move stuff to root

git-svn-id: http://overlays.gentoo.org/svn/proj/science/overlay@753 32389bae-6d03-0410-99cf-db05cde120eb

5 files changed, 0 insertions, 85 deletions

diff --git a/sci-biology/glimmerhmm/ChangeLog b/sci-biology/glimmerhmm/ChangeLog
deleted file mode 100644
index 918e4112f..000000000
--- a/sci-biology/glimmerhmm/ChangeLog
+++ /dev/null
@@ -1,16 +0,0 @@
-# ChangeLog for sci-biology/glimmerhmm
-# Copyright 1999-2007 Gentoo Foundation; Distributed under the GPL v2
-# $Header: $
-
-  27 Apr 2007; Andrey Kislyuk <weaver@horizon.ath.cx>
-  +glimmerhmm-3.0.1.ebuild:
-  Mass import from sunrise
-
-  15 Mar 2007; Christian Faulhammer <opfer@gentoo.org>
-  glimmerhmm-3.0.1.ebuild:
-  Orthographic sex-up
-
-  14 Mar 2007; Andrey Kislyuk <weaver@horizon.ath.cx> +glimmerhmm-3.0.1.ebuild,
-  +metadata.xml:
-  new package sci-biology/glimmerhmm (bug 170964)
-
diff --git a/sci-biology/glimmerhmm/Manifest b/sci-biology/glimmerhmm/Manifest
deleted file mode 100644
index e07e63b79..000000000
--- a/sci-biology/glimmerhmm/Manifest
+++ /dev/null
@@ -1,16 +0,0 @@
-DIST GlimmerHMM-3.0.1.tar.gz 45475952 RMD160 273cb74458e3f444cd9f8ca9f6618335aea5465f SHA1 6caf10a3fb79660e48d88560869dee0394961f1a SHA256 c956838a398483003ff1af867c65aca082b82340d8b302b9ada77d1b246954e4
-EBUILD glimmerhmm-3.0.1.ebuild 1256 RMD160 63bbac5df129a0867aa0ab6e025710c8683cdcf6 SHA1 c517e20085e5e716435c0d29bd1a3bae9228e2d1 SHA256 0a9df33ae04c5b275999041573f0935b32be4797da0b48211e88dbe277d7dfe5
-MD5 660bd1edbd45fe60d64f23417d319a80 glimmerhmm-3.0.1.ebuild 1256
-RMD160 63bbac5df129a0867aa0ab6e025710c8683cdcf6 glimmerhmm-3.0.1.ebuild 1256
-SHA256 0a9df33ae04c5b275999041573f0935b32be4797da0b48211e88dbe277d7dfe5 glimmerhmm-3.0.1.ebuild 1256
-MISC ChangeLog 486 RMD160 7d213d91b90390472c3afbf1a921ccbbfc6111c3 SHA1 7c1d8b78c09b3c2344874ca9923aab99cf0656d8 SHA256 87dcfa56bc3f3a8f104c7fcf893596d6ab677a982af26651336a7b8854fd31f1
-MD5 6f733ec00f6a44d4d0e8c47297f1b91a ChangeLog 486
-RMD160 7d213d91b90390472c3afbf1a921ccbbfc6111c3 ChangeLog 486
-SHA256 87dcfa56bc3f3a8f104c7fcf893596d6ab677a982af26651336a7b8854fd31f1 ChangeLog 486
-MISC metadata.xml 170 RMD160 645927a396fdc21cdeb089fe42c5397332420ea6 SHA1 ac7f48a14fec325926f9ce1be8fbf1f311b4f2e4 SHA256 d797a2ec6f9dc516c9f9c1a758ee87ad3e8c43101b5dc76c2f872d5bd4639b42
-MD5 1e678929a9fec6632e227bdf2262e9a1 metadata.xml 170
-RMD160 645927a396fdc21cdeb089fe42c5397332420ea6 metadata.xml 170
-SHA256 d797a2ec6f9dc516c9f9c1a758ee87ad3e8c43101b5dc76c2f872d5bd4639b42 metadata.xml 170
-MD5 6031057f170ba3e39d873476919294cf files/digest-glimmerhmm-3.0.1 256
