Code

read_qc subworkflow#15

Code

Merged

chrisAta merged 13 commits intomainEBI-Metagenomics/nf-modules:mainfrom swf/qcEBI-Metagenomics/nf-modules:swf/qcCopy head branch name to clipboardSep 27, 2023

+605

Commits

Commits on Sep 15, 2023

• initial commit of swf/qc branch

  chrisAta

  committed
  81a069c

  Copy full SHA for 81a069c

• fixed unit tests "contains in" for html and log outputs

  chrisAta

  committed
  a670ac0

  Copy full SHA for a670ac0

Commits on Sep 18, 2023

• Add seqtk seq module + unit test

  chrisAta

  committed
  31d0c53

  Copy full SHA for 31d0c53

• added subworkflow code and test

  chrisAta

  committed
  e652011

  Copy full SHA for e652011

• fixed unit test "contains in" for html output

  chrisAta

  committed
  0f44c55

  Copy full SHA for 0f44c55

Commits on Sep 19, 2023

• add fastp.json as emitted output in subworkflow

  chrisAta

  committed
  f7850dd

  Copy full SHA for f7850dd

• fix unit test output for the fastp.log, should be a "contains" test not an md5sum test due to variable time

  chrisAta

  committed
  e447a7c

  Copy full SHA for e447a7c

• run prettier

  chrisAta

  committed
  bddd621

  Copy full SHA for bddd621

• make requested changes after code review comments

  chrisAta

  committed
  57e2508

  Copy full SHA for 57e2508

• forgot to make some changes in the reads_qc subworkflow instead of just the modules

  chrisAta

  committed
  96becc4

  Copy full SHA for 96becc4

Commits on Sep 21, 2023

• concatenate single-end and paired-end-merged output from fastp to feed into seqtk/seq. add unit tests for reads_qc subworkflow that test for just single-end, just paired-end, and a mix

  chrisAta

  committed
  5671f45

  Copy full SHA for 5671f45

Commits on Sep 26, 2023

• Add nextflow.config to reads_qc directory

  chrisAta

  committed
  26b6e64

  Copy full SHA for 26b6e64

• fix "Wrong line endings or no final newline" linting error

  chrisAta

  committed
  028abf8

  Copy full SHA for 028abf8