Releases: caporaso-lab/genome-sampler
Releases · caporaso-lab/genome-sampler
genome-sampler 2025.02.0
A long-overdue release of genome-sampler which brings it up to date with the most recent release version of QIIME 2 (2024.10). The documentation has also been transitioned to Jupyter Book 2.
Enjoy!
What's Changed
- NEW: Begin adding label_seqs by @Oddant1 in #49
- IMP: Fill missing metadata values with given placeholder by @Oddant1 in #52
- IMP: Use Evans Fancy Open by @Oddant1 in #54
- ENH: adds vcf-based alignment masking by @gregcaporaso in #56
- BUG: fix pseudo-vcf parsing by @ebolyen in #58
- BUG: fix newline handling by @ebolyen in #59
- ENH/DEP: add temporary action pending framework fix by @gregcaporaso in #60
- BUG: fix MSA index using minting from seq ids by @ebolyen in #62
- MAINT: mark label_unaligned_seqs as deprecated by @thermokarst in #61
- CI: Library updates by @thermokarst in #74
- decrease frequency of stochastic test failures by @gregcaporaso in #82
- CI: build env file by @thermokarst in #77
- MAINT: replaces VCFLikeMaskFormat with VCFMaskFormat by @gregcaporaso in #65
- IMP: generalize label-seqs by @gregcaporaso in #72
- DOC: update install instructions for conda envs by @thermokarst in #83
- Benchmarks by @ebolyen in #84
- IMP: use config and cores in snakemake by @ebolyen in #85
- CI/BUG: incorrect package names by @thermokarst in #86
- MAINT: add snakemake to env file by @ebolyen in #87
- DOC: tutorial updates by @gregcaporaso in #69
- VER: 2020.11.0.dev0 by @thermokarst in #91
- CI: set master CI
alptarget to "staging" by @thermokarst in #90 - address memory issue with large GISAID files by @gregcaporaso in #94
- ci: new set-env api by @thermokarst in #95
- ci: handle conda virtual packages by @thermokarst in #96
- ci/maint: use latest qiime2 staging env by @thermokarst in #97
- MAINT: updates setup files & CI by @lizgehret in #101
- update base branch name by @gregcaporaso in #104
- prep config for read the docs by @gregcaporaso in #106
- add formal usage examples to docs by @gregcaporaso in #107
- update project administrative information by @gregcaporaso in #109
- Update snakemake tutorial by @gregcaporaso in #110
- update for q2doc change by @gregcaporaso in #111
New Contributors
- @Oddant1 made their first contribution in #49
- @lizgehret made their first contribution in #101
Full Changelog: 2020.6.1...2025.02.0
Contributors
gregcaporaso, thermokarst, and 3 other contributors
Assets 2
2020.8.0
F1000 paper publication release
This release is timed with the publication of our initial paper on genome-sampler in F1000 Research.