From owner-dev-commits-ports-all@freebsd.org Fri Jun 11 15:05:38 2021 Return-Path: Delivered-To: dev-commits-ports-all@mailman.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.nyi.freebsd.org (Postfix) with ESMTP id 3B9166603B3; Fri, 11 Jun 2021 15:05:38 +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 4G1kg56zcLz3hXW; Fri, 11 Jun 2021 15:05:37 +0000 (UTC) (envelope-from git@FreeBSD.org) 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 D761424E37; Fri, 11 Jun 2021 15:05:37 +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 15BF5b5I089833; Fri, 11 Jun 2021 15:05:37 GMT (envelope-from git@gitrepo.freebsd.org) Received: (from git@localhost) by gitrepo.freebsd.org (8.16.1/8.16.1/Submit) id 15BF5bK7089832; Fri, 11 Jun 2021 15:05:37 GMT (envelope-from git) Date: Fri, 11 Jun 2021 15:05:37 GMT Message-Id: <202106111505.15BF5bK7089832@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: 874cf7c2593d - main - biology/ad2vcf: Update to 0.1.3 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: 874cf7c2593df5d25830b1a6292d0474f8647d5d Auto-Submitted: auto-generated X-BeenThere: dev-commits-ports-all@freebsd.org X-Mailman-Version: 2.1.34 Precedence: list List-Id: Commit messages for all branches of the ports repository List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Fri, 11 Jun 2021 15:05:38 -0000 The branch main has been updated by jwb: URL: https://cgit.FreeBSD.org/ports/commit/?id=874cf7c2593df5d25830b1a6292d0474f8647d5d commit 874cf7c2593df5d25830b1a6292d0474f8647d5d Author: Jason W. Bacon AuthorDate: 2021-06-11 14:55:54 +0000 Commit: Jason W. Bacon CommitDate: 2021-06-11 15:05:18 +0000 biology/ad2vcf: Update to 0.1.3 Updates for new biolibc API Changes: https://github.com/auerlab/ad2vcf/releases --- biology/ad2vcf/Makefile | 6 ++++-- biology/ad2vcf/distinfo | 6 +++--- biology/ad2vcf/pkg-descr | 6 ++---- 3 files changed, 9 insertions(+), 9 deletions(-) diff --git a/biology/ad2vcf/Makefile b/biology/ad2vcf/Makefile index d876777451f7..591504584ab5 100644 --- a/biology/ad2vcf/Makefile +++ b/biology/ad2vcf/Makefile @@ -1,5 +1,7 @@ +# Created by: Jason Bacon + PORTNAME= ad2vcf -DISTVERSION= 0.1.2 +DISTVERSION= 0.1.3 CATEGORIES= biology MAINTAINER= jwb@FreeBSD.org @@ -8,7 +10,7 @@ COMMENT= Add allelic depth info from a SAM stream to a VCF file LICENSE= BSD2CLAUSE LICENSE_FILE= ${WRKSRC}/LICENSE -BUILD_DEPENDS= biolibc>=0.1.1:biology/biolibc +LIB_DEPENDS= libbiolibc.so:biology/biolibc libxtend.so:devel/libxtend USE_GITHUB= yes GH_ACCOUNT= auerlab diff --git a/biology/ad2vcf/distinfo b/biology/ad2vcf/distinfo index 649dbb04a74c..ea97b8dc87a1 100644 --- a/biology/ad2vcf/distinfo +++ b/biology/ad2vcf/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1616510305 -SHA256 (auerlab-ad2vcf-0.1.2_GH0.tar.gz) = e85e221c69748082799f5b048412136d28a0395290b16728500fe30190eaea84 -SIZE (auerlab-ad2vcf-0.1.2_GH0.tar.gz) = 15204 +TIMESTAMP = 1623420872 +SHA256 (auerlab-ad2vcf-0.1.3_GH0.tar.gz) = 062e355c0de2d6351c099eb1004a19473140838476358cb66670de5f557043ea +SIZE (auerlab-ad2vcf-0.1.3_GH0.tar.gz) = 14484 diff --git a/biology/ad2vcf/pkg-descr b/biology/ad2vcf/pkg-descr index 21df7c875513..16def19e923e 100644 --- a/biology/ad2vcf/pkg-descr +++ b/biology/ad2vcf/pkg-descr @@ -1,6 +1,4 @@ -ad2vdf extracts allelic depth info from a SAM stream and adds it to a -corresponding single-sample VCF file. SAM input is read via stdin and the VCF -input file is taken as a command-line argument. This allows expensive BAM/CRAM -decoding to be performed in parallel by a separate samtools process. +ad2vcf extracts allelic depth info from a SAM stream and adds it to a +corresponding single-sample VCF file. WWW: https://github.com/auerlab/ad2vcf