From nobody Sat Mar 2 19:41:55 2024 X-Original-To: dev-commits-ports-all@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 4TnFhg5rtKz5CqXg; Sat, 2 Mar 2024 19:41:55 +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 4TnFhg5Nbjz4TTj; Sat, 2 Mar 2024 19:41:55 +0000 (UTC) (envelope-from git@FreeBSD.org) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1709408515; 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=SLmJyEZNx9vunPeYHZXkknNn+IxLpoGRP8txBJ3GPfk=; b=T2SINLfzeZ+DdieyJgtuikmPo6/ZMsfO1MuCftUXOUf0cDEQv4WzNldqXnPk8xBbIbO/Zs Q0fxfQgXJF2//GKpvivpJbT4eWshX+Zjq7NRX5E2xQx882GWicNYAA8/k2mbe2KHRWZZHg k83HQVB9J0DUGZTVXbUlfe6aXTfJ3VwDjGAaj60CILiCI8+3kGU8+zjXGchekW9mm1K/cE BmaT/4ZlpQYimp/YU364sOpNn1nCAD/hFXYM2zHO35h5Rdg1Ae+2ZMdcK5eX55HAKBvYhN ss6HNM91Z9yqloMphVKiVW3khOfXUnEc3Xdl0O63HiZk5dxIcbCnuibRmsZmIg== ARC-Seal: i=1; s=dkim; d=freebsd.org; t=1709408515; a=rsa-sha256; cv=none; b=wV0+wOhpo9myaK0Y5Nex+k45bVO49xXI/+hI8R8rD/YgC0wsaWQePWrol5Z8bpWZzovJmL ZnLLMFWt3jQDcECmGvweDfqj6rw+S8hbFdsM3HxPslWUMfu5l9vOBmC5nZ795nKi8TCJ8p s79UKhqlji9GRAPGUxURifdYBPTcRGSZ3DjPyvculnc1JgnaYBbdAwaYGV5Za+6r1I3966 KSvtnR/FIeby5bFkW1t0+XdtxVfIPnQBkB76zMfdpyOuno/YIV1RZ2sRy4XhQhrK5M8dhg wcCRe8rbwV8Lwo6D1S4yu4aRzxeK/H9SjpnM31umNI56ywPOlb9LSD12avXu9w== ARC-Authentication-Results: i=1; mx1.freebsd.org; none ARC-Message-Signature: i=1; a=rsa-sha256; c=relaxed/relaxed; d=freebsd.org; s=dkim; t=1709408515; 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=SLmJyEZNx9vunPeYHZXkknNn+IxLpoGRP8txBJ3GPfk=; b=TNQnyzU9GIM4CemaeIvDpCixlJ4g4GYnqWZzRKX4knpTmiaJpGYYkHDP2w1Dy5k4WJGJJt 9JDY7eNoSJ6jFIxpO+JKrngN1lrbIEnS86CVxUM/mmYxrK9qRRyyZ9SDXzK+9fXDF1yodQ cIvMfewuc6A/8x/IpdgsPFiaT9I8zF/OiwtamJMz8vAj0OB5JvSMDesLNgWyJfX+z3Ghpc /h9hc4mNMogo4A5TxVBsrwMR47ChIK7WJm1dWekzBsMLUaftUTTWnRs7nsy5fmf8ZNOQgX GtyGj6+MGA/LWXeErR67bctR5RMgYdwr05yLjcRaQmcHdp5fmTs+0T6H0s8/tg== 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 4TnFhg4zgQz1Mrp; Sat, 2 Mar 2024 19:41:55 +0000 (UTC) (envelope-from git@FreeBSD.org) Received: from gitrepo.freebsd.org ([127.0.1.44]) by gitrepo.freebsd.org (8.17.1/8.17.1) with ESMTP id 422Jft2E035722; Sat, 2 Mar 2024 19:41:55 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.17.1/8.17.1/Submit) id 422JftEA035719; Sat, 2 Mar 2024 19:41:55 GMT (envelope-from git) Date: Sat, 2 Mar 2024 19:41:55 GMT Message-Id: <202403021941.422JftEA035719@gitrepo.freebsd.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org From: Nuno Teixeira Subject: git: 01064ce0bda1 - main - biology/samtools: Move man pages to share/man List-Id: Commit messages for all branches of the ports repository List-Archive: https://lists.freebsd.org/archives/dev-commits-ports-all List-Help: List-Post: List-Subscribe: List-Unsubscribe: Sender: owner-dev-commits-ports-all@freebsd.org X-BeenThere: dev-commits-ports-all@freebsd.org MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: 8bit X-Git-Committer: eduardo X-Git-Repository: ports X-Git-Refname: refs/heads/main X-Git-Reftype: branch X-Git-Commit: 01064ce0bda11469f31eaabb93e6c1eefa968661 Auto-Submitted: auto-generated The branch main has been updated by eduardo: URL: https://cgit.FreeBSD.org/ports/commit/?id=01064ce0bda11469f31eaabb93e6c1eefa968661 commit 01064ce0bda11469f31eaabb93e6c1eefa968661 Author: Nuno Teixeira AuthorDate: 2024-03-02 19:40:58 +0000 Commit: Nuno Teixeira CommitDate: 2024-03-02 19:40:58 +0000 biology/samtools: Move man pages to share/man Approved by: portmgr (blanket) --- biology/samtools/Makefile | 2 ++ biology/samtools/pkg-plist | 84 +++++++++++++++++++++++----------------------- 2 files changed, 44 insertions(+), 42 