Commit graph

10 commits

Author SHA1 Message Date
bacon f3ed802336 biology/vsearch: Update to 2.25.0
chimeras_denovo: Allow user to specify mismatch tolerance

Changes: https://github.com/torognes/vsearch/releases
2023-11-12 15:32:12 +00:00
bacon ae1c5de373 biology/vsearch: Update to 2.24.0
Upstream code cleanup
Changes: https://github.com/torognes/vsearch/releases
2023-10-27 14:15:38 +00:00
bacon f9abcb62d9 biology/vsearch: Update to 2.23.0
Numerous minor fixes and enhancements
Changes: https://github.com/torognes/vsearch/releases
2023-07-09 16:20:58 +00:00
bacon d47d63b4e1 biology/vsearch: Update to 2.18.0
Add powerpc64 support
Numerous fixes and enhancements since 2.13

Changes: https://github.com/torognes/vsearch/tags
2021-12-17 19:20:44 +00:00
nia 4dd52433ec biology: Replace RMD160 checksums with BLAKE2s checksums
All checksums have been double-checked against existing RMD160 and
SHA512 hashes
2021-10-26 10:03:36 +00:00
nia 169fb9f0f3 biology: Remove SHA1 hashes for distfiles 2021-10-07 13:19:36 +00:00
mrg 0a843265c7 various fixes for arm64 big endian support.
most of these simply extend matching from "aarch64" to "aarch64eb"
in various forms of code.  most remaining uses in pkgsrc of
"MACHINE_ARCH == aarch64" are because of missing aarch64eb support,
such as most of the binary-bootstrap requiring languages like rust,
go, and java.

no pkg-bump because this shouldn't change packages on systems that
could already build all of these.
2021-04-25 07:51:24 +00:00
joerg 661376e0cd Fix portability 2020-03-26 02:37:38 +00:00
bacon e6f46a171c biology/vsearch: Upgrade to 2.13.4
pkgsrc patches incorporated into upstream release
2019-05-11 14:27:18 +00:00
bacon 72ea4f5c07 biology/vsearch: import vsearch-2.13.3
VSEARCH supports de novo and reference based chimera detection,
clustering, full-length and prefix dereplication, rereplication,
reverse complementation, masking, all-vs-all pairwise global
alignment, exact and global alignment searching, shuffling,
subsampling and sorting. It also supports FASTQ file analysis,
filtering, conversion and merging of paired-end reads.

The aim of this project is to create an alternative to the USEARCH
tool developed by Robert C. Edgar (2010).
2019-05-10 16:19:22 +00:00