[perl-Bio-SamTools] Initial import (#630644)

[verdurin]

commit 74c14a5d752ac1dc77a5fd7b53e0f505ae292db6
Author: Adam Huffman <bloch at verdurin.com>
Date:   Tue Mar 22 09:47:53 2011 +0000

    Initial import (#630644)

 .gitignore             |    1 +
 perl-Bio-SamTools.spec |   92 ++++++++++++++++++++++++++++++++++++++++++++++++
 sources                |    1 +
 3 files changed, 94 insertions(+), 0 deletions(-)
---
diff --git a/.gitignore b/.gitignore
index e69de29..2e1d823 100644
--- a/.gitignore
+++ b/.gitignore
@@ -0,0 +1 @@
+/Bio-SamTools-1.27.tar.gz
diff --git a/perl-Bio-SamTools.spec b/perl-Bio-SamTools.spec
new file mode 100644
index 0000000..a064753
--- /dev/null
+++ b/perl-Bio-SamTools.spec
@@ -0,0 +1,92 @@
+Name:		perl-Bio-SamTools
+Version:	1.27
+Release:	2%{?dist}
+Summary:	Bio::SamTools Perl module
+License:	GPL+ or Artistic 2.0
+Group:		Development/Libraries
+URL:		http://search.cpan.org/dist/Bio-SamTools/
+Source0:	http://search.cpan.org/CPAN/authors/id/L/LD/LDS/Bio-SamTools-%{version}.tar.gz
+BuildRoot:	%{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
+BuildRequires:	perl >= 0:5.008
+BuildRequires:	perl(Bio::PrimarySeq)
+BuildRequires:	perl(Bio::SeqFeature::Lite)
+BuildRequires:	perl(ExtUtils::CBuilder)
+BuildRequires:	perl(ExtUtils::MakeMaker)
+BuildRequires:	perl(Module::Build)
+BuildRequires:	perl(Exporter)
+BuildRequires:	perl(File::Spec)
+BuildRequires:	perl(File::Temp)
+BuildRequires:	perl(Cwd)
+BuildRequires:	perl(Test)
+BuildRequires:	samtools-devel >= 0.1.8
+BuildRequires:	zlib-devel
+
+#Requires:	 perl-bioperl
+Requires:	 perl(:MODULE_COMPAT_%(eval "`%{__perl} -V:version`"; echo $version))
+
+%{?perl_default_filter}
+
+%description
+This is a Perl interface to the SAMtools sequence alignment interface.
+See http://samtools.sourceforge.net/.
+
+
+%prep
+%setup -q -n Bio-SamTools-%{version}
+sed -i 's|= find_sam(|= ("%{_includedir}/samtools", "%{_libdir}"|' Build.PL
+
+%build
+%{__perl} Build.PL installdirs=vendor optimize="$RPM_OPT_FLAGS" 
+./Build
+
+%install
+rm -rf %{buildroot}
+
+./Build install destdir=%{buildroot} create_packlist=0
+find %{buildroot} -type f -name '*.bs' -size 0 -exec rm -f {} \;
+find %{buildroot} -depth -type d -exec rmdir {} 2>/dev/null \;
+
+%{_fixperms} %{buildroot}/*
+
+%check
+./Build test
+
+%clean
+rm -rf %{buildroot}
+
+%files
+%defattr(-,root,root,-)
+%doc Changes DISCLAIMER LICENSE README
+%{perl_vendorarch}/auto/*
+%{perl_vendorarch}/Bio*
+%{_mandir}/man3/*
+%{_bindir}/bamToGBrowse.pl
+
+%changelog
+* Fri Mar 18 2011 Adam Huffman <bloch at verdurin.com> - 1.27-2
+- remove perl-bioperl reqs. and fix license
+
+* Mon Mar 14 2011 Adam Huffman <bloch at verdurin.com> - 1.27-1
+- new upstream version 1.27
+- remove unnecessary runtime samtools-devel R
+- more fine-grained module BR for bioperl and others
+- fix license
+- remove commented cruft
+
+* Sun Mar 13 2011 Adam Huffman <bloch at verdurin.com> - 1.21-3
+- better fix for samtools headers from Petr Pisar
+
+* Sun Oct 10 2010  Adam Huffman <bloch at verdurin.com> - 1.21-2
+- add patch to fix includes (from Rasmus)
+
+* Sun Sep 26 2010 Adam Huffman <bloch at verdurin.com> - 1.21-1
+- new upstream version
+
+* Mon Sep  6 2010 Adam Huffman <bloch at verdurin.com> - 1.20-3
+- filter unwanted provides
+
+* Mon Sep  6 2010 Adam Huffman <bloch at verdurin.com> - 1.20-2
+- add zlib BR
+
+* Wed Jul 21 2010 Adam Huffman <bloch at verdurin.com> 1.20-1
+- Specfile autogenerated by cpanspec 1.78.
diff --git a/sources b/sources
index e69de29..37cd403 100644
--- a/sources
+++ b/sources
@@ -0,0 +1 @@
+af5603228212c755a3491ffc8fdfa1aa  Bio-SamTools-1.27.tar.gz