[gentoo-commits] proj/sci:master commit in: profiles/, sci-biology/cgview-bin/

[gentoo-commits] proj/sci:master commit in: profiles/, sci-biology/cgview-bin/

[Andrew Ammerlaan]

commit:     f5bcc5911aea4f5c5cb38e65c8bc1a01fbc6bcf2
Author:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Tue Aug 31 09:19:28 2021 +0000
Commit:     Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue Aug 31 09:19:28 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=f5bcc591

sci-biology/cgview-bin: remove last-rited pack

Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>

 profiles/package.mask                          |  1 -
 sci-biology/cgview-bin/cgview-bin-1.0.0.ebuild | 43 --------------------------
 sci-biology/cgview-bin/metadata.xml            | 12 -------
 3 files changed, 56 deletions(-)

diff --git a/profiles/package.mask b/profiles/package.mask
index a58bd71ee..83a94e897 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -37,7 +37,6 @@
 # Bug #798015, removal in 30 days.
 # Perhaps these packages work with the newer ncbi-tools++? If anyone is actively
 # using these packages please open a bug report
-sci-biology/cgview-bin
 sci-biology/prot4EST
 sci-biology/seqclean
 sci-chemistry/talosn

diff --git a/sci-biology/cgview-bin/cgview-bin-1.0.0.ebuild b/sci-biology/cgview-bin/cgview-bin-1.0.0.ebuild
deleted file mode 100644
index 5135e04ab..000000000
--- a/sci-biology/cgview-bin/cgview-bin-1.0.0.ebuild
+++ /dev/null
@@ -1,43 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-inherit java-pkg-2 perl-module eutils toolchain-funcs
-
-DESCRIPTION="CGView Comparison Tool to compare genome sequences graphically (aka CCT)"
-HOMEPAGE="https://paulstothard.github.io/cgview_comparison_tool/"
-SRC_URI="https://github.com/paulstothard/cgview_comparison_tool/archive/v${PV}.tar.gz -> ${P}.tar.gz"
-
-LICENSE="GPL-2"
-SLOT="0"
-KEYWORDS="~amd64"
-
-DEPEND="
-	>=dev-lang/perl-5.8.8
-	>=sci-biology/ncbi-tools-2.2.15
-	>=virtual/jre-1.4.2:*
-	dev-java/xerces:2
-	dev-java/batik
-	dev-java/commons-lang:2.1
-	>=media-gfx/imagemagick-6
-	>=sci-biology/bioperl-1.4.0"
-RDEPEND="${DEPEND}"
-
-S="${WORKDIR}/cgview_comparison_tool-${PV}"
-
-src_install() {
-	insinto /usr/share/${PN}/scripts
-	chmod a+x scripts/* # BUG: this does not work
-	doins -r scripts/*
-	insinto /usr/share/${PN}/lib/scripts
-	doins -r lib/scripts/*
-	echo 'CCT_HOME='${EPREFIX}'/usr/share/cgview' > "${S}/99cgview"
-	echo 'PATH="$PATH":"'${CCT_HOME}'/scripts"' >> "${S}/99cgview"
-	doenvd "${S}/99cgview"
-	perl_set_version
-	perl_domodule lib/perl_modules/Util/*.pm
-	#
-	# Exception in thread "main" java.lang.NoClassDefFoundError: org/apache/batik/svggen/SVGGraphics2DIOException
-	java-pkg_dojar bin/cgview/cgview.jar
-}

diff --git a/sci-biology/cgview-bin/metadata.xml b/sci-biology/cgview-bin/metadata.xml
deleted file mode 100644
index 138cb7705..000000000
--- a/sci-biology/cgview-bin/metadata.xml
+++ /dev/null
@@ -1,12 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-	<maintainer type="person">
-		<email>mmokrejs@fold.natur.cuni.cz</email>
-		<name>Martin Mokrejs</name>
-	</maintainer>
-	<maintainer type="project">
-		<email>sci-biology@gentoo.org</email>
-		<name>Gentoo Biology Project</name>
-	</maintainer>
-</pkgmetadata>