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Add GRIDSS Assembly #179

Merged
merged 19 commits into from
Oct 17, 2024
Merged

Add GRIDSS Assembly #179

merged 19 commits into from
Oct 17, 2024

Commits on Sep 27, 2024

  1. update gridss related changes

    Mootor authored and Mootor committed Sep 27, 2024
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  2. update gridss preprocess into configs and add assembly process

    Mootor authored and Mootor committed Sep 27, 2024
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  3. update gridss preprocess a and add assembly

    Mootor authored and Mootor committed Sep 27, 2024
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  4. update preprocess coin main.nf and add assembly

    Mootor authored and Mootor committed Sep 27, 2024
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Commits on Oct 2, 2024

  1. resolve merge conflicts

    Mootor authored and Mootor committed Oct 2, 2024
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Commits on Oct 4, 2024

  1. fix emitting of preprocess to assembly

    Mootor authored and Mootor committed Oct 4, 2024
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  2. fifix intermediate publish dir

    Mootor authored and Mootor committed Oct 4, 2024
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  3. update memory for assembly

    Mootor authored and Mootor committed Oct 4, 2024
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  4. Update CHANGELOG.md

    Mootor authored and Mootor committed Oct 4, 2024
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Commits on Oct 5, 2024

  1. uncomment pipeval

    Mootor authored and Mootor committed Oct 5, 2024
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Commits on Oct 7, 2024

  1. parse preprocess dir paths and use as input to assembly

    Mootor authored and Mootor committed Oct 7, 2024
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  2. remove redundant view()

    Mootor authored and Mootor committed Oct 7, 2024
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Commits on Oct 10, 2024

  1. add otherjnmheap parameter to assembly and adjust jvmheap

    Mootor authored and Mootor committed Oct 10, 2024
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Commits on Oct 11, 2024

  1. optimize F32 memory for assembly

    Mootor authored and Mootor committed Oct 11, 2024
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  2. optimize F72 memory for assembly

    Mootor authored and Mootor committed Oct 11, 2024
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  3. optimize F72 CPU for assembly

    Mootor authored and Mootor committed Oct 11, 2024
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  4. set otherjvmheap value to 4GB and subtract it from task.memory to set… 

    … jvmheap
    Mootor authored and Mootor committed Oct 11, 2024
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  5. remove redundant collect()

    Mootor authored and Mootor committed Oct 11, 2024
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Commits on Oct 17, 2024

  1. publish assembly BAM into intermediate dir

    Mootor authored and Mootor committed Oct 17, 2024
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