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Published April 9, 2019 | Version 1.6
Software Open

nf-core/tools: Brass Walrus

Creators

  • 1. QBiC @qbicsoftware
  • 2. Science for Life Laboratory
  • 3. @qbicsoftware
  • 4. The Francis Crick Institute
  • 5. @novicell
  • 6. @SciLifeLab | Karolinska Institutet
  • 7. @SGBC
  • 8. Genome Institute of Singapore
  • 9. @NationalGenomicsInfrastructure @SciLifeLab
  • 10. @NBISweden
  • 11. @OICR_news

Description

Syncing

  • Code refactoring to make the script more readable
  • No travis build failure anymore on sync errors
  • More verbose logging
Template pipeline
  • awsbatch work-dir checking moved to nextflow itself. Removed unsatisfiable check in main.nf template.
  • Fixed markdown linting
  • Tools CI testing now runs markdown lint on compiled template pipeline
  • Migrated large portions of documentation to the nf-core website
  • Removed Gitter references in .github/ directories for tools/ and pipeline template.
  • Changed scrape_software_versions.py to output .csv file
  • Added export_plots parameter to multiqc config
Tools helper code
  • Drop nf-core/rnaseq from blacklist.json to make template sync available
  • Updated main help command to sort the subcommands in a more logical order
  • Updated readme to describe the new nf-core launch command
  • Fix bugs in nf-core download
    • The latest release is now fetched by default if not specified
    • Downloaded pipeline files are now properly executable.
  • Fixed bugs in nf-core list
    • Sorting now works again
    • Output is partially coloured (better highlighting out of date pipelines)
    • Improved documentation
  • Fixed bugs in nf-core lint
    • The order of conda channels is now correct, avoiding occasional erroneous errors that packages weren't found (#207)
  • Add reporting of ignored errored process
    • As a solution for #103)

Files

nf-core/tools-1.6.zip

Files (213.7 kB)

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md5:99c1ff1a3c9c06207650913ee8f4c263
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Additional details

Related works

Is supplement to
https://github.com/nf-core/tools/tree/1.6 (URL)