rpms/samtools/F-11 import.log, NONE, 1.1 samtools-0.1.5c-compilefix.patch, NONE, 1.1 samtools.spec, NONE, 1.1 .cvsignore, 1.1, 1.2 sources, 1.1, 1.2

[ron]

Author: ron

Update of /cvs/pkgs/rpms/samtools/F-11
In directory cvs1.fedora.phx.redhat.com:/tmp/cvs-serv27884/F-11

Modified Files:
	.cvsignore sources 
Added Files:
	import.log samtools-0.1.5c-compilefix.patch samtools.spec 
Log Message:
Auto import of samtools.



--- NEW FILE import.log ---
samtools-0_1_5c-3_fc10:F-11:samtools-0.1.5c-3.fc10.src.rpm:1247426096

samtools-0.1.5c-compilefix.patch:

--- NEW FILE samtools-0.1.5c-compilefix.patch ---
diff -up samtools-0.1.5c/misc/Makefile.compilefix samtools-0.1.5c/misc/Makefile
--- samtools-0.1.5c/misc/Makefile.compilefix	2009-07-11 15:33:04.000000000 +0200
+++ samtools-0.1.5c/misc/Makefile	2009-07-11 15:33:22.000000000 +0200
@@ -1,6 +1,6 @@
 CC=			gcc
 CXX=		g++
-CFLAGS=		-g -Wall -O2 -m64 #-arch ppc
+CFLAGS=		-g -Wall -O2 #-m64 #-arch ppc
 CXXFLAGS=	$(CFLAGS)
 DFLAGS=		-D_FILE_OFFSET_BITS=64
 OBJS=		


--- NEW FILE samtools.spec ---
Name:		samtools
Version:	0.1.5c
Release:	3%{?dist}
Summary:	Tools for nucleotide sequence alignments in the SAM format

Group:		Applications/Engineering
License:	MIT
URL:		http://samtools.sourceforge.net/
Source0:	http://downloads.sourceforge.net/%{name}/%{name}-%{version}.tar.bz2
Patch0:		samtools-0.1.5c-compilefix.patch
BuildRoot:	%(mktemp -ud %{_tmppath}/%{name}-%{version}-%{release}-XXXXXX)

BuildRequires:	zlib-devel >= 1.2.3
BuildRequires:	ncurses-devel

%description
SAM (Sequence Alignment/Map) is a flexible generic format for storing
nucleotide sequence alignment. SAM tools provide efficient utilities on
manipulating alignments in the SAM format.


%prep
%setup -q
%patch0 -p1 -b .compilefix


%build
make CFLAGS="%{optflags}" samtools razip %{?_smp_mflags}

cd misc/
make CFLAGS="%{optflags}" %{?_smp_mflags}


%install
rm -rf %{buildroot}
mkdir -p %{buildroot}%{_bindir}
install -p samtools razip %{buildroot}%{_bindir}

gzip samtools.1
mkdir -p %{buildroot}%{_mandir}/man1/
cp -p samtools.1.gz %{buildroot}%{_mandir}/man1/

cd misc/
install -p blast2sam.pl bowtie2sam.pl export2sam.pl interpolate_sam.pl \
  maq2sam-long maq2sam-short md5fa md5sum-lite novo2sam.pl samtools.pl \
  soap2sam.pl wgsim wgsim_eval.pl zoom2sam.pl %{buildroot}%{_bindir}


%clean
rm -rf %{buildroot}


%files
%defattr(-,root,root,-)
%doc AUTHORS ChangeLog COPYING INSTALL NEWS source.dot examples/
%{_bindir}/*
%{_mandir}/man1/*


%changelog
* Sun Jul 12 2009 Rasmus Ory Nielsen <ron at ron.dk> - 0.1.5c-3
- Specfile cleanup.

* Sat Jul 11 2009 Rasmus Ory Nielsen <ron at ron.dk> - 0.1.5c-2
- Fixed manpage location.
- Make sure optflags is passed to the makefiles.

* Sat Jul 11 2009 Rasmus Ory Nielsen <ron at ron.dk> - 0.1.5c-1
- Initial build.


Index: .cvsignore
===================================================================
RCS file: /cvs/pkgs/rpms/samtools/F-11/.cvsignore,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -p -r1.1 -r1.2
--- .cvsignore	12 Jul 2009 16:58:23 -0000	1.1
+++ .cvsignore	12 Jul 2009 19:15:53 -0000	1.2
@@ -0,0 +1 @@
+samtools-0.1.5c.tar.bz2


Index: sources
===================================================================
RCS file: /cvs/pkgs/rpms/samtools/F-11/sources,v
retrieving revision 1.1
retrieving revision 1.2
diff -u -p -r1.1 -r1.2
--- sources	12 Jul 2009 16:58:23 -0000	1.1
+++ sources	12 Jul 2009 19:15:53 -0000	1.2
@@ -0,0 +1 @@
+62551fbad3f7c63c52fad99c3baf8580  samtools-0.1.5c.tar.bz2