deletions(-) diff --git a/biology/samtools/Makefile b/biology/samtools/Makefile index 92da7c61eff7..85603f8c1cc8 100644 --- a/biology/samtools/Makefile +++ b/biology/samtools/Makefile @@ -1,5 +1,6 @@ PORTNAME= samtools DISTVERSION= 1.17 +PORTREVISION= 1 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org @@ -18,6 +19,7 @@ USE_GITHUB= yes USE_PERL5= test GNU_CONFIGURE= yes +GNU_CONFIGURE_MANPREFIX= ${PREFIX}/share SHEBANG_FILES= misc/*.pl misc/plot-bamstats test/test.pl TEST_TARGET= test diff --git a/biology/samtools/pkg-plist b/biology/samtools/pkg-plist index 15e146e410cd..2ef37918b44f 100644 --- a/biology/samtools/pkg-plist +++ b/biology/samtools/pkg-plist @@ -20,45 +20,45 @@ bin/soap2sam.pl bin/wgsim bin/wgsim_eval.pl bin/zoom2sam.pl -man/man1/samtools-addreplacerg.1.gz -man/man1/samtools-ampliconclip.1.gz -man/man1/samtools-ampliconstats.1.gz -man/man1/samtools-bedcov.1.gz -man/man1/samtools-calmd.1.gz -man/man1/samtools-cat.1.gz -man/man1/samtools-collate.1.gz -man/man1/samtools-consensus.1.gz -man/man1/samtools-coverage.1.gz -man/man1/samtools-cram-size.1.gz -man/man1/samtools-depad.1.gz -man/man1/samtools-depth.1.gz -man/man1/samtools-dict.1.gz -man/man1/samtools-faidx.1.gz -man/man1/samtools-fasta.1.gz -man/man1/samtools-fastq.1.gz -man/man1/samtools-fixmate.1.gz -man/man1/samtools-flags.1.gz -man/man1/samtools-flagstat.1.gz -man/man1/samtools-fqidx.1.gz -man/man1/samtools-head.1.gz -man/man1/samtools-idxstats.1.gz -man/man1/samtools-import.1.gz -man/man1/samtools-index.1.gz -man/man1/samtools-markdup.1.gz -man/man1/samtools-merge.1.gz -man/man1/samtools-mpileup.1.gz -man/man1/samtools-phase.1.gz -man/man1/samtools-quickcheck.1.gz -man/man1/samtools-reference.1.gz -man/man1/samtools-reheader.1.gz -man/man1/samtools-reset.1.gz -man/man1/samtools-rmdup.1.gz -man/man1/samtools-samples.1.gz -man/man1/samtools-sort.1.gz -man/man1/samtools-split.1.gz -man/man1/samtools-stats.1.gz -man/man1/samtools-targetcut.1.gz -man/man1/samtools-tview.1.gz -man/man1/samtools-view.1.gz -man/man1/samtools.1.gz -man/man1/wgsim.1.gz +share/man/man1/samtools-addreplacerg.1.gz +share/man/man1/samtools-ampliconclip.1.gz +share/man/man1/samtools-ampliconstats.1.gz +share/man/man1/samtools-bedcov.1.gz +share/man/man1/samtools-calmd.1.gz +share/man/man1/samtools-cat.1.gz +share/man/man1/samtools-collate.1.gz +share/man/man1/samtools-consensus.1.gz +share/man/man1/samtools-coverage.1.gz +share/man/man1/samtools-cram-size.1.gz +share/man/man1/samtools-depad.1.gz +share/man/man1/samtools-depth.1.gz +share/man/man1/samtools-dict.1.gz +share/man/man1/samtools-faidx.1.gz +share/man/man1/samtools-fasta.1.gz +share/man/man1/samtools-fastq.1.gz +share/man/man1/samtools-fixmate.1.gz +share/man/man1/samtools-flags.1.gz +share/man/man1/samtools-flagstat.1.gz +share/man/man1/samtools-fqidx.1.gz +share/man/man1/samtools-head.1.gz +share/man/man1/samtools-idxstats.1.gz +share/man/man1/samtools-import.1.gz +share/man/man1/samtools-index.1.gz +share/man/man1/samtools-markdup.1.gz +share/man/man1/samtools-merge.1.gz +share/man/man1/samtools-mpileup.1.gz +share/man/man1/samtools-phase.1.gz +share/man/man1/samtools-quickcheck.1.gz +share/man/man1/samtools-reference.1.gz +share/man/man1/samtools-reheader.1.gz +share/man/man1/samtools-reset.1.gz +share/man/man1/samtools-rmdup.1.gz +share/man/man1/samtools-samples.1.gz +share/man/man1/samtools-sort.1.gz +share/man/man1/samtools-split.1.gz +share/man/man1/samtools-stats.1.gz +share/man/man1/samtools-targetcut.1.gz +share/man/man1/samtools-tview.1.gz +share/man/man1/samtools-view.1.gz +share/man/man1/samtools.1.gz +share/man/man1/wgsim.1.gz