1 files changed, 39 insertions, 0 deletions
diff --git a/dev-perl/Bio-SamTools/Bio-SamTools-1.390.0-r1.ebuild b/dev-perl/Bio-SamTools/Bio-SamTools-1.390.0-r1.ebuild
new file mode 100644
index 000000000000..4bce31003650
--- /dev/null
+++ b/dev-perl/Bio-SamTools/Bio-SamTools-1.390.0-r1.ebuild
@@ -0,0 +1,39 @@
+# Copyright 1999-2014 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: /var/cvsroot/gentoo-x86/dev-perl/Bio-SamTools/Bio-SamTools-1.390.0-r1.ebuild,v 1.1 2014/08/26 19:37:47 axs Exp $
+
+EAPI=5
+
+MODULE_AUTHOR=LDS
+MODULE_VERSION=1.39
+inherit perl-module
+
+DESCRIPTION="Read SAM/BAM database files"
+
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+IUSE=""
+
+RDEPEND="sci-biology/bioperl
+	>=sci-biology/samtools-0.1.16"
+DEPEND="${RDEPEND}
+	virtual/perl-ExtUtils-CBuilder
+	virtual/perl-Module-Build
+"
+
+SRC_TEST=do
+
+src_prepare() {
+	sed \
+		-e 's|my $HeaderFile = "bam.h";|my $HeaderFile = "bam/bam.h";|' \
+		-e 's|my $LibFile    = "libbam.a";|my $LibFile    = "libbam.so";|' \
+		-i Build.PL || die
+	sed \
+		-e 's|#include "bam.h"|#include "bam/bam.h"|' \
+		-e 's|#include "sam.h"|#include "bam/sam.h"|' \
+		-e 's|#include "khash.h"|#include "bam/khash.h"|' \
+		-e 's|#include "faidx.h"|#include "bam/faidx.h"|' \
+		-i lib/Bio/DB/Sam.xs c_bin/bam2bedgraph.c || die
+
+	perl-module_src_prepare
+}