From owner-freebsd-ports-bugs@FreeBSD.ORG Sat Jan 26 07:50:00 2013 Return-Path: Delivered-To: freebsd-ports-bugs@smarthost.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by hub.freebsd.org (Postfix) with ESMTP id C6EE0746 for ; Sat, 26 Jan 2013 07:50:00 +0000 (UTC) (envelope-from gnats@FreeBSD.org) Received: from freefall.freebsd.org (freefall.freebsd.org [IPv6:2001:1900:2254:206c::16:87]) by mx1.freebsd.org (Postfix) with ESMTP id AE2DB32C for ; Sat, 26 Jan 2013 07:50:00 +0000 (UTC) Received: from freefall.freebsd.org (localhost [127.0.0.1]) by freefall.freebsd.org (8.14.6/8.14.6) with ESMTP id r0Q7o0N9000836 for ; Sat, 26 Jan 2013 07:50:00 GMT (envelope-from gnats@freefall.freebsd.org) Received: (from gnats@localhost) by freefall.freebsd.org (8.14.6/8.14.6/Submit) id r0Q7o0ZE000830; Sat, 26 Jan 2013 07:50:00 GMT (envelope-from gnats) Resent-Date: Sat, 26 Jan 2013 07:50:00 GMT Resent-Message-Id: <201301260750.r0Q7o0ZE000830@freefall.freebsd.org> Resent-From: FreeBSD-gnats-submit@FreeBSD.org (GNATS Filer) Resent-To: freebsd-ports-bugs@FreeBSD.org Resent-Reply-To: FreeBSD-gnats-submit@FreeBSD.org, Veniamin Gvozdikov Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by hub.freebsd.org (Postfix) with ESMTP id 39B36690 for ; Sat, 26 Jan 2013 07:48:58 +0000 (UTC) (envelope-from nobody@FreeBSD.org) Received: from red.freebsd.org (red.freebsd.org [IPv6:2001:4f8:fff6::22]) by mx1.freebsd.org (Postfix) with ESMTP id 2A85E308 for ; Sat, 26 Jan 2013 07:48:58 +0000 (UTC) Received: from red.freebsd.org (localhost [127.0.0.1]) by red.freebsd.org (8.14.5/8.14.5) with ESMTP id r0Q7mufh004573 for ; Sat, 26 Jan 2013 07:48:56 GMT (envelope-from nobody@red.freebsd.org) Received: (from nobody@localhost) by red.freebsd.org (8.14.5/8.14.5/Submit) id r0Q7muA9004572; Sat, 26 Jan 2013 07:48:56 GMT (envelope-from nobody) Message-Id: <201301260748.r0Q7muA9004572@red.freebsd.org> Date: Sat, 26 Jan 2013 07:48:56 GMT From: Veniamin Gvozdikov To: freebsd-gnats-submit@FreeBSD.org X-Send-Pr-Version: www-3.1 Subject: ports/175601: [update]: science/massxpert up to latest version X-BeenThere: freebsd-ports-bugs@freebsd.org X-Mailman-Version: 2.1.14 Precedence: list List-Id: Ports bug reports List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sat, 26 Jan 2013 07:50:00 -0000 >Number: 175601 >Category: ports >Synopsis: [update]: science/massxpert up to latest version >Confidential: no >Severity: non-critical >Priority: low >Responsible: freebsd-ports-bugs >State: open >Quarter: >Keywords: >Date-Required: >Class: maintainer-update >Submitter-Id: current-users >Arrival-Date: Sat Jan 26 07:50:00 UTC 2013 >Closed-Date: >Last-Modified: >Originator: Veniamin Gvozdikov >Release: FreeBSD 8.3-RELEASE-p5 >Organization: >Environment: FreeBSD ololo 8.3-RELEASE-p5 FreeBSD 8.3-RELEASE-p5 #0: Thu Dec 6 16:25:28 MSK 2012 root@ololo:/usr/obj/usr/src/sys/OLOLO amd64 >Description: The massXpert project aims at providing (bio)chemists with a software package allowing the following: * User-specific atom definitions and polymer chemistry definitions; * Powerful sequence editing with user-defined glyphs for each monomer and monomer chemical modification. Multi-region selections; * Polymer sequence chemical/enzymatic cleavage; * Intramolecular cross-linking, like disulfide bonds with total resolution of the peptides generated upon enzymatic cleavage; * Gas-phase fragmentation of oligomers; * Mass-to-charge ratio calculations with inline change of ionization agent; * Calculation of net electrical charge and of isoelectric point (even by taking into account monomer modifications if polymer is a protein); * Simulation of isotopic patterns for any chemical formula and z charge; * A number of plugins allow 1) translation of the sequence from one format to another (using a dictionary, like between the 1-letter code and the 3-letter code of proteins) 2) conversion of number format according to any localized number format 3) sort mass lists. >How-To-Repeat: >Fix: diff -ruN massxpert.orig/Makefile massxpert/Makefile --- massxpert.orig/Makefile 2013-01-26 11:46:30.572175752 +0400 +++ massxpert/Makefile 2013-01-26 00:15:41.074798294 +0400 @@ -2,7 +2,7 @@ # $FreeBSD: ports/science/massxpert/Makefile,v 1.9 2012/12/16 21:05:09 svnexp Exp $ PORTNAME= massxpert -PORTVERSION= 3.3.0 +PORTVERSION= 3.4.0 CATEGORIES= science MASTER_SITES= http://download.tuxfamily.org/massxpert/source/ @@ -19,6 +19,7 @@ LICENSE= GPLv3 +USE_BZIP2= yes USE_CMAKE= yes USE_GETTEXT= yes USE_ICONV= yes diff -ruN massxpert.orig/distinfo massxpert/distinfo --- massxpert.orig/distinfo 2013-01-26 11:46:30.572175752 +0400 +++ massxpert/distinfo 2013-01-26 00:16:58.774743398 +0400 @@ -1,2 +1,2 @@ -SHA256 (massxpert-3.3.0.tar.gz) = eed640a43825ab58dc47cad93831a767c574c93f9ee3aa37e621beb2a999177f -SIZE (massxpert-3.3.0.tar.gz) = 16853069 +SHA256 (massxpert-3.4.0.tar.bz2) = b06314722b4cbdf68dc76e55933a79487848c655fc65341a8dbc707ed89cc9e8 +SIZE (massxpert-3.4.0.tar.bz2) = 16544044 >Release-Note: >Audit-Trail: >Unformatted: