Name: samtools
Version: 0.1.8
Release: 1%{?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
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
# fix wrong interpreter
perl -pi -e "s[/software/bin/python][%{__python}]" misc/varfilter.py
%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 psl2sam.pl \
sam2vcf.pl samtools.pl soap2sam.pl varfilter.py wgsim wgsim_eval.pl \
zoom2sam.pl \
%{buildroot}%{_bindir}
%clean
rm -rf %{buildroot}
%files
%defattr(-,root,root,-)
%doc AUTHORS ChangeLog COPYING INSTALL NEWS examples/ samtools.txt
%{_bindir}/*
%{_mandir}/man1/*
%changelog
* Tue Aug 17 2010 Rasmus Ory Nielsen <ron@ron.dk> - 0.1.8-1
- Updated to 0.1.8.
* Mon Nov 30 2009 Rasmus Ory Nielsen <ron@ron.dk> - 0.1.7a-1
- Updated to 0.1.7a.
* Sun Jul 26 2009 Fedora Release Engineering <rel-eng@lists.fedoraproject.org> - 0.1.5c-4
- Rebuilt for https://fedoraproject.org/wiki/Fedora_12_Mass_Rebuild
* Sun Jul 12 2009 Rasmus Ory Nielsen <ron@ron.dk> - 0.1.5c-3
- Specfile cleanup.
* Sat Jul 11 2009 Rasmus Ory Nielsen <ron@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@ron.dk> - 0.1.5c-1
- Initial build.