v1.0.0

What's Changed

Exciting New Features 🎉

• docs: add extensive externally hosted docs by @fgypas in #177

Other Changes

• docs: deploy dedicated docs pages by @uniqueg in #175
• docs: add ZARP poster to info materials by @ninsch3000 in #176
• build: major dependencies update by @uniqueg in #181
• build: add Dockerfile by @uniqueg in #188
• ci: allow workflow to force push CHANGELOG by @uniqueg in #189

Full Changelog: v0.5.0...v1.0.0

v1.0.0-rc.1

What's Changed

Exciting New Features 🎉

• feat: mount tmp dir in Singularity container by @ninsch3000 in #139
• feat: multiorganism support by @mkatsanto in #172

Other Changes

• fix: DRR/ERR IDs not supported in SRA workflow by @uniqueg in #131
• fix: do not use nan in htsinfer call by @ninsch3000 in #137
• fix: allow global error flag variable to be changed inside function by @ninsch3000 in #138
• perf: pin htsinfer docker image to latest by @balajtimate in #140
• doc: DOI badges for biorxiv, zenodo, workflowhub by @ninsch3000 in #141
• ci: fix ZARP Conda environment persistence by @dominikburri in #142
• fix: update htsinfer_to_tsv.py with zarp-cli compatibilities by @balajtimate in #143
• fix: change htsinfer_to_tsv.py exit code by @balajtimate in #144
• feat(htsinfer): interface log and cluster log dirs via config.yaml by @ninsch3000 in #146
• fix(ci): fix failing jobs, add htsinfer job by @ninsch3000 in #149
• fix: pin Python version by @balajtimate in #151
• fix: Cutadapt compression level problem by @uniqueg in #153
• build: upgrade tool versions by @uniqueg in #155
• docs: fix field names in sample table example by @magmir71 in #134
• fix: major rewrite of SRA download workflow by @mkatsanto in #157
• fix: too little RAM allocated for BED sorting by @uniqueg in #161
• ci: upgrade used Actions by @uniqueg in #163
• chore: deprecation warnings for get_sample() by @uniqueg in #164
• fix(sra): make layout extraction more resilient by @uniqueg in #167
• fix(sra): improve layout extraction from NCBI db by @mkatsanto in #168
• feat(htsinfer): support Conda execution by @uniqueg in #169
• docs: update ZARP-cli installation instructions by @uniqueg in #170

New Contributors

• @uniqueg made their first contribution in #131
• @magmir71 made their first contribution in #134

Full Changelog: v0.5.0...v1.0.0-rc.1

v0.5.0

✨ New Features

• 90f6f9a - add changelog and release notes (PR #87 by @mkatsanto)
  • ↘️ addresses issue #5 opened by @uniqueg
• 4b52d4d - zarp-cli installation as an option (PR #122 by @mkatsanto)
  • ↘️ addresses issue #114 opened by @uniqueg

🐛 Bug Fixes

• 2f08e8c - issue with snakefmt, issue with mamba version in CI (PR #111 by @fgypas)
  • ↘️ fixes issue #109 opened by @fgypas
• 0cc8e86 - gtf sorting (PR #121 by @mkatsanto)
  • ↘️ fixes issue #113 opened by @mkatsanto
• 1a57ffb - update environment dependency versions (PR #124 by @balajtimate)
  • ↘️ fixes issue #108 opened by @fgypas
• 72b7354 - release notes categories (PR #128 by @mkatsanto)
  • ↘️ fixes issue #127 opened by @mkatsanto

v0.4.1

What's Changed

Exciting New Features 🎉

*feat: addition of snakemake compatible format and linting (#104)

Full Changelog: v0.4.0...v0.4.1

v0.4.0

What's Changed

Exciting New Features 🎉

• chore: update Snakemake by @AngryMaciek in #50
• chore: change conda pkg manager to mamba by @AngryMaciek in #53
• chore: turn MultiQC logo config params optional by @AngryMaciek in #74

Other Changes

• build: clean up dependencies by @mkatsanto in #73

New Contributors

• @ninsch3000 made their first contribution in #61
• @noepozzan made their first contribution in #62
• @dominikburri made their first contribution in #64
• @nielsschlusser made their first contribution in #96