile as override of local profile #268
Labels
enhancement
New feature or request
good first issue
Good for newcomers
workflow
Related to the design and execution of the workflow.
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timtroendle
added
enhancement
New feature or request
workflow
Related to the design and execution of the workflow.
labels
Jun 23, 2023
We should remove the |
I tried this just now and there are caveats:
|
timtroendle
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to timtroendle/euro-calliope
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Apr 15, 2024
Default profile (in ``profiles/default`) is now the default workflow profile. Snakemake activates it automatically using the name. This allows the user to inject other profile parameters using the `--profile` cli option. This also allows us to provide the conda configuration as an addition to, rather than a replacement of, the default profile. Fixes calliope-project#268
timtroendle
added a commit
to timtroendle/euro-calliope
that referenced
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Apr 15, 2024
Default profile (in `profiles/default`) is now the default workflow profile. Snakemake activates it automatically using the name. This allows the user to inject other profile parameters using the `--profile` cli option. This also allows us to provide the conda configuration as an addition to, rather than a replacement of, the default profile. Fixes calliope-project#268
timtroendle
added a commit
to timtroendle/euro-calliope
that referenced
this issue
Apr 15, 2024
Default profile (in `profiles/default`) is now the default workflow profile. Snakemake activates it automatically using the name. This allows the user to inject other profile parameters using the `--profile` cli option. This also allows us to provide the conda configuration as an addition to, rather than a replacement of, the default profile. Fixes calliope-project#268
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Labels
enhancement
New feature or request
good first issue
Good for newcomers
workflow
Related to the design and execution of the workflow.
What can be improved?
Snakemake 7.29.0 added the option to have a workflow profile that overrides local profiles. By default, this is
profiles/default
. We should use this mechanism to allow for local profiles.As the workflow profile default works for us out of the box, we only need to update to 7.29.0. We can remove the env variable in the default environment.
Version
1.2.0.dev
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