Code

Add Serialisation Support#31

Code

Merged

Adamtaranto merged 25 commits intomainoxli-bio/oxli:mainfrom dev_serialisationoxli-bio/oxli:dev_serialisationCopy head branch name to clipboardSep 23, 2024

+301-21

Commits

Commits on Sep 14, 2024

• Add toml package as testing dependency.

  Adamtaranto

  committed
  9d6c130

• Add version attribute to new KmerCountTable instances.

  Adamtaranto

  committed
  50f1ba9

• Test version attribute.

  Adamtaranto

  committed
  efea9a8

• Track total bases consumed with attr consumed

  Adamtaranto

  committed
  94c9126

• Add tests for consumed attr

  Adamtaranto

  committed
  9b943df

• Add sum_counts attr to get total counts in table.

  Adamtaranto

  committed
  a7c4bf0

• Add tests for sum_counts attr

  Adamtaranto

  committed
  824a5b9

• Add __len__ method to get total unique kmer count.

  Adamtaranto

  committed
  8ba5166

• Add tests for __len__ method.

  Adamtaranto

  committed
  06e148b

• Add __getitem__ and __setitem__ methods

  Adamtaranto

  committed
  c697fa0

• Tests for __getitem__ and __setitem__ dunder methods.

  Adamtaranto

  committed
  5163e5f

• Make KmerCountTable iterable

  Adamtaranto

  committed
  aeef6e7

• Add tests for __iter__

  Adamtaranto

  committed
  9d95e78

Commits on Sep 16, 2024

• Add serde and flate2

  Adamtaranto

  committed
  06b56fa

• Add serialisation support

  Adamtaranto

  committed
  3c1faed

• Add serialisation tests

  Adamtaranto

  committed
  91dba9c

Commits on Sep 18, 2024

• Merge branch 'main' into dev_serialisation

  Adamtaranto

  committed
  1c3cfec

Commits on Sep 20, 2024

• Merge branch 'main' into dev_serialisation

  Adamtaranto

  committed
  626d83f

• Add niffler

  Adamtaranto

  committed
  496a0cb

• sort imports

  Adamtaranto

  committed
  b167d16

• Use niffler for gzip read/write

  Adamtaranto

  committed
  6cf462d

• Style fixes by Ruff

  

  Adamtaranto

  authored and

  github-actions[bot]

  committed
  9642592

• bump serde

  Adamtaranto

  committed
  fd3b202

Commits on Sep 23, 2024

• MRG: update serialization code (#49)

  Show description for 4e97c7e
  

  ctb

  and

  Adamtaranto

  authored
  4e97c7e

• Merge branch 'main' into dev_serialisation

  Adamtaranto

  authored
  e094186