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nf-core/pixelator: Changelog

The format is based on Keep a Changelog and this project adheres to Semantic Versioning.

[1.3.1] - 2024-07-31

Enhancements & fixes

  • [PR #107] - Fix conda version tag to use pixelator 0.18.2

[1.3.0] - 2024-07-17

Enhancements & fixes

  • [PR #97] - Update citations
  • [PR #96] - Make all ext.args assignments closures
  • [PR #98] - Update metromap to include layout step
  • [PR #99] - Update README to include layout step
  • [PR #100] - Use R1/R2 suffixes in amplicon input fastq file renaming
  • [PR #101] - Fix validation issue when using panel_file instead of panel
  • [PR #102] - Restructure output directory
  • [PR #103] - Make rate-diff the default transformation method when computing colocalization
  • [PR #104] - Update to pixelator 0.18.1
  • [PR #106] - Update to pixelator 0.18.2

Software dependencies

Dependency Old version New version
pixelator 0.17.1 0.18.2

Note

Dependency has been updated if both old and new version information is present. Dependency has been added if just the new version information is present. Dependency has been removed if new version information isn't present.

[1.2.0] - 2024-05-28

Enhancements & fixes

  • [PR #89] - Template update for nf-core/tools v2.14.1
  • [PR #90] - Update pixelator to 0.17.1
  • [PR #90] - Add pixelator single-cell layout command
  • [PR #90] - The graph and annotate steps are now using process_high as their resource tags
  • [PR #91] - Set process_high to use 64GB of RAM and process_high_memory to use 128GB of RAM
  • [PR #92] - Minor touch-ups to the documentation
  • [PR #93] - Merge RENAME_READS functionality into PIXELATOR_AMPLICON

Software dependencies

Dependency Old version New version
pixelator 0.16.2 0.17.1

NB: Dependency has been updated if both old and new version information is present.

NB: Dependency has been added if just the new version information is present.

NB: Dependency has been removed if new version information isn't present.

[1.1.0] - 2024-03-29

Enhancements & fixes

  • [PR #83] - Template update for nf-core/tools v2.13
  • [PR #84] - Update pixelator to 0.16.2, collapseandgraph` step now return parquet files
  • [PR #85] - Remove a workaround for container issues, silence some warnings, update default resources

Software dependencies

Dependency Old version New version
pixelator 0.15.2 0.16.2

NB: Dependency has been updated if both old and new version information is present.

NB: Dependency has been added if just the new version information is present.

NB: Dependency has been removed if new version information isn't present.

[1.0.3] - 2024-01-19

Enhancements & fixes

  • [PR #74] - Template update for nf-core/tools v2.11
  • [e196431] - Workaround a tool issue by removing docker.runOptions user and group flags
  • [PR #76] - Use adapterqc output as main output of PIXELATOR_QC
  • [PR #77] - Fix some style issues in nextflow_schema.json

[1.0.2] - 2023-11-20

Enhancements & fixes

  • [PR #70] - Fix loading of absolute paths and urls in input samplesheet

[1.0.1] - 2023-10-27

Enhancements & fixes

  • [PR #66] - Add a warning and workaround for singularity & apptainer
  • Cleanup some linting warnings
  • Update docker image in RENAME_READS to match the singularity container

Software dependencies

Dependency Old version New version
pixelator 0.15.0 0.15.2

NB: Dependency has been updated if both old and new version information is present.

NB: Dependency has been added if just the new version information is present.

NB: Dependency has been removed if new version information isn't present.

[1.0.0] - 2023-10-17

Initial release of nf-core/pixelator.