science/massxpert: Fix two logical errors (found by gcc5)

There were two boolean logic issues found by gcc5 when compiling
massxpert.  One was comparing boolean output to a negative integer
(is always false) and the other applied the "not" operator in the wrong
place.  Fix provided per request by maintainer.

PR:	197823

science/massxpert/Makefile

@@ -3,12 +3,12 @@
 
 PORTNAME=	massxpert
 PORTVERSION=	3.4.0
-PORTREVISION=	2
+PORTREVISION=	3
 CATEGORIES=	science
 MASTER_SITES=	http://download.tuxfamily.org/massxpert/source/
 
 MAINTAINER=	vg@FreeBSD.org
-COMMENT=	The massXpert software for (bio)chemists
+COMMENT=	massXpert software for (bio)chemists
 
 LICENSE=	GPLv3
 

science/massxpert/files/patch-lib_cleaveSpec.cpp

@@ -0,0 +1,11 @@
+--- lib/cleaveSpec.cpp.orig	2012-12-25 21:02:43 UTC
++++ lib/cleaveSpec.cpp
+@@ -427,7 +427,7 @@ namespace massXpert
+       return false;
+ 
+   
+-    if (parse() == -1)
++    if (parse() == false)
+       return false;
+   
+     // If there are rules, we have to check them all.

science/massxpert/files/patch-plugins-src_seqToolsPlugin_seqToolsPluginDlg.cpp

@@ -0,0 +1,11 @@
+--- plugins-src/seqToolsPlugin/seqToolsPluginDlg.cpp.orig	2012-12-25 21:02:43 UTC
++++ plugins-src/seqToolsPlugin/seqToolsPluginDlg.cpp
+@@ -215,7 +215,7 @@ SeqToolsPluginDlg::loadDictionary ()
+ 
+       QStringList stringList = line.split (">", QString::SkipEmptyParts);
+       
+-      if (!stringList.size () == 2)
++      if (stringList.size () != 2)
+ 	{
+ 	  QMessageBox::warning (this,
+ 				tr ("Sequence Manipulation Tools Plugin"),