Code

Parallelize pbsv call#75

Code

Merged

williamrowell merged 11 commits intodevelopPacificBiosciences/HiFi-human-WGS-WDL:developfrom feature/split-pbsv-callPacificBiosciences/HiFi-human-WGS-WDL:feature/split-pbsv-callCopy head branch name to clipboardOct 5, 2023

+89-63

Commits

Commits on Oct 3, 2023

• Split pbsv call task into 14 sets of ~150-300Mbp, never splitting chromosomes.

  williamrowell

  committed
  08b9a85

• Update wdl-common

  williamrowell

  committed
  cb85551

• update wdl-ci config file after successful tests

  github-actions[bot]

  committed
  18f908b

• pbsv_call produces a single output per call.

  williamrowell

  committed
  e998322

• update wdl-ci config file after successful tests

  github-actions[bot]

  committed
  502b353

• Combine indexing with concatenation. Add vcf concat test.

  williamrowell

  committed
  a57ec1a

• update wdl-ci config file after successful tests

  github-actions[bot]

  committed
  730bbcb

Commits on Oct 4, 2023

• Update submodule to use pbsv call with _optional_ regions.

  williamrowell

  committed
  c372f38

• Use write_lines() to write non-region svisg.fofn.

  williamrowell

  committed
  b81f466

• update wdl-ci config file after successful tests

  github-actions[bot]

  committed
  6b73fd3

Commits on Oct 5, 2023

• Merge branch 'develop' into feature/split-pbsv-call

  williamrowell

  authored
  7156b6e