Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We鈥檒l occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

chore: release 3.11.0 #2925

Merged
merged 1 commit into from
Jun 3, 2024
Merged

chore: release 3.11.0 #2925

merged 1 commit into from
Jun 3, 2024

Conversation

github-actions[bot]
Copy link
Contributor

@github-actions github-actions bot commented May 7, 2024 •
edited
Loading

馃 I have created a release *beep* *boop*

3.11.0 (2024-05-31)

Features

Bug Fixes

Performance Improvements

This PR was generated with Release Please. See documentation.

@github-actions github-actions bot force-pushed the release-v3.11.0 branch 6 times, most recently from 2c18d89 to 364d318 Compare May 10, 2024 05:47
@github-actions github-actions bot force-pushed the release-v3.11.0 branch 15 times, most recently from fe1706d to f37bab2 Compare May 24, 2024 01:53
@github-actions github-actions bot force-pushed the release-v3.11.0 branch 8 times, most recently from f021f10 to 9972412 Compare May 24, 2024 06:07
@github-actions github-actions bot force-pushed the release-v3.11.0 branch 18 times, most recently from cfda5d5 to b9e37d2 Compare May 31, 2024 05:50
@fgvieira fgvieira merged commit a66d111 into master Jun 3, 2024
1 check passed
@fgvieira fgvieira deleted the release-v3.11.0 branch June 3, 2024 13:50
@github-actions GitHub Actions
Copy link
Contributor Author

github-actions bot commented Jun 3, 2024

馃 Release is at https://github.com/snakemake/snakemake-wrappers/releases/tag/v3.11.0 馃尰

votti pushed a commit to FroeseLab/snakemake-wrappers that referenced this pull request Jun 22, 2024
@github-actions
chore: release 3.11.0 (snakemake#2925)
4120dad 
馃 I have created a release \*beep\* \*boop\*
---
##
[3.11.0](https://www.github.com/snakemake/snakemake-wrappers/compare/v3.10.2...v3.11.0)
(2024-05-31)


### Features

* add samtools markdup wrapper
([snakemake#2926](https://www.github.com/snakemake/snakemake-wrappers/issues/2926))
([3c86bae](https://www.github.com/snakemake/snakemake-wrappers/commit/3c86baef4586b596c6c3375336828257e8bb815f))
* Add support for regions file and arbitrary FAI/GZI paths
([snakemake#2936](https://www.github.com/snakemake/snakemake-wrappers/issues/2936))
([445b35f](https://www.github.com/snakemake/snakemake-wrappers/commit/445b35f314f035d8248ca84cb16b273b0e65847c))
* add wrapper to samtools collate
([snakemake#2929](https://www.github.com/snakemake/snakemake-wrappers/issues/2929))
([0c7ae27](https://www.github.com/snakemake/snakemake-wrappers/commit/0c7ae27622e45167b9cc1aaf1be238b0d25429b9))
* All ngsderive subcommands
([snakemake#2732](https://www.github.com/snakemake/snakemake-wrappers/issues/2732))
([847ab1d](https://www.github.com/snakemake/snakemake-wrappers/commit/847ab1d918c09908bcdb40fa3413b6dbc88d4803))
* auto infer run mode
([snakemake#2937](https://www.github.com/snakemake/snakemake-wrappers/issues/2937))
([08bd3cd](https://www.github.com/snakemake/snakemake-wrappers/commit/08bd3cd79243c4c0636f88d229667e58595611bd))
* Goleft indexcov
([snakemake#2734](https://www.github.com/snakemake/snakemake-wrappers/issues/2734))
([ebef6f8](https://www.github.com/snakemake/snakemake-wrappers/commit/ebef6f8259e89d9a06b2264a5d0a34da23d2e84e))


### Bug Fixes

* bamcoverage without effective genome size
([snakemake#2941](https://www.github.com/snakemake/snakemake-wrappers/issues/2941))
([b6ad55f](https://www.github.com/snakemake/snakemake-wrappers/commit/b6ad55f4d2c702ecc904d6b40b4b35b2463c895a))
* issue
[snakemake#366](https://www.github.com/snakemake/snakemake-wrappers/issues/366)
and
[snakemake#2649](https://www.github.com/snakemake/snakemake-wrappers/issues/2649)
([snakemake#2928](https://www.github.com/snakemake/snakemake-wrappers/issues/2928))
([e10ab57](https://www.github.com/snakemake/snakemake-wrappers/commit/e10ab571a63b36ce1295e50b6f6b7e4742e0beae))
* remove NA string replacement, fixed upstream
([snakemake#2940](https://www.github.com/snakemake/snakemake-wrappers/issues/2940))
([8f4d223](https://www.github.com/snakemake/snakemake-wrappers/commit/8f4d223ec6c1e1e2715708d0532399ede4ed2727))


