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Patch biowulf config #696

Merged
merged 13 commits into from
Oct 22, 2024
Merged

Patch biowulf config #696

merged 13 commits into from
Oct 22, 2024

Commits on May 24, 2024

  1. Improve the config file

    Add restriction to prevent over-threading.
    Modify the cache names for nxf_singularity to separate it from
    singularity cache.
    Add restriction to prevent user's mis-usage of clusterOption in params.
    Qi Yu committed May 24, 2024
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  2. move executor inside of profiles

    The executor contents are moved inside of profile, so that it could
    run individually without cross-talking.
    Qi Yu committed May 24, 2024
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  3. fix the spaces number

    Qi Yu committed May 24, 2024
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Commits on Jun 7, 2024

  1. moving executor outside of process

    so that is is more clear to be able to reuse in profile
    Qi Yu committed Jun 7, 2024
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Commits on Sep 23, 2024

  1. relocate clusterOptions and scratch

    move clusterOptions and scratch out of executor, and move them into
    process.
    Qi Yu committed Sep 23, 2024
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Commits on Sep 27, 2024

  1. Configuration menu
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  2. delete spaces

    delete spaces
    qiyubio authored Sep 27, 2024
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  3. Updated the cachedir for singularity

    When solving the conflicts from the recent update on config file from nf-core side, the cachedir is reset to older version. 
    Have to modify it to match our cluster setting.
    qiyubio authored Sep 27, 2024
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  4. Found duplicate executor blocks

    Deleted the out of date one
    Qi Yu committed Sep 27, 2024
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  5. formated resourceLimits and modify the igenome_base

    Remove the out of dated resourcelimits from params to process.
    Changed the igenome_base from /fdb/igenomes to /fdb/igenomes_nf.
    Qi Yu committed Sep 27, 2024
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  6. remove trailing whitespace

    Qi Yu committed Sep 27, 2024
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Commits on Oct 18, 2024

  1. remove the singularity_cachedir, and update the resource limit to match

    the recent update of cluster hardware.
    Qi Yu committed Oct 18, 2024
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Commits on Oct 22, 2024

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