Mass import from sunrise

git-svn-id: http://overlays.gentoo.org/svn/proj/science/overlay@577 32389bae-6d03-0410-99cf-db05cde120eb

4 files changed, 78 insertions, 0 deletions

diff --git a/sci-biology/repeatmasker/ChangeLog b/sci-biology/repeatmasker/ChangeLog
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+++ b/sci-biology/repeatmasker/ChangeLog
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+# ChangeLog for sci-biology/repeatmasker
+# Copyright 1999-2007 Gentoo Foundation; Distributed under the GPL v2
+# $Header: $
+
+  27 Apr 2007; Andrey Kislyuk <weaver@horizon.ath.cx>
+  +repeatmasker-3.1.7.ebuild:
+  Mass import from sunrise
+
+  20 Apr 2007; Andrey Kislyuk <weaver@horizon.ath.cx> +repeatmasker-3.1.7.ebuild,
+  +metadata.xml:
+  new package (bug 114096)
+
diff --git a/sci-biology/repeatmasker/Manifest b/sci-biology/repeatmasker/Manifest
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index 000000000..3538d29b8
--- /dev/null
+++ b/sci-biology/repeatmasker/Manifest
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+DIST RepeatMasker-open-3-1-7.tar.gz 8197799 RMD160 fda43f7e3ebe3dbf655b3071e93e6d47fdb8f1e3 SHA1 f36f09f2d4173437ac5eb090ea471b95fdfa832b SHA256 56c2866f7e489e5f606872ff97b509ae29e2b8816b8fd2ad0938edb7c6f788b8
+EBUILD repeatmasker-3.1.7.ebuild 1257 RMD160 dbc84c1ae3d41eaaf785199a665a12b0485053d4 SHA1 e3eb4f37c5683863702f11e18219e72fe3859bed SHA256 e8aca73edea668ad3a5f44ede1402fa65b6c1e5116572189c391a50850c6ae2c
+MD5 956cae84557800d6c95e712926c9e389 repeatmasker-3.1.7.ebuild 1257
+RMD160 dbc84c1ae3d41eaaf785199a665a12b0485053d4 repeatmasker-3.1.7.ebuild 1257
+SHA256 e8aca73edea668ad3a5f44ede1402fa65b6c1e5116572189c391a50850c6ae2c repeatmasker-3.1.7.ebuild 1257
+MISC ChangeLog 364 RMD160 e1877e532b0e93379bc19763efdf5b7358257cc9 SHA1 28c87840dc383e8b463c91888b644b2084398ea3 SHA256 179cbb0e848c489075df2c00191e97c5b9bf1cb55b564548a958c2ab2c063584
+MD5 bd8e377c8f80129cdb99bf8c782acf47 ChangeLog 364
+RMD160 e1877e532b0e93379bc19763efdf5b7358257cc9 ChangeLog 364
+SHA256 179cbb0e848c489075df2c00191e97c5b9bf1cb55b564548a958c2ab2c063584 ChangeLog 364
+MD5 b9174bf38df7183f531cd70d0d632398 files/digest-repeatmasker-3.1.7 274
+RMD160 ec16d4108ead1718bd87b747216101b5f927cb17 files/digest-repeatmasker-3.1.7 274
+SHA256 fb42ae786b0974ae5f923335c6f985f9e766378d65ad42d76f50368a5c85c496 files/digest-repeatmasker-3.1.7 274
diff --git a/sci-biology/repeatmasker/files/digest-repeatmasker-3.1.7 b/sci-biology/repeatmasker/files/digest-repeatmasker-3.1.7
new file mode 100644
index 000000000..cd87a7a2c
--- /dev/null
+++ b/sci-biology/repeatmasker/files/digest-repeatmasker-3.1.7
@@ -0,0 +1,3 @@
+MD5 2b3f5055eeae3cdf6c110d77ae10eafc RepeatMasker-open-3-1-7.tar.gz 8197799
+RMD160 fda43f7e3ebe3dbf655b3071e93e6d47fdb8f1e3 RepeatMasker-open-3-1-7.tar.gz 8197799
+SHA256 56c2866f7e489e5f606872ff97b509ae29e2b8816b8fd2ad0938edb7c6f788b8 RepeatMasker-open-3-1-7.tar.gz 8197799
diff --git a/sci-biology/repeatmasker/repeatmasker-3.1.7.ebuild b/sci-biology/repeatmasker/repeatmasker-3.1.7.ebuild
new file mode 100644
index 000000000..d3ff1ce82
--- /dev/null
+++ b/sci-biology/repeatmasker/repeatmasker-3.1.7.ebuild
@@ -0,0 +1,51 @@
+# Copyright 1999-2007 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Header: $
+
+inherit versionator
+
+MY_PV=$(replace_all_version_separators '-')
+
+DESCRIPTION="Screen DNA sequences for interspersed repeats and low complexity DNA"
+HOMEPAGE="http://repeatmasker.org/"
+SRC_URI="http://www.repeatmasker.org/RepeatMasker-open-${MY_PV}.tar.gz"
+
+LICENSE="OSL-2.1"
+SLOT="0"
+KEYWORDS="~x86"
+IUSE=""
+
+DEPEND=""
+RDEPEND="sci-biology/phrap
+	sci-biology/repeatmasker-libraries"
+
+S="${WORKDIR}/RepeatMasker"
+
+src_compile() {
+	sed -i 's/system( "clear" );//' "${S}/configure"
+	cat << END | "${S}/configure" || die "configure failed"
+
+/usr/bin
+/usr/share/${PN}
+1
+/usr/bin
+Y
+4
+END
+	sed -i '/$REPEATMASKER_DIR/ s|$FindBin::RealBin|/usr/share/'${PN}'|' "${S}/RepeatMaskerConfig.pm" || die "sed failed"
+	sed -i 's|use lib $FindBin::RealBin;|use lib "/usr/share/'${PN}'/lib";|' "${S}"/{DateRepeats,ProcessRepeats,RepeatMasker} || die "sed failed"
+}
+
+src_install() {
+	dobin DateRepeats ProcessRepeats RepeatMasker
+
+	dodir /usr/share/${PN}/lib
+	insinto /usr/share/${PN}/lib
+	doins "${S}"/*.pm
+
+	insinto /usr/share/${PN}
+	doins -r util Matrices
+	keepdir /usr/share/${PN}/Libraries
+
+	dodoc README INSTALL repeatmasker.help daterepeats.help
+}