Changelog

3.9.0 (2024-04-22)

Features

Bug Fixes

Performance Improvements

3.8.0 (2024-04-12)

Features

Bug Fixes

Performance Improvements

3.7.0 (2024-03-27)

Features

Bug Fixes

  • path of .fai file in ensembl-variation wrapper (#2773) (af63b5b)

3.6.0 (2024-03-26)

Features

3.5.3 (2024-03-22)

Performance Improvements

3.5.2 (2024-03-18)

Bug Fixes

  • output file handling in ensembl-variation wrapper in combination with remote storage or absolute output file paths (#2753) (5bbb7b2)

3.5.1 (2024-03-15)

Performance Improvements

3.5.0 (2024-03-13)

Features

Performance Improvements

3.4.1 (2024-03-01)

Performance Improvements

3.4.0 (2024-02-27)

Features

  • Add csvtk wrapper (#2681) (495053e)

  • MultiQC temp folder, specify outdir/filename, infer options, and bump version (#2639) (1edbead)

3.3.7 (2024-02-27)

Bug Fixes

Performance Improvements

3.3.6 (2024-01-26)

Performance Improvements

3.3.5 (2024-01-23)

Performance Improvements

3.3.4 (2024-01-19)

Bug Fixes

  • plotting with no model in nonpareil (#2536) (1ac6350)

  • test case for reference-ensembl-sequence wrapper (#2522) (46bac2e)

Performance Improvements

3.3.3 (2023-12-29)

Performance Improvements

3.3.2 (2023-12-21)

Bug Fixes

  • fix title in ega/fetch metadata (c8305af)

  • for vsearch, fixed bug with bz2 output and added general log (#1775) (28e76d0)

3.3.1 (2023-12-15)

Miscellaneous Chores

3.3.0 (2023-12-15)

Features

Bug Fixes

Performance Improvements

3.2.0 (2023-12-14)

Features

Bug Fixes

  • Add json output to Nonpareil and extra plot options (#2393) (c43af99)

3.1.0 (2023-12-11)

Features

Performance Improvements

3.0.4 (2023-12-07)

Bug Fixes

  • add support for multiple samples to bcftools mpileup (#2391) (1296a9c)

3.0.3 (2023-12-05)

Bug Fixes

Performance Improvements

3.0.2 (2023-11-29)

Performance Improvements

3.0.1 (2023-11-29)

Performance Improvements

3.0.0 (2023-11-23)

⚠ BREAKING CHANGES

  • replace all bbtool wrappers with one bbtool wrapper for all subcommands (#1322)

Features

  • allow for specifying multiple chromosomes in ensembl reference dna sequence download wrapper (#2376) (c5590f0)

  • replace all bbtool wrappers with one bbtool wrapper for all subcommands (#1322) (6eb3c22)

Bug Fixes

Performance Improvements

2.13.0 (2023-11-13)

Features

2.12.0 (2023-11-10)

Features

  • update datavzrd wrapper to datavzrd v2.31.0 (#2318) (a142594)

2.11.1 (2023-11-10)

Performance Improvements

2.11.0 (2023-11-10)

Features

  • Gatk short-variants-calling meta-wrapper (#1778) (4099e4b)

Performance Improvements

2.10.0 (2023-11-08)

Features

Bug Fixes

Performance Improvements

2.9.1 (2023-11-01)

Performance Improvements