common-workflow-library/bio-cwl-tools

Issues

• copy over `Phenomenal` tools

  #157 opened 9 days ago by mr-c
  0

• Output in Kallisto-quant not working

  #156 opened 4 months ago by Brilator
  3

• old containers neeed updating

  #154 opened 7 months ago by mr-c
  1

• register these tool descriptions at bio.tool

  #150 opened a year ago by mr-c
  1

• Add "intent" fields with EDAM Operation values where possible

  #149 opened a year ago by mr-c
  0

• Add script to generate .dockstore.yml

  #140 opened 2 years ago by svonworl
  0

• copy resource reqs from Galaxy's TPV

  #138 opened 2 years ago by mr-c
  0

• subread/featureCounts: mapped_reads should have a secondaryFiles entry for the required index

  #134 opened 3 years ago by kafeenstra
  0

• The structure of the repository

  #8 opened 5 years ago by michael-kotliar
  7

• Consider supporting Top 100 packages in Bio-conda

  #118 opened 4 years ago by swzCuroverse
  0

• Add RSEM

  #114 opened 4 years ago by golharam
  1

• A call for a bio-cwl-tools team

  #105 opened 4 years ago by pvanheus
  9

• Pull request template

  #103 opened 4 years ago by pvanheus
  1

• STAR cwl is pointing to the hisat container

  #99 opened 4 years ago by nsheff
  1

• Allow public domain donations from US Federal Government employees

  #96 opened 4 years ago by mr-c
  0

• fastq_dump.cwl might have some problems when running without Internet connection

  #36 opened 5 years ago by michael-kotliar
  6

• Contributing

  #10 opened 5 years ago by mr-c
  28

• Document metadata for tools

  #5 opened 5 years ago by tetron
  4

• VARSCAN and SAMTools_mpileup CWL tool.

  #79 opened 4 years ago by ambarishK
  0

• s:mainEntity contents shoud go under SoftwareRequirement.packages

  #38 opened 5 years ago by mr-c
  1

• Update CI to only run on changed files.

  #28 opened 5 years ago by medcelerate
  2

• ci.py doesn't work on the release branch

  #34 opened 5 years ago by mr-c
  1

• Must there be a public software container?

  #7 opened 5 years ago by mr-c
  6

• setup CI for syntax validation

  #2 opened 5 years ago by mr-c
  2

• Migrate all the tools from https://github.com/common-workflow-language/workflows

  #14 opened 5 years ago by mr-c
  0

• write a README

  #3 opened 5 years ago by mr-c
  1

• Must described tools be under an F/OSS license and have a container already?

  #4 opened 5 years ago by mr-c
  1

• README includes a section on using cwldep to grab tools from this repo

  #6 opened 5 years ago by tetron
  0

• collecting existing Apache 2.0 licensed CWL tool descriptions

  #1 opened 5 years ago by mr-c
  0