head 1.11; access; symbols pkgsrc-2023Q4:1.10.0.2 pkgsrc-2023Q4-base:1.10 pkgsrc-2023Q3:1.7.0.2 pkgsrc-2023Q3-base:1.7 pkgsrc-2023Q2:1.6.0.14 pkgsrc-2023Q2-base:1.6 pkgsrc-2023Q1:1.6.0.12 pkgsrc-2023Q1-base:1.6 pkgsrc-2022Q4:1.6.0.10 pkgsrc-2022Q4-base:1.6 pkgsrc-2022Q3:1.6.0.8 pkgsrc-2022Q3-base:1.6 pkgsrc-2022Q2:1.6.0.6 pkgsrc-2022Q2-base:1.6 pkgsrc-2022Q1:1.6.0.4 pkgsrc-2022Q1-base:1.6 pkgsrc-2021Q4:1.6.0.2 pkgsrc-2021Q4-base:1.6 pkgsrc-2021Q3:1.3.0.14 pkgsrc-2021Q3-base:1.3 pkgsrc-2021Q2:1.3.0.12 pkgsrc-2021Q2-base:1.3 pkgsrc-2021Q1:1.3.0.10 pkgsrc-2021Q1-base:1.3 pkgsrc-2020Q4:1.3.0.8 pkgsrc-2020Q4-base:1.3 pkgsrc-2020Q3:1.3.0.6 pkgsrc-2020Q3-base:1.3 pkgsrc-2020Q2:1.3.0.4 pkgsrc-2020Q2-base:1.3 pkgsrc-2020Q1:1.3.0.2 pkgsrc-2020Q1-base:1.3 pkgsrc-2019Q4:1.2.0.8 pkgsrc-2019Q4-base:1.2 pkgsrc-2019Q3:1.2.0.4 pkgsrc-2019Q3-base:1.2 pkgsrc-2019Q2:1.2.0.2 pkgsrc-2019Q2-base:1.2; locks; strict; comment @# @; 1.11 date 2024.01.23.13.26.59; author bacon; state Exp; branches; next 1.10; commitid 9Xzv4Y9YouazMzVE; 1.10 date 2023.11.26.12.35.56; author bacon; state Exp; branches; next 1.9; commitid SUeNT0ydmoU1n7OE; 1.9 date 2023.11.12.15.32.12; author bacon; state Exp; branches; next 1.8; commitid GOJ6ssto20MkNkME; 1.8 date 2023.10.27.14.15.38; author bacon; state Exp; branches; next 1.7; commitid 70nvq2mQj2VYSgKE; 1.7 date 2023.07.09.16.20.58; author bacon; state Exp; branches; next 1.6; commitid 8OA0xZtgwANX69wE; 1.6 date 2021.12.17.19.20.44; author bacon; state Exp; branches; next 1.5; commitid u8AIq5q0OqzKn2lD; 1.5 date 2021.10.26.10.03.44; author nia; state Exp; branches; next 1.4; commitid R64ULQLy8JYkZieD; 1.4 date 2021.10.07.13.19.44; author nia; state Exp; branches; next 1.3; commitid CQ422EVgQgYxGSbD; 1.3 date 2020.03.26.02.37.38; author joerg; state Exp; branches; next 1.2; commitid D6fE0YDYmBGk8R1C; 1.2 date 2019.05.11.14.27.18; author bacon; state Exp; branches; next 1.1; commitid 3Oltwvis7WVmlNmB; 1.1 date 2019.05.10.16.19.22; author bacon; state Exp; branches; next ; commitid ry6mJaDLQWhYZFmB; desc @@ 1.11 log @biology/vsearch: Update to 2.27.0 Add FASTQ support to usearch_global and search_exact Code cleanup and manual clarifications Changes: https://github.com/torognes/vsearch/releases Reported by: portscout @ text @$NetBSD$ BLAKE2s (vsearch-2.27.0.tar.gz) = 8b0ae42005ef3abc67ea10385210b3e75a8abdeec401180d819d7e4e70e8e656 SHA512 (vsearch-2.27.0.tar.gz) = 521f0b031f42d0fd39ecabde683db765462874de6111bf6c1d52de5b78e332c4b5f85ad20587ad14afd27c3c923de0c65bf6e8cd9a8bb26e12aebdd2dab7e586 Size (vsearch-2.27.0.tar.gz) = 269210 bytes @ 1.10 log @biology/vsearch: Update to 2.26.1 A few minor enhancements Changes: https://github.com/torognes/vsearch/releases @ text @d3 3 a5 3 BLAKE2s (vsearch-2.26.1.tar.gz) = 54dff5d0302fd2963be71b7f369556b52f40934e0cbf4051e993042fcc78015c SHA512 (vsearch-2.26.1.tar.gz) = b1a50fc701283cc8525daae1d904692a60027fbcbe4c1e1216b697f8e785f4a9d1b19ad152341777aa0483258cd04b1e60aad34fbf9f82d3fac12e9b959722f6 Size (vsearch-2.26.1.tar.gz) = 268305 bytes @ 1.9 log @biology/vsearch: Update to 2.25.0 chimeras_denovo: Allow user to specify mismatch tolerance Changes: https://github.com/torognes/vsearch/releases @ text @d3 3 a5 3 BLAKE2s (vsearch-2.25.0.tar.gz) = 51ecf118015e928d07cf39548b8fe310ea82dc3451a9e111335acf4ed0dddfeb SHA512 (vsearch-2.25.0.tar.gz) = eba2cb3d6a571521d165f1da669731248232eab84908d0bdca6e16635dd0b93d0737afab75bf670c9c1d978b74cb1bcd045bbcf44438a9f66f6bdfd6a3de10a7 