Code

Support variable bin sizes#81

Code

Merged

robomics merged 29 commits intomainpaulsengroup/hictk:mainfrom cooler/variable-binspaulsengroup/hictk:cooler/variable-binsCopy head branch name to clipboardDec 15, 2023

+2,664-945

Commits

Commits on Dec 6, 2023

• Refactor BinTable and initial implementation of BinTableVariable

  Show description for e43ecfd
  robomics

  committed
  e43ecfd

• Update cooler::File to support reading files with variable bin size

  robomics

  committed
  8eb8507

• Initial support for creating coolers with variable bin size (C++ API)

  robomics

  committed
  7776376

• Update test dataset

  robomics

  committed
  98e671b

• Update hictk load to support variable bin sizes

  robomics

  committed
  ad8766b

• Bugfix

  robomics

  committed
  3c4da66

• Bugfix

  robomics

  committed
  3c537d6

• Bugfix

  robomics

  committed
  8e20097

Commits on Dec 7, 2023

• Bugfix

  robomics

  committed
  01778b8

• Add more tests for BinTable

  robomics

  committed
  3c68959

• Update pixel parsers

  robomics

  committed
  0f1f8f9

• Update hictk load

  Show description for 44e93f3
  robomics

  committed
  44e93f3

• Detect when a fixed bin table is passed through --bin-table

  robomics

  committed
  b83a7e4

• Update integration tests for hictk load

  robomics

  committed
  2199789

• Add script to generate bin tables with variable bin sizes

  robomics

  committed
  13865cb

• Update test dataset

  robomics

  committed
  8d692dd

• Fix off-by-one bug

  robomics

  committed
  003d0f4

• Bugfix

  robomics

  committed
  af0644c

• Set sensible defaults for one/zero based coords

  robomics

  committed
  3c48ee3

• Bugfix

  robomics

  committed
  1f89d83

• Bugfix

  robomics

  committed
  ca1fa65

• Fix GCC12 builds

  robomics

  committed
  4e88525

• Fix clang builds

  robomics

  committed
  b03ce51

Commits on Dec 8, 2023

• Address clang-tidy warnings

  robomics

  committed
  1cc71df

• Validate bins upon constructing an instance of BinTableVariable

  robomics

  committed
  a003682

• Update hictk merge to support coolers with variable bin size

  robomics

  committed
  8017d56

• Update hictk convert to prevent conversion of cooler with variable bin size

  robomics

  committed
  e121363

• Update hictk zoomify to prevent processing of coolers with variable bin size

  robomics

  committed
  05dc1bb

• Address clang-tidy warnings

  robomics

  committed
  80965a7