Code

A flattened binary format for GFAs#150

Code

Merged

sampsyo merged 44 commits intomaincucapra/pollen:mainfrom polbincucapra/pollen:polbinCopy head branch name to clipboardMar 11, 2024

+1,125-1

Commits

Commits on Mar 9, 2024

• Skeleton using rs-gfa

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  b43b0a9

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• Load up segment data

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  f053a12

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• Parse actual path contents

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  c7b8557

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• Add a quick test

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  431958d

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• Split up some modules

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  5ea8729

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• Appease Clippy

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  83deded

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• Parser cleanup

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  0d0b1c3

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• Access sequence slice

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  e78a5ee

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• Separation of concerns

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  a7bf6cc

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• Try printing out paths??

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  ef68a56

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• Deal with annoying comma join

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  1a8f967

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Commits on Mar 10, 2024

• Reference segments by index

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  77b902e

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• Refactor a Parser struct

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  9e9fdea

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• Include header

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  eb64754

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• Parse links

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  26b9cae

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• Use a proper orientation enum

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  38115ce

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• Parse path alignment??

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  963d481

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• Comma nonsense

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  719f3f7

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• Link overlaps

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  fbffd96

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• Start some display traits

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  d66b0a1

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• Display trait for CIGAR

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  315fe7f

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• Separate print module

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  f9721f3

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• Start push utilities

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  6e0f517

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• Pool utilities work for overlaps

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  45d6ffe

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• Flatten name buffer

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  d949397

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• Turnt target for polbin roundtrip

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  488a9de

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• Handle links & paths after all segments

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  821e914

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• Handle * in path overlaps

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  e70c59f

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• Refactor some print functions

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  b737d64

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• Record line order

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  36b54dd

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• Print in order

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  95e801d

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• Appease Clippy

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  282819f

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• Preserve optional segment data

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  8be0c50

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• Rename some structs

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  cec95ce

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• Lots of documentation

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  de090e5

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• Reorder some stuff

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  e610d5b

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• Split data store from "view" struct

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  d106b77

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Commits on Mar 11, 2024

• Custom type instead of Range

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  3cd6a2d

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• Start mixing in zerocopy

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  59b888e

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• Bit-pack handles

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  332e1a8

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• Clippy cleanup

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  cfc16f7

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• Bit-pack align ops

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  8937970

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• Represent line order to u8

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  82d3f96

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• Start file deserialization

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