[Debian-med-packaging] [SCM] gmap branch, master, updated. upstream/2010-07-21-15-gd58c03d

[Shaun Jackman]

The following commit has been merged in the master branch:
commit d58c03d54cbb46afcb04cc24b2b75cd4759ef256
Author: Shaun Jackman <sjackman at debian.org>
Date:   Fri Aug 6 11:09:40 2010 -0700

    * New upstream release.
    * Bump Standards-Version to 3.9.1.

diff --git a/debian/changelog b/debian/changelog
index 1f35477..2bbaf86 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,10 @@
+gmap (2010-07-27-1) unstable; urgency=low
+
+  * New upstream release.
+  * Bump Standards-Version to 3.9.1.
+
+ -- Shaun Jackman <sjackman at debian.org>  Fri, 06 Aug 2010 10:12:23 -0700
+
 gmap (2010-07-21-1) unstable; urgency=low
 
   * New upstream release.
diff --git a/debian/control b/debian/control
index 55d43f8..12fa327 100644
--- a/debian/control
+++ b/debian/control
@@ -5,7 +5,7 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.
 DM-Upload-Allowed: yes
 Uploaders: Shaun Jackman <sjackman at debian.org>
 Build-Depends: debhelper (>= 7.0.50~), autotools-dev
-Standards-Version: 3.9.0
+Standards-Version: 3.9.1
 Homepage: http://research-pub.gene.com/gmap/
 Vcs-Git: git://git.debian.org/git/debian-med/gmap.git
 Vcs-Browser: http://git.debian.org/?p=debian-med/gmap.git
diff --git a/debian/gmap.1 b/debian/gmap.1
index 7ac4568..a5d313c 100644
--- a/debian/gmap.1
+++ b/debian/gmap.1
@@ -1,4 +1,4 @@
-.TH GMAP "1" "July 2010" "GMAP 2010-07-21" "User Commands"
+.TH GMAP "1" "Aug 2010" "GMAP 2010-07-27" "User Commands"
 .SH NAME
 gmap \- Genomic Mapping and Alignment Program
 .SH SYNOPSIS
diff --git a/debian/gmap_setup.1 b/debian/gmap_setup.1
index 83e73e4..8338d17 100644
--- a/debian/gmap_setup.1
+++ b/debian/gmap_setup.1
@@ -1,4 +1,4 @@
-.TH GMAP_SETUP "1" "April 2010" "GMAP 2010-03-09" "User Commands"
+.TH GMAP_SETUP "1" "Aug 2010" "GMAP 2010-07-27" "User Commands"
 .SH NAME
 gmap_setup \- create a genome database for GMAP or GSNAP
 .SH SYNOPSIS
diff --git a/debian/gsnap.1 b/debian/gsnap.1
index 9dc5fda..059e5a1 100644
--- a/debian/gsnap.1
+++ b/debian/gsnap.1
@@ -1,4 +1,4 @@
-.TH GSNAP "1" "July 2010" "GMAP 2010-07-21" "User Commands"
+.TH GSNAP "1" "Aug 2010" "GMAP 2010-07-27" "User Commands"
 .SH NAME
 gsnap \- Genomic Short-read Nucleotide Alignment Program
 .SH SYNOPSIS
@@ -42,7 +42,7 @@ defaults to the ultrafast level of ((readlength+2)/12 \- 2))
 If specified between 0.0 and 1.0, then treated as a fraction
 of each read length. Otherwise, treated as an integral number
 of mismatches (including indel and splicing penalties)
-For RNA-Seq, you may need to increase this value to 10 or so,
+For RNA-Seq, you may need to increase this value slightly
 to align reads extending past the ends of an exon.
 .TP
 \fB\-i\fR, \fB\-\-indel\-penalty\fR=\fIINT\fR

-- 
Align mRNA and EST sequences to a genome