ports/175601: [update]: science/massxpert up to latest version

[Veniamin Gvozdikov]

>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 at 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: