Received: by mail.netbsd.org (Postfix, from userid 605) id 7A7BC84E57; Tue, 13 Dec 2022 00:53:45 +0000 (UTC) Received: from localhost (localhost [127.0.0.1]) by mail.netbsd.org (Postfix) with ESMTP id A994384D65 for ; Tue, 13 Dec 2022 00:53:44 +0000 (UTC) X-Virus-Scanned: amavisd-new at netbsd.org Received: from mail.netbsd.org ([IPv6:::1]) by localhost (mail.netbsd.org [IPv6:::1]) (amavisd-new, port 10025) with ESMTP id M5OaxKYieOo5 for ; Tue, 13 Dec 2022 00:53:44 +0000 (UTC) Received: from cvs.NetBSD.org (ivanova.netbsd.org [199.233.217.197]) by mail.netbsd.org (Postfix) with ESMTP id 0D1EE84D24 for ; Tue, 13 Dec 2022 00:53:44 +0000 (UTC) Received: by cvs.NetBSD.org (Postfix, from userid 500) id 015DAFA90; Tue, 13 Dec 2022 00:53:43 +0000 (UTC) Content-Transfer-Encoding: 7bit Content-Type: multipart/mixed; boundary="_----------=_1670892823138580" MIME-Version: 1.0 Date: Tue, 13 Dec 2022 00:53:43 +0000 From: "Jason Bacon" Subject: CVS commit: pkgsrc/biology/biolibc-tools To: pkgsrc-changes@NetBSD.org Reply-To: bacon@netbsd.org X-Mailer: log_accum Message-Id: <20221213005344.015DAFA90@cvs.NetBSD.org> Sender: pkgsrc-changes-owner@NetBSD.org List-Id: Precedence: bulk List-Unsubscribe: This is a multi-part message in MIME format. --_----------=_1670892823138580 Content-Disposition: inline Content-Transfer-Encoding: 8bit Content-Type: text/plain; charset="US-ASCII" Module Name: pkgsrc Committed By: bacon Date: Tue Dec 13 00:53:43 UTC 2022 Modified Files: pkgsrc/biology/biolibc-tools: Makefile PLIST distinfo Log Message: biology/biolibc-tools: Update to 0.1.4 Add deromanize subcommand to convert Roman numeral chromosome IDs fastx-stats: Report standard deviation for read length Changes: https://github.com/auerlab/biolibc-tools/releases To generate a diff of this commit: cvs rdiff -u -r1.4 -r1.5 pkgsrc/biology/biolibc-tools/Makefile \ pkgsrc/biology/biolibc-tools/PLIST cvs rdiff -u -r1.6 -r1.7 pkgsrc/biology/biolibc-tools/distinfo Please note that diffs are not public domain; they are subject to the copyright notices on the relevant files. --_----------=_1670892823138580 Content-Disposition: inline Content-Length: 2681 Content-Transfer-Encoding: binary Content-Type: text/x-diff; charset=us-ascii Modified files: Index: pkgsrc/biology/biolibc-tools/Makefile diff -u pkgsrc/biology/biolibc-tools/Makefile:1.4 pkgsrc/biology/biolibc-tools/Makefile:1.5 --- pkgsrc/biology/biolibc-tools/Makefile:1.4 Sat Jun 11 19:44:45 2022 +++ pkgsrc/biology/biolibc-tools/Makefile Tue Dec 13 00:53:43 2022 @@ -1,6 +1,6 @@ -# $NetBSD: Makefile,v 1.4 2022/06/11 19:44:45 bacon Exp $ +# $NetBSD: Makefile,v 1.5 2022/12/13 00:53:43 bacon Exp $ -DISTNAME= biolibc-tools-0.1.3 +DISTNAME= biolibc-tools-0.1.4 CATEGORIES= biology MASTER_SITES= ${MASTER_SITE_GITHUB:=auerlab/} @@ -13,6 +13,8 @@ BUILD_TARGET= depend all MAKE_ENV+= VERSION=${PKGVERSION} INSTALL_TARGET= install-strip +LDFLAGS.SunOS+= -lresolv -lsocket -lnsl + pre-build: cd ${WRKSRC} && ${MAKE} PREFIX=${PREFIX} depend Index: pkgsrc/biology/biolibc-tools/PLIST diff -u pkgsrc/biology/biolibc-tools/PLIST:1.4 pkgsrc/biology/biolibc-tools/PLIST:1.5 --- pkgsrc/biology/biolibc-tools/PLIST:1.4 Sat Jun 11 19:44:45 2022 +++ pkgsrc/biology/biolibc-tools/PLIST Tue Dec 13 00:53:43 2022 @@ -1,6 +1,7 @@ -@comment $NetBSD: PLIST,v 1.4 2022/06/11 19:44:45 bacon Exp $ +@comment $NetBSD: PLIST,v 1.5 2022/12/13 00:53:43 bacon Exp $ bin/blt libexec/biolibc-tools/chrom-lens +libexec/biolibc-tools/deromanize libexec/biolibc-tools/ensemblid2gene libexec/biolibc-tools/extract-seq libexec/biolibc-tools/fasta2seq @@ -14,6 +15,7 @@ libexec/biolibc-tools/uniq-seqs.awk libexec/biolibc-tools/vcf-downsample libexec/biolibc-tools/vcf-search man/man1/blt-chrom-lens.1 +man/man1/blt-deromanize.1 man/man1/blt-ensemblid2gene.1 man/man1/blt-extract-seq.1 man/man1/blt-fasta2seq.1 Index: pkgsrc/biology/biolibc-tools/distinfo diff -u pkgsrc/biology/biolibc-tools/distinfo:1.6 pkgsrc/biology/biolibc-tools/distinfo:1.7 --- pkgsrc/biology/biolibc-tools/distinfo:1.6 Sat Jun 11 19:44:45 2022 +++ pkgsrc/biology/biolibc-tools/distinfo Tue Dec 13 00:53:43 2022 @@ -1,5 +1,5 @@ -$NetBSD: distinfo,v 1.6 2022/06/11 19:44:45 bacon Exp $ +$NetBSD: distinfo,v 1.7 2022/12/13 00:53:43 bacon Exp $ -BLAKE2s (biolibc-tools-0.1.3.tar.gz) = 923b3f7794526c2f79decb1cb1dcadb6c742cc6bae77ff0c8543726ec42d2c64 -SHA512 (biolibc-tools-0.1.3.tar.gz) = 7bf2570c1635b4a363c58a1a7b7c1b9dccd4ac135be06dd6207c0e7c555a15847d3de95ea8fc94541cdabc1625e0d9a665a1473bc80709df7756fc2f8345da9e -Size (biolibc-tools-0.1.3.tar.gz) = 27735 bytes +BLAKE2s (biolibc-tools-0.1.4.tar.gz) = b428abaa6fcb018ad801d90d7aafdc3d1832026dac9c405a8f95a3cf917d02cd +SHA512 (biolibc-tools-0.1.4.tar.gz) = 9e21ddaa28bef87815fc3251eea7241fd1f2c887403e5aafc5757a92a673e5109f0946b926dd4b6dfcc054390e2a4427dd1ba92043132996acbdc8ab1e9b5dcc +Size (biolibc-tools-0.1.4.tar.gz) = 28878 bytes --_----------=_1670892823138580--