Size (vsearch-2.25.0.tar.gz) = 267819 bytes @ 1.8 log @biology/vsearch: Update to 2.24.0 Upstream code cleanup Changes: https://github.com/torognes/vsearch/releases @ text @d3 3 a5 3 BLAKE2s (vsearch-2.24.0.tar.gz) = 625748c36daefd4722334f6653ffee2d811d795b6cfbf2e7b69c8da2a39071e5 SHA512 (vsearch-2.24.0.tar.gz) = 47ee5ff12e6a6478c463569d80881a0a99f2fa95e0a32cc32d7478f1c51ebd651d0f694f6ff6d51d9d998e7cffd28a20db46295b690fe00d37efa208d8a93145 Size (vsearch-2.24.0.tar.gz) = 267096 bytes @ 1.7 log @biology/vsearch: Update to 2.23.0 Numerous minor fixes and enhancements Changes: https://github.com/torognes/vsearch/releases @ text @d3 3 a5 3 BLAKE2s (vsearch-2.23.0.tar.gz) = fc692c05824caa1eb52187bfd38663cb0a1d67070b8b070ccc4a455e96737b38 SHA512 (vsearch-2.23.0.tar.gz) = cb3fffaa01d765f9d173cce45c240ef37d49fc59fb1a893e49fe16d29ce3b150f161f9ccd05e6491a6ecc6e0574bb774b4aaccb563dab1dc087b2d713c158a22 Size (vsearch-2.23.0.tar.gz) = 266534 bytes @ 1.6 log @biology/vsearch: Update to 2.18.0 Add powerpc64 support Numerous fixes and enhancements since 2.13 Changes: https://github.com/torognes/vsearch/tags @ text @d3 3 a5 5 BLAKE2s (vsearch-2.18.0.tar.gz) = 48ca99858b157da943eca273d4a4f25e94aa7c64ecf4c7373821c30cdfbc38c5 SHA512 (vsearch-2.18.0.tar.gz) = 9da21685fe64743ccf43f209bdd5b586c8f7faaae9f1a204634b713d7ba8a86478f31b24bdda7820fba97318d4408c803a6b3eed1e37189907fbd5882183d781 Size (vsearch-2.18.0.tar.gz) = 252014 bytes SHA1 (patch-configure.ac) = 23aa28454d5f58222b10302cbd01ceaf0e7dca3f SHA1 (patch-src_Makefile.am) = fb76ec48d5292aaa276a0b6105e19ccc0abb03df @ 1.5 log @biology: Replace RMD160 checksums with BLAKE2s checksums All checksums have been double-checked against existing RMD160 and SHA512 hashes @ text @d1 1 a1 1 $NetBSD: distinfo,v 1.4 2021/10/07 13:19:44 nia Exp $ d3 5 a7 6 BLAKE2s (vsearch-2.13.4.tar.gz) = 16fd625aa53e9b9d5b062c9db71dc201c7d458dc97fe82915e37ba6ca794b706 SHA512 (vsearch-2.13.4.tar.gz) = 31cc321f96309385414f3847a4cb29a5b3e43e42870b3f41e34fa0e6b3a928b2dd306edeff896ffa6bca85ecea776b33655611fa62749e9b29e86bf1adbe7de3 Size (vsearch-2.13.4.tar.gz) = 234364 bytes SHA1 (patch-configure.ac) = 536a8565514cf9b43f4f8892d1cba0444f752c5e SHA1 (patch-man_Makefile.am) = e2e536f46b32eb191c2b930dcdd927a9bf11e833 SHA1 (patch-src_Makefile.am) = bcdd1bbe9f04197084825e2c3560ba27a750f124 @ 1.4 log @biology: Remove SHA1 hashes for distfiles @ text @d1 1 a1 1 $NetBSD: distinfo,v 1.3 2020/03/26 02:37:38 joerg Exp $ d3 1 a3 1 RMD160 (vsearch-2.13.4.tar.gz) = e65a908014cbab903bef81b55c9e67003bb55458 @ 1.3 log @Fix portability @ text @d1 1 a1 1 $NetBSD: distinfo,v 1.2 2019/05/11 14:27:18 bacon Exp $ a2 1 SHA1 (vsearch-2.13.4.tar.gz) = adb36075cf873620aebae6ab25f33cbac002065e @ 1.2 log @biology/vsearch: Upgrade to 2.13.4 pkgsrc patches incorporated into upstream release @ text @d1 1 a1 1 $NetBSD$ d8 1 @ 1.1 log @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). @ text @d3 4 a6 4 SHA1 (vsearch-2.13.3.tar.gz) = 064bfbef4271c254848f18b03bed7c41a15ae2ab RMD160 (vsearch-2.13.3.tar.gz) = d8f00a88449fb827878b7e301f9127799ce3d43c SHA512 (vsearch-2.13.3.tar.gz) = a3c539d60ed6db8bdb964a1aee18e79a6b8ed397dc01d47aad873019a8f123ed8892b08536dfd5f785f8d327fee75d42b4a744f354f5c6e3bb03d0bf10f054e5 Size (vsearch-2.13.3.tar.gz) = 233846 bytes a8 2 SHA1 (patch-src_city.cc) = 3a5bcbca0a0c733a32a9d152189de10df3cb515f SHA1 (patch-src_vsearch.h) = 26b8dc6ce0448e7463ee1c3ff73747ad07286543 @