-RMD160 30de1bc3c8be7819528bdbaea8be47a38d92b3a5 files/digest-glimmerhmm-3.0.1 256
-SHA256 a5ceb414b56313f97ef383cc3debda25408bcf877376fc456319a55e6f4f769e files/digest-glimmerhmm-3.0.1 256
diff --git a/sci-biology/glimmerhmm/files/digest-glimmerhmm-3.0.1 b/sci-biology/glimmerhmm/files/digest-glimmerhmm-3.0.1
deleted file mode 100644
index 9ab418485..000000000
--- a/sci-biology/glimmerhmm/files/digest-glimmerhmm-3.0.1
+++ /dev/null
@@ -1,3 +0,0 @@
-MD5 e98e0bad04507b7f661e6b9876c3d1f6 GlimmerHMM-3.0.1.tar.gz 45475952
-RMD160 273cb74458e3f444cd9f8ca9f6618335aea5465f GlimmerHMM-3.0.1.tar.gz 45475952
-SHA256 c956838a398483003ff1af867c65aca082b82340d8b302b9ada77d1b246954e4 GlimmerHMM-3.0.1.tar.gz 45475952
diff --git a/sci-biology/glimmerhmm/glimmerhmm-3.0.1.ebuild b/sci-biology/glimmerhmm/glimmerhmm-3.0.1.ebuild
deleted file mode 100644
index 61f3a2740..000000000
--- a/sci-biology/glimmerhmm/glimmerhmm-3.0.1.ebuild
+++ /dev/null
@@ -1,45 +0,0 @@
-# Copyright 1999-2007 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-# $Header: $
-
-MY_P=GlimmerHMM
-
-DESCRIPTION="An eukaryotic gene finding system from TIGR"
-HOMEPAGE="http://www.cbcb.umd.edu/software/GlimmerHMM/"
-SRC_URI="ftp://ftp.cbcb.umd.edu/pub/software/glimmerhmm/${MY_P}-${PV}.tar.gz"
-
-LICENSE="Artistic"
-SLOT="0"
-IUSE=""
-KEYWORDS="~x86"
-
-DEPEND=""
-RDEPEND=""
-
-S=${WORKDIR}/${MY_P}
-
-src_compile() {
-	sed -i -e 's|\(my $scriptdir=\)$FindBin::Bin|\1"/usr/share/'${PN}'/training_utils"|' \
-		-e 's|\(use lib\) $FindBin::Bin|\1 "/usr/share/'${PN}'/lib"|' train/trainGlimmerHMM || die "sed failed"
-	sed -i 's/^CFLAGS[ ]*=.*//' */makefile
-
-	cd sources
-	emake || die "emake failed in sources"
-	cd "${S}/train" || die "failed to cd"
-	emake || die "emake failed in train"
-}
-
-src_install() {
-	dobin sources/glimmerhmm train/trainGlimmerHMM
-
-	dodir /usr/share/${PN}/{lib,models,training_utils}
-	insinto /usr/share/${PN}/lib
-	doins train/*.pm
-	insinto /usr/share/${PN}/models
-	doins -r trained_dir/*
-	insinto /usr/share/${PN}/training_utils
-	insopts -m755
-	doins train/{build{1,2,-icm,-icm-noframe},erfapp,falsecomp,findsites,karlin,score,score{2,ATG,ATG2,STOP,STOP2},splicescore}
-
-	dodoc README.first train/readme.train
-}
diff --git a/sci-biology/glimmerhmm/metadata.xml b/sci-biology/glimmerhmm/metadata.xml
deleted file mode 100644
index 7e3286984..000000000
--- a/sci-biology/glimmerhmm/metadata.xml
+++ /dev/null
@@ -1,5 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-<herd>maintainer-wanted</herd>
-</pkgmetadata>