### Performance Improvements

* autobump bio/bismark/bam2nuc
([snakemake#2943](https://www.github.com/snakemake/snakemake-wrappers/issues/2943))
([9228479](https://www.github.com/snakemake/snakemake-wrappers/commit/9228479896c2410ae6a58849bf59e5f01bc5e712))
* autobump bio/bismark/bismark
([snakemake#2948](https://www.github.com/snakemake/snakemake-wrappers/issues/2948))
([d9abb20](https://www.github.com/snakemake/snakemake-wrappers/commit/d9abb20e0e002d9ec16507d86211b0555a2546ba))
* autobump bio/bismark/bismark_genome_preparation
([snakemake#2945](https://www.github.com/snakemake/snakemake-wrappers/issues/2945))
([899ae0d](https://www.github.com/snakemake/snakemake-wrappers/commit/899ae0d96d04fa56a7ba5989d9dea18be0d3ebc6))
* autobump bio/bismark/bismark_methylation_extractor
([snakemake#2944](https://www.github.com/snakemake/snakemake-wrappers/issues/2944))
([1b232d2](https://www.github.com/snakemake/snakemake-wrappers/commit/1b232d24816a40f75568bec224eff4e164b3f953))
* autobump bio/bismark/bismark2bedGraph
([snakemake#2947](https://www.github.com/snakemake/snakemake-wrappers/issues/2947))
([ab29098](https://www.github.com/snakemake/snakemake-wrappers/commit/ab29098757c3eef17884f198234ec456e19414f9))
* autobump bio/bismark/bismark2report
([snakemake#2951](https://www.github.com/snakemake/snakemake-wrappers/issues/2951))
([13dd155](https://www.github.com/snakemake/snakemake-wrappers/commit/13dd155a20025b8aaaa80ce3747e6822562bb6b1))
* autobump bio/bismark/bismark2summary
([snakemake#2946](https://www.github.com/snakemake/snakemake-wrappers/issues/2946))
([bfb3d30](https://www.github.com/snakemake/snakemake-wrappers/commit/bfb3d305daa519faee4ad4ea7dbd313941f4c128))
* autobump bio/bismark/deduplicate_bismark
([snakemake#2950](https://www.github.com/snakemake/snakemake-wrappers/issues/2950))
([bcf3c06](https://www.github.com/snakemake/snakemake-wrappers/commit/bcf3c06887443dae9749254f0e8d34e30f880b7e))
* autobump bio/bowtie2/align
([snakemake#2949](https://www.github.com/snakemake/snakemake-wrappers/issues/2949))
([6b0593f](https://www.github.com/snakemake/snakemake-wrappers/commit/6b0593facfcae0b9c92cb1f31423426752c0230d))
* autobump bio/bowtie2/build
([snakemake#2942](https://www.github.com/snakemake/snakemake-wrappers/issues/2942))
([5b3ca20](https://www.github.com/snakemake/snakemake-wrappers/commit/5b3ca20635bd0e427a548e68cd8a40fdb0047f10))
* autobump bio/bwa-mem2/mem-samblaster
([snakemake#2962](https://www.github.com/snakemake/snakemake-wrappers/issues/2962))
([ff613f3](https://www.github.com/snakemake/snakemake-wrappers/commit/ff613f37f857f23d19e4dc0cace22b02113a7e07))
* autobump bio/bwa/mem-samblaster
([snakemake#2961](https://www.github.com/snakemake/snakemake-wrappers/issues/2961))
([83754dd](https://www.github.com/snakemake/snakemake-wrappers/commit/83754dd9f158ea978faa1ed33668a6dda648cdb7))
* autobump bio/fastq_screen
([snakemake#2952](https://www.github.com/snakemake/snakemake-wrappers/issues/2952))
([e45fcac](https://www.github.com/snakemake/snakemake-wrappers/commit/e45fcac221ef45f345a516bff905a53c864e7355))
* autobump bio/freebayes
([snakemake#2963](https://www.github.com/snakemake/snakemake-wrappers/issues/2963))
([7a0d553](https://www.github.com/snakemake/snakemake-wrappers/commit/7a0d553e09921cebc77b54d314c211b91099f7bd))
* autobump bio/gatk/applybqsr
([snakemake#2938](https://www.github.com/snakemake/snakemake-wrappers/issues/2938))
