The following commit has been merged in the master branch:
commit 0da52553f2620c9d54f09a1a182b6b1fa19ae533
Author: Andreas Tille <[email protected]>
Date:   Sun Apr 1 09:54:24 2012 +0200

    enable building twice in a row

diff --git a/debian/changelog b/debian/changelog
index 6083aa6..6cc4935 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -9,8 +9,10 @@ gmap (2012-03-23-1) UNRELEASED; urgency=low
   * debian/copyright: Fixed some DEP5 issues and verified using
        cme fix dpkg-copyright
   * debian/install: gsnap_tally is not builded any more in this version
+  * debian/rules: really use autotools-dev to enable building twice in
+    a row
 
- -- Andreas Tille <[email protected]>  Sun, 01 Apr 2012 09:45:35 +0200
+ -- Andreas Tille <[email protected]>  Sun, 01 Apr 2012 09:53:26 +0200
 
 gmap (2011-12-28-1) unstable; urgency=low
 
diff --git a/debian/rules b/debian/rules
index c15901b..c36f85f 100755
--- a/debian/rules
+++ b/debian/rules
@@ -3,7 +3,7 @@
 export DH_OPTIONS
 
 %:
-       dh  $@
+       dh  $@ --with autotools_dev
 
 override_dh_auto_configure:
        dh_auto_configure -- --with-gmapdb=/var/cache/gmap

-- 
Align mRNA and EST sequences to a genome

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