v1.0.0-rc.1

What's Changed

• feat: add configuration models by @uniqueg in #17
• ci: migrate to GH Actions by @AngryMaciek in #27
• feat: config & sample management by @uniqueg in #29
• feat: add arg for rule config by @uniqueg in #32
• feat: write Snakemake run config file by @uniqueg in #33
• feat: add generic Snakemake executor by @dominikburri in #23
• docs: build & publish on GH Pages by @uniqueg in #40
• docs: fix broken/outdated badges by @uniqueg in #45
• docs: fix page title by @uniqueg in #47
• docs: build API reference for all modules by @uniqueg in #49
• feat: support for fetching libraries from SRA by @uniqueg in #50
• refactor: major code cleanup by @uniqueg in #51
• feat: implement sample processing flow by @uniqueg in #52
• feat: set sample config defaults by @uniqueg in #54
• feat: set dummy data by @uniqueg in #57
• fix: use defaults from user config by @uniqueg in #58
• feat: fetch genome resources and set paths by @uniqueg in #61
• feat: infer missing metadata by @balajtimate in #60
• feat: execute ZARP by @uniqueg in #63
• fix: bind input file locations to Singularity by @uniqueg in #65
• build: use Conda for dev environment setup by @uniqueg in #67
• docs: provide extensive documentation by @uniqueg in #71
• build: fix installation by @uniqueg in #75
• feat: restructure HTSinfer output dir tree by @uniqueg in #76
• feat: pass Snakemake profile to ZARP workflow by @uniqueg in #77
• fix: mount TMP directories for Singularity by @ninsch3000 in #79
• fix: propagate HTSinfer inferences by @uniqueg in #80
• fix: various pre-release fixes by @uniqueg in #82
• fix: various prerelease fixes by @uniqueg in #83
• fix(htsinfer): set Singularity bind args for Conda by @uniqueg in #86
• feat: Conda support for HTSinfer workflow by @uniqueg in #87
• docs: minor fixes by @uniqueg in #88
• build: v1.0.0-rc.1 by @uniqueg in #89

New Contributors

• @AngryMaciek made their first contribution in #27
• @dominikburri made their first contribution in #23
• @ninsch3000 made their first contribution in #79

Full Changelog: https://github.com/zavolanlab/zarp-cli/commits/v1.0.0-rc.1