Code

Sfitz input vcfs#274

Code

Merged

sorelfitzgibbon merged 34 commits intomainuclahs-cds/pipeline-call-sSNV:mainfrom sfitz-input-vcfsuclahs-cds/pipeline-call-sSNV:sfitz-input-vcfsCopy head branch name to clipboardMay 30, 2024

+956-682

Commits

Commits on Feb 14, 2024

• vcf input yaml

  sorelfitzgibbon

  committed
  fbfb984

  Copy full SHA for fbfb984

• overlooked nftest.yml actual paths including tool versions

  sorelfitzgibbon

  committed
  4eb7988

  Copy full SHA for 4eb7988

Commits on Feb 17, 2024

• working but need to add pipeval for input vcfs and tweak log structure

  sorelfitzgibbon

  committed
  5967e75

  Copy full SHA for 5967e75

• add test vcf yaml

  sorelfitzgibbon

  committed
  47bba4d

  Copy full SHA for 47bba4d

Commits on Mar 11, 2024

• update VCF template yaml

  sorelfitzgibbon

  committed
  f17d4f6

  Copy full SHA for f17d4f6

• Merge branch 'main' of github.com:uclahs-cds/pipeline-call-sSNV into sfitz-input-vcfs

  sorelfitzgibbon

  committed
  92752b5

  Copy full SHA for 92752b5

Commits on Mar 21, 2024

• update changelog

  sorelfitzgibbon

  committed
  00a2d82

  Copy full SHA for 00a2d82

Commits on May 13, 2024

• merge from origin main

  sorelfitzgibbon

  committed
  13542e1

  Copy full SHA for 13542e1

Commits on May 14, 2024

• Autofix Nextflow configuration regression tests

  

  sorelfitzgibbon

  authored and

  github-actions[bot]

  committed
  17159d7

  Copy full SHA for 17159d7

• avoid unused process warnings

  sorelfitzgibbon

  committed
  a4f96cc

  Copy full SHA for a4f96cc

• add input vcf to nftest

  sorelfitzgibbon

  committed
  91865cf

  Copy full SHA for 91865cf

• update changelog

  sorelfitzgibbon

  committed
  defe784

  Copy full SHA for defe784

• Merge branch 'sfitz-input-vcfs' with --no-ff

  sorelfitzgibbon

  committed
  dc80c74

  Copy full SHA for dc80c74

• avoid unused process warnings, all F config

  sorelfitzgibbon

  committed
  0d22d0f

  Copy full SHA for 0d22d0f

• Autofix Nextflow configuration regression tests

  

  sorelfitzgibbon

  authored and

  github-actions[bot]

  committed
  7808bfd

  Copy full SHA for 7808bfd

Commits on May 15, 2024

• merge in from main

  sorelfitzgibbon

  committed
  cebbe15

  Copy full SHA for cebbe15

• fix intersection script resources

  sorelfitzgibbon

  committed
  1ab2631

  Copy full SHA for 1ab2631

• define input_type before used in F configs

  sorelfitzgibbon

  committed
  59d0137

  Copy full SHA for 59d0137

• keep configtests from main

  sorelfitzgibbon

  committed
  a2b9425

  Copy full SHA for a2b9425

• Autofix Nextflow configuration regression tests

  

  sorelfitzgibbon

  authored and

  github-actions[bot]

  committed
  40c5fd8

  Copy full SHA for 40c5fd8

Commits on May 29, 2024

• change process name

  sorelfitzgibbon

  committed
  31e287a

  Copy full SHA for 31e287a

• remove unused file

  sorelfitzgibbon

  committed
  fba06b3

  Copy full SHA for fba06b3

• fix input template

  sorelfitzgibbon

  committed
  a74120d

  Copy full SHA for a74120d

• turn off intermediate output

  sorelfitzgibbon

  committed
  0511693

  Copy full SHA for 0511693

• consolidate include statements

  sorelfitzgibbon

  committed
  65cbf52

  Copy full SHA for 65cbf52

• add input checks

  sorelfitzgibbon

  committed
  a024846

  Copy full SHA for a024846

• update configtests

  sorelfitzgibbon

  committed
  4486115

  Copy full SHA for 4486115

• Merge branch 'sfitz-input-vcfs' of github.com:uclahs-cds/pipeline-call-sSNV into sfitz-input-vcfs

  sorelfitzgibbon

  committed
  6e6af05

  Copy full SHA for 6e6af05

• Mask version numbers in tests

  nwiltsie

  committed
  a1a92d6

  Copy full SHA for a1a92d6

• Autofix Nextflow configuration regression tests

  

  sorelfitzgibbon

  authored and

  github-actions[bot]

  committed
  5480446

  Copy full SHA for 5480446

• Merge remote-tracking branch 'origin' into sfitz-input-vcfs

  sorelfitzgibbon

  committed
  56a29fb

  Copy full SHA for 56a29fb

Commits on May 30, 2024

• remove unused functions

  sorelfitzgibbon

  committed
  11d4c29

  Copy full SHA for 11d4c29

• move channel creation into workflow

  sorelfitzgibbon

  committed
  bc570f0

  Copy full SHA for bc570f0

• fix changelog

  sorelfitzgibbon

  committed
  f61eb0f

  Copy full SHA for f61eb0f