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Rename "profiles" to "build-configs" #27

Merged
merged 3 commits into from
Jan 26, 2024
Merged

Rename "profiles" to "build-configs" #27

merged 3 commits into from
Jan 26, 2024

Commits on Jan 26, 2024

  1. Renamed "config" to "defaults" 

    Based on discussion in #27.

Renaming "config" to "defaults" to prevent confusion with the new
"build-configs" directory to be in the following commit.
    @joverlee521
    joverlee521 committed Jan 26, 2024
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  2. Rename "profiles" to "build-configs" 

    To avoid confusion with Snakemake's Profiles¹, rename the "profiles"
directory to "build-configs" based on discussion in
#27.

This is expected to include subdirectories for specific build configs
that include both config params and custom Snakemake rules that extend
and/or override the core workflow.

This also allows us to rename the build specific configs from
"defaults.yaml" to "config.yaml" since they no longer clash with
Snakemake Profile configuration files.

¹ https://snakemake.readthedocs.io/en/stable/executing/cli.html#profiles
    @joverlee521
    joverlee521 committed Jan 26, 2024
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  3. build-configs: Use hyphens for directories

    @joverlee521
    joverlee521 committed Jan 26, 2024
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