From nobody Tue Mar 15 21:45:20 2022 X-Original-To: dev-commits-ports-main@mlmmj.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mlmmj.nyi.freebsd.org (Postfix) with ESMTP id 8FFB71A2D4AB; Tue, 15 Mar 2022 21:45:21 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "R3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 4KJ6QT0QYBz3QPC; Tue, 15 Mar 2022 21:45:20 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1647380721; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type: content-transfer-encoding:content-transfer-encoding; bh=THKRKe2P5UZbfEg64TAzpGOBGQnRw22bBhMaUJ39cHc=; b=Dw8LR+QzlhMuEq2lJxaBi1R2X74S8+El+n3dmjMLj28OqK4sr++mFI9WmScQEXDH82jZk6 tm24Esn1kZQd133Tte/YYpIy52dK/chZ+0egBzOfOfJa6fQDohltYVK35TUh6IlwUT8Clu sTDFA8NrWGhs37ITsA/E49Xi8KAzTsME+/sVDfyfZBe3kRPIYyg056DUNcjIGkXJ/vHroO zZv6AIw5YflKyNGjUNlmlkyh8KZE2MopUrJypKPfUYu9hxD3gI+xpBCC8qThNYf/EZlkmQ gsMPhOr8f/esakDUtjUkFBoSWFjFAA8HVpKubPyFvKygyBWIHJaKtaUfuEMWkg== Received: from gitrepo.freebsd.org (gitrepo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:5]) (using TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id AF2381A72; Tue, 15 Mar 2022 21:45:20 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from gitrepo.freebsd.org ([127.0.1.44]) by gitrepo.freebsd.org (8.16.1/8.16.1) with ESMTP id 22FLjKoR058983; Tue, 15 Mar 2022 21:45:20 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 22FLjKF4058982; Tue, 15 Mar 2022 21:45:20 GMT (envelope-from git) Date: Tue, 15 Mar 2022 21:45:20 GMT Message-Id: <202203152145.22FLjKF4058982@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: "Jason W. Bacon" Subject: git: b8604e856abf - main - biology/biolibc-tools: Update to 0.1.2 List-Id: Commits to the main branch of the FreeBSD ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-main List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-dev-commits-ports-main@freebsd.org X-BeenThere: dev-commits-ports-main@freebsd.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: jwb X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: b8604e856abfd2bce2cd31e86dc4693be4d38763 Auto-Submitted: auto-generated ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1647380721; h=from:from:reply-to:subject:subject:date:date:message-id:message-id: to:to:cc:mime-version:mime-version:content-type:content-type: content-transfer-encoding:content-transfer-encoding; bh=THKRKe2P5UZbfEg64TAzpGOBGQnRw22bBhMaUJ39cHc=; b=vJd5pCmCJGqNeMhbGssCj9Lj2o+fmJa0hHw6i6TrfcuelLBEuTrrav6qQ0cO4NazudH9zi qCEFeBFwRgkeuLjYchJWbda4kLOZTOJL2NcE4/g2ClJ6e26Io5VqcmxtbEI9JjRNApkt5g deGngeDrT5Xqvzok5EJOxEKKYPd0nAOz54oSPkDP78/tdrEvF2U2/FzFor72Tdilx9t/1I Lq0xZ3ju7hlGCCB6uh6Mp0oFTAhyrU4Fy2FXhA2S7JOH7wGvxo1AuVftq2fplKOT4+3hMr 5hZlcY/7mVSyBKKX4d16dQBtYQAjjfHTPH2hzXcA3g+AVY2WVHR97Sgcqe3Pkg== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1647380721; a=rsa-sha256; cv=none; b=B1EBAH/suljfnhcYuiMO3G/HJe/XOaWkFiqFoVE0kPVCczKY660drInrv9Q4L+fZQgCqB4 1UwLdpoPE334FDg59RrGAqoPWik3U4mj5EMDlP82a9C6MRTdlob6hafycW6DoXDuDTC2HC 