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Gconcepcion/yak changes#9

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gconcepcion merged 18 commits intodevelopPacificBiosciences/HiFi-human-assembly-WDL:developfrom gconcepcion/yak-changesPacificBiosciences/HiFi-human-assembly-WDL:gconcepcion/yak-changesCopy head branch name to clipboardOct 26, 2023

+316-122

Commits

Commits on Aug 16, 2023

• Calculate total bases input for each parent to set yak params on the fly

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• less than not greater than

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Commits on Sep 22, 2023

• Adding multi-reference alignment option

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• add yak bloom filter condition

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• fix coverage

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Commits on Sep 25, 2023

• determine yak settings for both parents rather than independently

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• fix tests and remove some debug comments I missed

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• update wdl-ci config file after successful tests

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• update wdl-ci config file after successful tests

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Commits on Sep 28, 2023

• Take a stab at estimating depth based on filesize.

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• changed flag name and fixed my flipped logic

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• Adjusted tests.

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• Memory is an int.

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• update wdl-ci config file after successful tests

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• added warning comment about estimating depth by filesize

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Commits on Sep 29, 2023

• Explicitly pass default yak count and hifiasm params.

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Commits on Oct 2, 2023

• Merge pull request #10 from PacificBiosciences/wrowell/yak-suggestions

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Commits on Oct 26, 2023

• update README to reflect array of reference inputs as well as arrays of aligned bam outputs

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