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CHANGELOG.md 3.47 KiB

v1.4.0 (in development)

UserFacing

  • Check Design File for spaces in name and file contents
  • Update design example, README, and astrocyte.yml with current barcode IDs
  • Remove unnecessary intermediate process files

Background

  • Add Nextflow Tower integration into CI (GHH's profile)

Known Bugs

  • cellranger mkfastq will not accept spaces in path for run param even if quoted, issue raised on 10XGenomics/cellranger github issue #31
    • note: 10x doesn't check github issues, emailed instead
    • note: pipeline checks for spaces and exits prematurely if found
  • If multiple flowcells (tar'd) files are inputted then there will be multiple fastq's by the same name, currently dealing with that name conflict is not tractable
    • note: if multiple bcl files are detected then cellranger_count design file is not created

v1.3.1

User Facing

  • Change Cellranger Version to 3.1.0
  • Fix countDesign to take multiple samples
  • Add MIT License
  • Check Design File for spaces in name and file contents
  • Update design example, README, and astrocyte.yml with current barcode IDs

Background

  • Add CI artifacts
  • Add Nextflow Tower integration into CI (GHH's profile)

Known Bugs

  • cellranger mkfastq will not accept spaces in path for run param even if quoted, issue raised on 10XGenomics/cellranger github issue #31
    • note: 10x doesn't check github issues, emailed instead
    • note: pipeline checks for spaces and exits prematurely if found
  • If multiple flowcells (tar'd) files are inputted then there will be multiple fastq's by the same name, currently dealing with that name conflict is not tractable
    • note: if multiple bcl files are detected then cellranger_count design file is not created

v1.2.0

User Facing

  • Add references to of tools to mutiQC report
  • Add BICF details to multiqc report
  • Create cellranger_count design file (if only 1 flowcell is inputted)

Background

  • Add DOI (develop branch)
  • Add changelog as link to astrocyte docs (master branch)
  • Update example design file link in astrocyte docs (master branch)
  • Check tarballed bcl directory for spaces and exit if it contains one...cellranger mkfastq cannot handle spaces (develop branch)
  • Move untar (including space check) to bash script
  • Add Jeremy Mathews to author list
  • Apply style guide
  • Add pytests for ouptuts

Known Bugs