verdurin pushed to bwa (epel7). "Merge branch 'master' into el5 (..more)"
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From bb083bd76d5a6931cb0f4029542de13212a45221 Mon Sep 17 00:00:00 2001
From: verdurin <verdurin at fedoraproject.org>
Date: Mon, 7 Jun 2010 23:04:23 +0000
Subject: Initial import
diff --git a/.cvsignore b/.cvsignore
index e69de29..0c196a9 100644
--- a/.cvsignore
+++ b/.cvsignore
@@ -0,0 +1 @@
+bwa-0.5.7.tar.bz2
diff --git a/bwa.spec b/bwa.spec
new file mode 100644
index 0000000..6495e18
--- /dev/null
+++ b/bwa.spec
@@ -0,0 +1,60 @@
+Name: bwa
+Version: 0.5.7
+Release: 2%{?dist}
+Summary: Burrows-Wheeler Alignment tool
+
+Group: Applications/Engineering
+License: GPLv3
+URL: http://bio-bwa.sourceforge.net/
+Source0: http://downloads.sourceforge.net/bio-%{name}/%{name}-%{version}.tar.bz2
+BuildRoot: %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
+
+BuildRequires: zlib-devel
+
+%description
+
+BWA is a program for aligning sequencing reads against a large
+reference genome (e.g. human genome). It has two major components, one
+for read shorter than 150bp and the other for longer reads.
+
+%prep
+%setup -q
+
+
+%build
+make %{?_smp_mflags} CFLAGS="%{optflags}"
+
+
+%install
+rm -rf %{buildroot}
+mkdir -p %{buildroot}/%{_bindir}
+mkdir -p %{buildroot}/%{_mandir}/man1
+
+install -m 0755 bwa %{buildroot}/%{_bindir}
+install -m 0755 solid2fastq.pl %{buildroot}/%{_bindir}
+install -m 0755 qualfa2fq.pl %{buildroot}/%{_bindir}
+
+install -m 0644 bwa.1 %{buildroot}/%{_mandir}/man1/bwa.1
+
+%clean
+rm -rf %{buildroot}
+
+
+%files
+%defattr(-,root,root,-)
+%doc COPYING NEWS
+%{_mandir}/man1/%{name}.1*
+%{_bindir}/bwa
+%{_bindir}/qualfa2fq.pl
+%{_bindir}/solid2fastq.pl
+
+
+%changelog
+* Sat May 29 2010 Adam Huffman <bloch at verdurin.com> - 0.5.7-2
+- fix source URL
+- install manpage
+- fix cflags
+
+* Fri May 28 2010 Adam Huffman <bloch at verdurin.com> - 0.5.7-1
+- initial version
+
diff --git a/import.log b/import.log
new file mode 100644
index 0000000..1399c99
--- /dev/null
+++ b/import.log
@@ -0,0 +1 @@
+bwa-0_5_7-2_fc12:HEAD:bwa-0.5.7-2.fc12.src.rpm:1275951818
diff --git a/sources b/sources
index e69de29..a57686e 100644
--- a/sources
+++ b/sources
@@ -0,0 +1 @@
+ec1e467ad7a0bc106b5f610f17d9e95a bwa-0.5.7.tar.bz2
--
cgit v0.10.2
From dc267f0a23d51f07970beef12a0a09b0115c1047 Mon Sep 17 00:00:00 2001
From: verdurin <verdurin at fedoraproject.org>
Date: Wed, 21 Jul 2010 14:52:50 +0000
Subject: New upstream release
diff --git a/.cvsignore b/.cvsignore
index 0c196a9..64507fc 100644
--- a/.cvsignore
+++ b/.cvsignore
@@ -1 +1 @@
-bwa-0.5.7.tar.bz2
+bwa-0.5.8a.tar.bz2
diff --git a/bwa.spec b/bwa.spec
index 6495e18..1196e85 100644
--- a/bwa.spec
+++ b/bwa.spec
@@ -1,6 +1,6 @@
Name: bwa
-Version: 0.5.7
-Release: 2%{?dist}
+Version: 0.5.8a
+Release: 1%{?dist}
Summary: Burrows-Wheeler Alignment tool
Group: Applications/Engineering
@@ -50,6 +50,9 @@ rm -rf %{buildroot}
%changelog
+* Tue Jul 20 2010 Adam Huffman <bloch at verdurin.com> - 0.5.8a-1
+- new upstream release
+
* Sat May 29 2010 Adam Huffman <bloch at verdurin.com> - 0.5.7-2
- fix source URL
- install manpage
diff --git a/sources b/sources
