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Revert AF calculation bug and yet another reblocking fix #7670

Merged
merged 10 commits into from
Mar 8, 2022
Merged

Revert AF calculation bug and yet another reblocking fix #7670

merged 10 commits into from
Mar 8, 2022

Commits on Feb 17, 2022

  1. Fix automatic zeroing of array end/non-ref data because sometimes the… 

    …re's no

non-ref
Reenable EM in multi-allelic QUAL calculation
    @ldgauthier
    ldgauthier committed Feb 17, 2022
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  2. Previous version had bad AN values

    @ldgauthier
    ldgauthier committed Feb 17, 2022
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  3. Be more clear about max alts arg; don't let no-calls get inferred 

    because that can cause problems
    @ldgauthier
    ldgauthier committed Feb 17, 2022
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Commits on Mar 2, 2022

  1. Hook up new max alt GDB arg to Gnarly

    @ldgauthier
    ldgauthier committed Mar 2, 2022
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Commits on Mar 3, 2022

  1. Allow Gnarly's max alt count to be changed via GenotypeCalculateArgs

    @ldgauthier
    ldgauthier committed Mar 3, 2022
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  2. Oops, broke GGVCFs

    @ldgauthier
    ldgauthier committed Mar 3, 2022
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Commits on Mar 4, 2022

  1. Add regression test for GGVCFs max alt arg mixup

    @ldgauthier
    ldgauthier committed Mar 4, 2022
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Commits on Mar 7, 2022

  1. Every. Single. Time.

    @ldgauthier
    ldgauthier committed Mar 7, 2022
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Commits on Mar 8, 2022

  1. Address review comments; just cleanup

    @ldgauthier
    ldgauthier committed Mar 8, 2022
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  2. Actually delete empty test

    @ldgauthier
    ldgauthier committed Mar 8, 2022
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