0kqs0X4xBhOeICxTNoqQQaIbRu8o/EtNZLwC5yfuUKACpiFNcpBUbhk09LGNv0KyX/fQ9w HzRNbMChxhd0ehZS6n5eldZxVVKqu+m+uLlyveYqj/HXtXY+XyfQMpOjSuvnY31XvzFkmu AK6miLc1G2soq+tk7G9QbjYjL/dYdPMX/coSLaxINNG1BjMQiX4MaA7uwrsNIA== ARC-Authentication-Results: i=1; mx1.freebsd.org; none X-ThisMailContainsUnwantedMimeParts: N The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=b8604e856abfd2bce2cd31e86dc4693be4d38763 commit b8604e856abfd2bce2cd31e86dc4693be4d38763 Author: Jason W. Bacon AuthorDate: 2022-03-15 21:36:49 +0000 Commit: Jason W. Bacon CommitDate: 2022-03-15 21:36:49 +0000 biology/biolibc-tools: Update to 0.1.2 New fastx-stats and ensembl2gene subcommands Minor updates for biolibc 0.2.2 API changes Minor bug fixes and ennancements --- biology/biolibc-tools/Makefile | 3 ++- biology/biolibc-tools/distinfo | 6 +++--- biology/biolibc-tools/pkg-plist | 4 ++++ 3 files changed, 9 insertions(+), 4 deletions(-) diff --git a/biology/biolibc-tools/Makefile b/biology/biolibc-tools/Makefile index 4a63e3749e93..7cf0341514eb 100644 --- a/biology/biolibc-tools/Makefile +++ b/biology/biolibc-tools/Makefile @@ -1,7 +1,7 @@ # Created by: J. Bacon PORTNAME= biolibc-tools -DISTVERSION= 0.1.1 +DISTVERSION= 0.1.2 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org @@ -12,6 +12,7 @@ LICENSE_FILE= ${WRKSRC}/LICENSE BUILD_DEPENDS= uthash>0:devel/uthash LIB_DEPENDS= libbiolibc.so:biology/biolibc \ + libxtend.so:devel/libxtend \ libxxhash.so:devel/xxhash USE_GITHUB= yes diff --git a/biology/biolibc-tools/distinfo b/biology/biolibc-tools/distinfo index d3732ec6c333..e513f059cd26 100644 --- a/biology/biolibc-tools/distinfo +++ b/biology/biolibc-tools/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1639495090 -SHA256 (auerlab-biolibc-tools-0.1.1_GH0.tar.gz) = 169ea4bbd70049d9e364e145db0ca4793da99202f12262e00485407cfbd2997b -SIZE (auerlab-biolibc-tools-0.1.1_GH0.tar.gz) = 21700 +TIMESTAMP = 1647347831 +SHA256 (auerlab-biolibc-tools-0.1.2_GH0.tar.gz) = 817b3f88b1d83a28389dbbb43ef1e0d2c1fb3b7e72ca7151fa26a35058ef4558 +SIZE (auerlab-biolibc-tools-0.1.2_GH0.tar.gz) = 24610 diff --git a/biology/biolibc-tools/pkg-plist b/biology/biolibc-tools/pkg-plist index f5fe188a60a8..b82ed3ef61dc 100644 --- a/biology/biolibc-tools/pkg-plist +++ b/biology/biolibc-tools/pkg-plist @@ -1,19 +1,23 @@ bin/blt libexec/biolibc-tools/chrom-lens +libexec/biolibc-tools/ensemblid2gene libexec/biolibc-tools/extract-seq libexec/biolibc-tools/fasta2seq libexec/biolibc-tools/fastq-derep.sh libexec/biolibc-tools/fastx-derep +libexec/biolibc-tools/fastx-stats libexec/biolibc-tools/fastx2tsv libexec/biolibc-tools/find-orfs libexec/biolibc-tools/gff2bed libexec/biolibc-tools/uniq-seqs.awk libexec/biolibc-tools/vcf-search man/man1/blt-chrom-lens.1.gz +man/man1/blt-ensemblid2gene.1.gz man/man1/blt-extract-seq.1.gz man/man1/blt-fasta2seq.1.gz man/man1/blt-fastq-derep.sh.1.gz man/man1/blt-fastx-derep.1.gz +man/man1/blt-fastx-stats.1.gz man/man1/blt-fastx2tsv.1.gz man/man1/blt-find-orfs.1.gz man/man1/blt-gff2bed.1.gz