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TSPS-239 get wdl running on 500k sample ref panel #1373

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TSPS-239 get wdl running on 500k sample ref panel #1373

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Commits on Sep 12, 2024

  1. get rid of maxRetries and lower preemptibles 

    increase gap between command memory and machine memory so machines dont crash
    Jose Soto committed Sep 12, 2024
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  2. increase memory for countvariantsinbeagle task

    Jose Soto committed Sep 12, 2024
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Commits on Sep 13, 2024

  1. change most memory inputs form 8GB to 6GB to get a 1 cpu machine

    Jose Soto committed Sep 13, 2024
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Commits on Sep 17, 2024

  1. back to preemptible 3!

    Jose Soto committed Sep 17, 2024
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Commits on Sep 20, 2024

  1. increase memory for phaseAndImpute task

    Jose Soto committed Sep 20, 2024
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Commits on Sep 21, 2024

  1. more memory for beagle step

    Jose Soto committed Sep 21, 2024
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  2. try using percentage memory and max retries for phaseandimpute task

    Jose Soto committed Sep 21, 2024
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Commits on Sep 22, 2024

  1. go back to Xmx for beagle task with 128GB of memory

    Jose Soto committed Sep 22, 2024
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Commits on Sep 23, 2024

  1. try MaxRAMPercentage again with compressedOops option

    Jose Soto committed Sep 23, 2024
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  2. revert to oriinal memory

    Jose Soto committed Sep 23, 2024
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  3. use bcftools for making an index

    Jose Soto committed Sep 23, 2024
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Commits on Sep 25, 2024

  1. add window size to beagle phasing task

    Jose Soto committed Sep 25, 2024
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  2. update to 10cm

    Jose Soto committed Sep 25, 2024
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Commits on Sep 26, 2024

  1. try 5cM window

    Jose Soto committed Sep 26, 2024
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Commits on Oct 2, 2024

  1. back to default window size for beagle

    Jose Soto committed Oct 2, 2024
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Commits on Oct 8, 2024

  1. make sequence dict validation optional in UpdateHeader (#1380)

    @mmorgantaylor
    mmorgantaylor authored Oct 8, 2024
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  2. remove createrefpanel wdl from warp

    Jose Soto committed Oct 8, 2024
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Commits on Oct 11, 2024

  1. add default disk to remove symbolic alleles

    Jose Soto committed Oct 11, 2024
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  2. add default disk to separate multiallelics

    Jose Soto committed Oct 11, 2024
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  3. mess with disk sizes of tasks

    Jose Soto committed Oct 11, 2024
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