([498c67f](https://www.github.com/snakemake/snakemake-wrappers/commit/498c67fb12691b0021a7b234dfc279957b46708c))
* autobump bio/gatk3/realignertargetcreator
([snakemake#2931](https://www.github.com/snakemake/snakemake-wrappers/issues/2931))
([2d2835c](https://www.github.com/snakemake/snakemake-wrappers/commit/2d2835c51f974f7f45420f832b8084520d2d3ec0))
* autobump bio/gdc-api/bam-slicing
([snakemake#2954](https://www.github.com/snakemake/snakemake-wrappers/issues/2954))
([32d25c1](https://www.github.com/snakemake/snakemake-wrappers/commit/32d25c1560b4c581694c49dc6d3a596e5ca581ab))
* autobump bio/goleft/indexcov
([snakemake#2930](https://www.github.com/snakemake/snakemake-wrappers/issues/2930))
([5ccbdb0](https://www.github.com/snakemake/snakemake-wrappers/commit/5ccbdb078a835ad0c2fd3e9e63677103fe216eeb))
* autobump bio/gseapy/gsea
([snakemake#2953](https://www.github.com/snakemake/snakemake-wrappers/issues/2953))
([dda3d16](https://www.github.com/snakemake/snakemake-wrappers/commit/dda3d16c9b49145bd58d287db1021c41d5a24710))
* autobump bio/hifiasm
([snakemake#2932](https://www.github.com/snakemake/snakemake-wrappers/issues/2932))
([3722de7](https://www.github.com/snakemake/snakemake-wrappers/commit/3722de7000d0b74a3c56bfdb27aad6cf318562ee))
* autobump bio/multiqc
([snakemake#2955](https://www.github.com/snakemake/snakemake-wrappers/issues/2955))
([91ad107](https://www.github.com/snakemake/snakemake-wrappers/commit/91ad1079fa03b07f8ebb9ebf21fe92d21c8a3c13))
* autobump bio/ngsderive
([snakemake#2964](https://www.github.com/snakemake/snakemake-wrappers/issues/2964))
([df82b38](https://www.github.com/snakemake/snakemake-wrappers/commit/df82b381a49b7810087f73b7c83db4fff6d57b66))
* autobump bio/open-cravat/module
([snakemake#2966](https://www.github.com/snakemake/snakemake-wrappers/issues/2966))
([f1ffa3e](https://www.github.com/snakemake/snakemake-wrappers/commit/f1ffa3eee366cba828314cc9a368ba69f17d98c2))
* autobump bio/open-cravat/run
([snakemake#2965](https://www.github.com/snakemake/snakemake-wrappers/issues/2965))
([9b371ca](https://www.github.com/snakemake/snakemake-wrappers/commit/9b371ca6014a38cf23e78598638e4c709a5e82af))
* autobump bio/ptrimmer
([snakemake#2933](https://www.github.com/snakemake/snakemake-wrappers/issues/2933))
([cd37e0b](https://www.github.com/snakemake/snakemake-wrappers/commit/cd37e0bb19e341ad40560828f3c052ef69529088))
* autobump bio/rasusa
([snakemake#2967](https://www.github.com/snakemake/snakemake-wrappers/issues/2967))
([9f25643](https://www.github.com/snakemake/snakemake-wrappers/commit/9f2564323429bea84dfb0b01a5b9f53b37fa397c))
* autobump bio/rbt/csvreport
([snakemake#2956](https://www.github.com/snakemake/snakemake-wrappers/issues/2956))
([b2a469d](https://www.github.com/snakemake/snakemake-wrappers/commit/b2a469dc907c8f3761399affd29ca53f012cc3ee))
* autobump bio/sambamba/flagstat
([snakemake#2973](https://www.github.com/snakemake/snakemake-wrappers/issues/2973))
([4575792](https://www.github.com/snakemake/snakemake-wrappers/commit/4575792deb144dd80401d46bc2fb72175976305a))
* autobump bio/sambamba/index
([snakemake#2971](https://www.github.com/snakemake/snakemake-wrappers/issues/2971))
([18359ac](https://www.github.com/snakemake/snakemake-wrappers/commit/18359ac437bb9f1065c703b3bf2da1d3da9548be))
* autobump bio/sambamba/markdup
([snakemake#2968](https://www.github.com/snakemake/snakemake-wrappers/issues/2968))
