From owner-cvs-all@FreeBSD.ORG  Sat May 24 07:01:56 2008
Return-Path: <owner-cvs-all@FreeBSD.ORG>
Delivered-To: cvs-all@FreeBSD.org
Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:4f8:fff6::34])
	by hub.freebsd.org (Postfix) with ESMTP id 917F3106566C;
	Sat, 24 May 2008 07:01:56 +0000 (UTC)
	(envelope-from edwin@FreeBSD.org)
Received: from repoman.freebsd.org (repoman.freebsd.org
	[IPv6:2001:4f8:fff6::29])
	by mx1.freebsd.org (Postfix) with ESMTP id 92A748FC12;
	Sat, 24 May 2008 07:01:56 +0000 (UTC)
	(envelope-from edwin@FreeBSD.org)
Received: from repoman.freebsd.org (localhost [127.0.0.1])
	by repoman.freebsd.org (8.14.1/8.14.1) with ESMTP id m4O71uNQ010685;
	Sat, 24 May 2008 07:01:56 GMT
	(envelope-from edwin@repoman.freebsd.org)
Received: (from edwin@localhost)
	by repoman.freebsd.org (8.14.1/8.14.1/Submit) id m4O71ulA010684;
	Sat, 24 May 2008 07:01:56 GMT (envelope-from edwin)
Message-Id: <200805240701.m4O71ulA010684@repoman.freebsd.org>
From: Edwin Groothuis <edwin@FreeBSD.org>
Date: Sat, 24 May 2008 07:01:56 +0000 (UTC)
To: ports-committers@FreeBSD.org, cvs-ports@FreeBSD.org, cvs-all@FreeBSD.org
X-FreeBSD-CVS-Branch: HEAD
Cc: 
Subject: cvs commit: ports/biology Makefile ports/biology/phd2fasta
 Makefile distinfo pkg-descr ports/biology/phd2fasta/files
 patch-Makefile
X-BeenThere: cvs-all@freebsd.org
X-Mailman-Version: 2.1.5
Precedence: list
List-Id: CVS commit messages for the entire tree <cvs-all.freebsd.org>
List-Unsubscribe: <http://lists.freebsd.org/mailman/listinfo/cvs-all>,
	<mailto:cvs-all-request@freebsd.org?subject=unsubscribe>
List-Archive: <http://lists.freebsd.org/pipermail/cvs-all>
List-Post: <mailto:cvs-all@freebsd.org>
List-Help: <mailto:cvs-all-request@freebsd.org?subject=help>
List-Subscribe: <http://lists.freebsd.org/mailman/listinfo/cvs-all>,
	<mailto:cvs-all-request@freebsd.org?subject=subscribe>
X-List-Received-Date: Sat, 24 May 2008 07:01:56 -0000

edwin       2008-05-24 07:01:56 UTC

  FreeBSD ports repository

  Modified files:
    biology              Makefile 
  Added files:
    biology/phd2fasta    Makefile distinfo pkg-descr 
    biology/phd2fasta/files patch-Makefile 
  Log:
  New port: biology/consed viewing and editing workbench for sequence
  assembly
  
          Consed is a tool for viewing, editing, and finishing sequence
          assemblies.
  
          The port is constituted of 4 parts:
          biology/phred: base caller with quality evaluation
          biology/phrap: sequence assembler for shotgun sequencing
          biology/consed: workbench
          biology/phd2fasta: small utility
  
          All these can be used separately; however, most function
          of consed depends on the others.
  
          Although these programs are licensed freely for academic
          and nonprofit purposes, users have to contact the authors
          to get the softwares.
          Phred (including phd2fasta) and phrap are emailed,
          and consed can be downloaded to a restricted IP address.
          For commercial users, the licensing fee is ca. $10,000 at
          the time of writing.
  
  PR:             ports/118548
  Submitted by:   Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>
  
  Revision  Changes    Path
  1.99      +1 -0      ports/biology/Makefile
  1.1       +48 -0     ports/biology/phd2fasta/Makefile (new)
  1.1       +3 -0      ports/biology/phd2fasta/distinfo (new)
  1.1       +10 -0     ports/biology/phd2fasta/files/patch-Makefile (new)
  1.1       +8 -0      ports/biology/phd2fasta/pkg-descr (new)