The following commit has been merged in the master branch:
commit 794bafae716cb47616d750a321585ebaf497565d
Author: Alexandre Mestiashvili <[email protected]>
Date:   Wed Feb 22 12:35:04 2012 +0100

    debian/rules using commit of Andreas

diff --git a/debian/rules b/debian/rules
index 559fce6..2f74e57 100755
--- a/debian/rules
+++ b/debian/rules
@@ -7,15 +7,14 @@ pkg=$(shell dpkg-parsechangelog | sed -n 's/^Source: //p')
 
 override_dh_auto_install:
        mkdir -p $(CURDIR)/debian/$(pkg)/usr/share/man/man1/
-
        help2man --name="wrapper for bowtie2-align" --no-info \
-           $(CURDIR)/bowtie2 > 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/bowtie2.1
-       help2man --name="builds a Bowtie index from a set of DNA sequences" 
--no-info \
-           $(CURDIR)/bowtie2-build > 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/bowtie2-build.1
-       help2man --name="extracts information from a bowtie2 index" --no-info \
-           $(CURDIR)/bowtie2-inspect > 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/bowtie2-inspect.1
+               $(CURDIR)/$(pkg) > 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/$(pkg).1
+       help2man --name="building a colorspace index for $(pkg)" --no-info \
+               $(CURDIR)/$(pkg)-build > 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/$(pkg)-build.1
+       help2man --name="extracts information from a $(pkg) index" --no-info \
+               $(CURDIR)/$(pkg)-inspect > 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/$(pkg)-inspect.1
        help2man --name="ultrafast and memory-efficient tool for aligning 
sequencing reads to long reference sequences" --no-info \
-           $(CURDIR)/bowtie2-align> 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/bowtie2-align.1
+           $(CURDIR)/$(pkg)-align> 
$(CURDIR)/debian/$(pkg)/usr/share/man/man1/$(pkg)-align.1
 
 override_dh_installchangelogs:
        dh_installchangelogs NEWS

-- 
ultrafast memory-efficient short read aligner

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