[med-svn] r5745 - trunk/packages/bowtie/trunk/debian
Andreas Tille
tille at alioth.debian.org
Sat Jan 29 16:17:39 UTC 2011
Author: tille
Date: 2011-01-29 16:17:39 +0000 (Sat, 29 Jan 2011)
New Revision: 5745
Added:
trunk/packages/bowtie/trunk/debian/bowtie-examples.install
Removed:
trunk/packages/bowtie/trunk/debian/README.Debian
trunk/packages/bowtie/trunk/debian/bowtie.doc-base.EX
Modified:
trunk/packages/bowtie/trunk/debian/bowtie.1
trunk/packages/bowtie/trunk/debian/bowtie.install
trunk/packages/bowtie/trunk/debian/control
trunk/packages/bowtie/trunk/debian/docs
trunk/packages/bowtie/trunk/debian/rules
Log:
Remove useless templates, add bowtie-*debug executables, create example package
Deleted: trunk/packages/bowtie/trunk/debian/README.Debian
===================================================================
--- trunk/packages/bowtie/trunk/debian/README.Debian 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/README.Debian 2011-01-29 16:17:39 UTC (rev 5745)
@@ -1,6 +0,0 @@
-bowtie for Debian
------------------
-
-<possible notes regarding this package - if none, delete this file>
-
- -- Steffen Moeller <moeller at debian.org> Thu, 25 Nov 2010 17:04:39 +0100
Added: trunk/packages/bowtie/trunk/debian/bowtie-examples.install
===================================================================
--- trunk/packages/bowtie/trunk/debian/bowtie-examples.install (rev 0)
+++ trunk/packages/bowtie/trunk/debian/bowtie-examples.install 2011-01-29 16:17:39 UTC (rev 5745)
@@ -0,0 +1,2 @@
+genomes usr/share/doc/bowtie/examples
+indexes usr/share/doc/bowtie/examples
Modified: trunk/packages/bowtie/trunk/debian/bowtie.1
===================================================================
--- trunk/packages/bowtie/trunk/debian/bowtie.1 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/bowtie.1 2011-01-29 16:17:39 UTC (rev 5745)
@@ -1,7 +1,7 @@
.\" DO NOT MODIFY THIS FILE! It was generated by help2man 1.38.2.
.TH BOWTIE "1" "November 2010" "bowtie version 0.12.7" "User Commands"
.SH NAME
-bowtie \- manual page for bowtie version 0.12.7
+bowtie \- ultrafast memory-efficient short read aligner
.SH DESCRIPTION
.SS "Usage:"
.IP
Deleted: trunk/packages/bowtie/trunk/debian/bowtie.doc-base.EX
===================================================================
--- trunk/packages/bowtie/trunk/debian/bowtie.doc-base.EX 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/bowtie.doc-base.EX 2011-01-29 16:17:39 UTC (rev 5745)
@@ -1,20 +0,0 @@
-Document: bowtie
-Title: Debian bowtie Manual
-Author: <insert document author here>
-Abstract: This manual describes what bowtie is
- and how it can be used to
- manage online manuals on Debian systems.
-Section: unknown
-
-Format: debiandoc-sgml
-Files: /usr/share/doc/bowtie/bowtie.sgml.gz
-
-Format: postscript
-Files: /usr/share/doc/bowtie/bowtie.ps.gz
-
-Format: text
-Files: /usr/share/doc/bowtie/bowtie.text.gz
-
-Format: HTML
-Index: /usr/share/doc/bowtie/html/index.html
-Files: /usr/share/doc/bowtie/html/*.html
Modified: trunk/packages/bowtie/trunk/debian/bowtie.install
===================================================================
--- trunk/packages/bowtie/trunk/debian/bowtie.install 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/bowtie.install 2011-01-29 16:17:39 UTC (rev 5745)
@@ -1,3 +1,4 @@
-./bowtie usr/bin
-./bowtie-build usr/bin
-./bowtie-inspect usr/bin
+bowtie usr/bin
+bowtie-build usr/bin
+bowtie-inspect usr/bin
+bowtie*-debug usr/bin
Modified: trunk/packages/bowtie/trunk/debian/control
===================================================================
--- trunk/packages/bowtie/trunk/debian/control 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/control 2011-01-29 16:17:39 UTC (rev 5745)
@@ -5,7 +5,7 @@
DM-Upload-Allowed: yes
Uploaders: Steffen Moeller <moeller at debian.org>,
Yask Gupta <yask.gupta87 at gmail.com>,
- Andreas TIlle <tille at debian.org>
+ Andreas Tille <tille at debian.org>
Build-Depends: debhelper (>= 7.1)
Standards-Version: 3.9.1
Homepage: http://bowtie-bio.sourceforge.net/
@@ -15,6 +15,7 @@
Package: bowtie
Architecture: any
Depends: ${shlibs:Depends}, ${misc:Depends}
+Suggests: bowtie-examples
Description: ultrafast memory-efficient short read aligner
This package addresses the problem to interpret the results from the
latest (2010) DNA sequencing technologies. Those will yield fairly
@@ -26,3 +27,22 @@
of over 25 million 35-bp reads per hour. Bowtie indexes the genome with
a Burrows-Wheeler index to keep its memory footprint small: typically
about 2.2 GB for the human genome (2.9 GB for paired-end).
+
+Package: bowtie-examples
+Architecture: all
+Depends: ${shlibs:Depends}, ${misc:Depends}
+Recommends: bowtie
+Enhances: bowtie
+Description: Examples for bowtie, the ultrafast memory-efficient short read aligner
+ This package addresses the problem to interpret the results from the
+ latest (2010) DNA sequencing technologies. Those will yield fairly
+ short stretches and those cannot be interpreted directly. It is the
+ challenge for tools like Bowtie to give a chromosomal location to the
+ short stretches of DNA sequenced per run.
+ .
+ Bowtie aligns short DNA sequences (reads) to the human genome at a rate
+ of over 25 million 35-bp reads per hour. Bowtie indexes the genome with
+ a Burrows-Wheeler index to keep its memory footprint small: typically
+ about 2.2 GB for the human genome (2.9 GB for paired-end).
+ .
+ This package provides some example data to work with bowtie.
Modified: trunk/packages/bowtie/trunk/debian/docs
===================================================================
--- trunk/packages/bowtie/trunk/debian/docs 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/docs 2011-01-29 16:17:39 UTC (rev 5745)
@@ -1 +1,5 @@
NEWS
+MANUAL
+TUTORIAL
+doc/manual.html
+doc/style.css
Modified: trunk/packages/bowtie/trunk/debian/rules
===================================================================
--- trunk/packages/bowtie/trunk/debian/rules 2011-01-29 16:14:55 UTC (rev 5744)
+++ trunk/packages/bowtie/trunk/debian/rules 2011-01-29 16:17:39 UTC (rev 5745)
@@ -12,8 +12,13 @@
%:
dh $@
-bowtie/build:
+override_dh_auto_build:
+ # dh_auto_build
$(MAKE) allall
+override_dh_auto_clean:
+ rm -f .bowtie*
+ dh_auto_clean
+
get-orig-source:
. debian/get-orig-source
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