index a57686e..00f7b45 100644
--- a/sources
+++ b/sources
@@ -1 +1 @@
-ec1e467ad7a0bc106b5f610f17d9e95a bwa-0.5.7.tar.bz2
+4f34d6d1156f7259eb5a3c946f7f59db bwa-0.5.8a.tar.bz2
--
cgit v0.10.2
From 7ab99cab1144694fdafd163abdb8949ae65ee9a8 Mon Sep 17 00:00:00 2001
From: Fedora Release Engineering <rel-eng at lists.fedoraproject.org>
Date: Wed, 28 Jul 2010 11:20:18 +0000
Subject: dist-git conversion
diff --git a/.cvsignore b/.cvsignore
deleted file mode 100644
index 64507fc..0000000
--- a/.cvsignore
+++ /dev/null
@@ -1 +0,0 @@
-bwa-0.5.8a.tar.bz2
diff --git a/.gitignore b/.gitignore
new file mode 100644
index 0000000..64507fc
--- /dev/null
+++ b/.gitignore
@@ -0,0 +1 @@
+bwa-0.5.8a.tar.bz2
diff --git a/Makefile b/Makefile
deleted file mode 100644
index d298cac..0000000
--- a/Makefile
+++ /dev/null
@@ -1,21 +0,0 @@
-# Makefile for source rpm: bwa
-# $Id$
-NAME := bwa
-SPECFILE = $(firstword $(wildcard *.spec))
-
-define find-makefile-common
-for d in common ../common ../../common ; do if [ -f $$d/Makefile.common ] ; then if [ -f $$d/CVS/Root -a -w $$d/Makefile.common ] ; then cd $$d ; cvs -Q update ; fi ; echo "$$d/Makefile.common" ; break ; fi ; done
-endef
-
-MAKEFILE_COMMON := $(shell $(find-makefile-common))
-
-ifeq ($(MAKEFILE_COMMON),)
-# attept a checkout
-define checkout-makefile-common
-test -f CVS/Root && { cvs -Q -d $$(cat CVS/Root) checkout common && echo "common/Makefile.common" ; } || { echo "ERROR: I can't figure out how to checkout the 'common' module." ; exit -1 ; } >&2
-endef
-
-MAKEFILE_COMMON := $(shell $(checkout-makefile-common))
-endif
-
-include $(MAKEFILE_COMMON)
diff --git a/import.log b/import.log
deleted file mode 100644
index 1399c99..0000000
--- a/import.log
+++ /dev/null
@@ -1 +0,0 @@
-bwa-0_5_7-2_fc12:HEAD:bwa-0.5.7-2.fc12.src.rpm:1275951818
--
cgit v0.10.2
From d403dda54493d7c33374e5c60aba7dc7704df8cd Mon Sep 17 00:00:00 2001
From: Adam Huffman <bloch at verdurin.com>
Date: Wed, 5 Jan 2011 16:40:42 +0000
Subject: New upstream tarball 0.5.8c
diff --git a/.gitignore b/.gitignore
index 64507fc..c672758 100644
--- a/.gitignore
+++ b/.gitignore
@@ -1 +1,2 @@
bwa-0.5.8a.tar.bz2
+/bwa-0.5.8c.tar.bz2
diff --git a/sources b/sources
index 00f7b45..697b110 100644
--- a/sources
+++ b/sources
@@ -1 +1 @@
-4f34d6d1156f7259eb5a3c946f7f59db bwa-0.5.8a.tar.bz2
+7685468334d2e56e50dc3a2be96192cd bwa-0.5.8c.tar.bz2
--
cgit v0.10.2
From 57324e7fe6ee8127f41fe697e6dd90278784e2a4 Mon Sep 17 00:00:00 2001
From: Adam Huffman <bloch at verdurin.com>
Date: Wed, 5 Jan 2011 16:45:55 +0000
Subject: Upstream bugfix release
diff --git a/bwa.spec b/bwa.spec
index 1196e85..0a38ab1 100644
--- a/bwa.spec
+++ b/bwa.spec
@@ -1,5 +1,5 @@
Name: bwa
-Version: 0.5.8a
+Version: 0.5.8c
Release: 1%{?dist}
Summary: Burrows-Wheeler Alignment tool
@@ -50,6 +50,9 @@ rm -rf %{buildroot}
%changelog
+* Wed Jan 5 2011 Adam Huffman <bloch at verdurin.com> - 0.5.8c-1
+- upstream bugfix release
+
* Tue Jul 20 2010 Adam Huffman <bloch at verdurin.com> - 0.5.8a-1
- new upstream release
--
cgit v0.10.2
http://pkgs.fedoraproject.org/cgit/bwa.git/commit/?h=epel7&id=31a925c6f92310c50909f5906837d169f53a6683
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