([191542d](https://www.github.com/snakemake/snakemake-wrappers/commit/191542d475853f6f19495e136e105970928a9fd8))
* autobump bio/sambamba/merge
([snakemake#2975](https://www.github.com/snakemake/snakemake-wrappers/issues/2975))
([adf9a28](https://www.github.com/snakemake/snakemake-wrappers/commit/adf9a28b64f87aec3fa8286f356f44b6bb77561e))
* autobump bio/sambamba/slice
([snakemake#2972](https://www.github.com/snakemake/snakemake-wrappers/issues/2972))
([88ac3f6](https://www.github.com/snakemake/snakemake-wrappers/commit/88ac3f6dfae93606f74ae8c88b6f8b9e2d059a02))
* autobump bio/sambamba/sort
([snakemake#2976](https://www.github.com/snakemake/snakemake-wrappers/issues/2976))
([990e841](https://www.github.com/snakemake/snakemake-wrappers/commit/990e8416b730267a65ba5a97b71537655bbfe6db))
* autobump bio/sambamba/view
([snakemake#2970](https://www.github.com/snakemake/snakemake-wrappers/issues/2970))
([613e55d](https://www.github.com/snakemake/snakemake-wrappers/commit/613e55d915215348651e878fe37f6533e6d77363))
* autobump bio/seqkit
([snakemake#2969](https://www.github.com/snakemake/snakemake-wrappers/issues/2969))
([e25b840](https://www.github.com/snakemake/snakemake-wrappers/commit/e25b8409af3cc9e591b5106f1ebb00289f628207))
* autobump bio/sra-tools/fasterq-dump
([snakemake#2974](https://www.github.com/snakemake/snakemake-wrappers/issues/2974))
([d8b4b5f](https://www.github.com/snakemake/snakemake-wrappers/commit/d8b4b5fab114c66bf712ee271b00f831a5ed558d))
* autobump bio/unicycler
([snakemake#2957](https://www.github.com/snakemake/snakemake-wrappers/issues/2957))
([185ce7e](https://www.github.com/snakemake/snakemake-wrappers/commit/185ce7e4bd6adbdf840effa665f62e358865c8b8))
* autobump bio/vep/annotate
([snakemake#2958](https://www.github.com/snakemake/snakemake-wrappers/issues/2958))
([728658d](https://www.github.com/snakemake/snakemake-wrappers/commit/728658d5fae40ea784f7b8d3c567c4f7240ef7c7))
* autobump bio/vep/cache
([snakemake#2959](https://www.github.com/snakemake/snakemake-wrappers/issues/2959))
([f4e5b66](https://www.github.com/snakemake/snakemake-wrappers/commit/f4e5b66f8765d09d51d4a640d2d775d781c3018f))
* autobump bio/whatshap/haplotag
([snakemake#2934](https://www.github.com/snakemake/snakemake-wrappers/issues/2934))
([f0b638a](https://www.github.com/snakemake/snakemake-wrappers/commit/f0b638a55280c0727ccef5aab24e03b3d565f290))
* Update Datavzrd to 2.36.12
([snakemake#2924](https://www.github.com/snakemake/snakemake-wrappers/issues/2924))
([beb9d22](https://www.github.com/snakemake/snakemake-wrappers/commit/beb9d2231c5d59ba74f23f56bbfc5e004aa72331))
* Use samtools collate in fastq separate wrapper
([snakemake#2960](https://www.github.com/snakemake/snakemake-wrappers/issues/2960))
([9c8cf81](https://www.github.com/snakemake/snakemake-wrappers/commit/9c8cf81c1894fc019ffbf0f906eb88e0960c3e7d))
---


This PR was generated with [Release
Please](https://github.com/googleapis/release-please). See
[documentation](https://github.com/googleapis/release-please#release-please).

Co-authored-by: github-actions[bot] <41898282+github-actions[bot]@users.noreply.github.com>
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Reviewers

@fgvieira fgvieira fgvieira approved these changes

Assignees
No one assigned
Labels
autorelease: tagged
Projects
None yet
Milestone
No milestone
Development

Successfully merging this pull request may close these issues.

None yet
1 participant
@fgvieira