[gentoo-commits] repo/gentoo:master commit in: sci-biology/goby/, profiles/

[Michał Górny]

commit:     005583210c185b0bc46ebde8c249446ef2e8ae13
Author:     Michał Górny <mgorny <AT> gentoo <DOT> org>
AuthorDate: Sat Sep 14 15:38:33 2019 +0000
Commit:     Michał Górny <mgorny <AT> gentoo <DOT> org>
CommitDate: Sat Sep 14 15:38:33 2019 +0000
URL:        https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=00558321

sci-biology/goby: Remove last-rited pkg

Signed-off-by: Michał Górny <mgorny <AT> gentoo.org>

 profiles/package.mask                   |  1 -
 sci-biology/goby/Manifest               |  4 ---
 sci-biology/goby/goby-1.9.7.3-r1.ebuild | 56 ---------------------------------
 sci-biology/goby/goby-1.9.8.1-r1.ebuild | 56 ---------------------------------
 sci-biology/goby/metadata.xml           | 11 -------
 5 files changed, 128 deletions(-)

diff --git a/profiles/package.mask b/profiles/package.mask
index 556f5aa5cc9..888c7cf473e 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -1133,7 +1133,6 @@ sys-apps/lomoco
 dev-java/xstream
 dev-java/jsap
 net-misc/java-wakeonlan
-sci-biology/goby
 
 # Mike Gilbert <floppym@g.o> (2019-08-13)
 # Dev channel releases are only for people who

diff --git a/sci-biology/goby/Manifest b/sci-biology/goby/Manifest
deleted file mode 100644
index bb8c3da137f..00000000000
--- a/sci-biology/goby/Manifest
+++ /dev/null
@@ -1,4 +0,0 @@
-DIST goby_1.9.7.3-deps.zip 19959489 BLAKE2B 75280cdbb24c29b8ed5ca88ca03d40578b90944078f02cfddd99b14951d0411254e6dc5c863b6b770b2c74eafc0409776715d0c8396ba1a5cc98ecf3cebe0f2c SHA512 a077e18d6bb7603522108de2b3c50d1b7a281c9e1a8d5d78c85b660285d743baf7b52ceaea44903a5a27adfa80ea5823d5aaa47a3f2ec426e7ddb17fd67a477d
-DIST goby_1.9.7.3-src.zip 15642000 BLAKE2B 4df4788104639a80810314793b935ef0c6931c09d4e87a65a9ffb33e9e22bbe4106d2f323c8726db1b08cbc56a5ddf1ac09f3a21060e0ba8e0a3f7418cba1168 SHA512 f213908e745e6c6d86895412f3ad14a8e0f2f3fbaba9205bffd7415982fc53181ca0b03b543063d0cbcd87f881d1b58eedb38a5090fa7ac20bdc513e54f83dd5
-DIST goby_1.9.8.1-deps.zip 20820943 BLAKE2B ad4173f42cdf66e9849e0e76fda37a22c9591c57004873f42320bf408a0cb5c0217b23deb3114e3dacdc1ea53e5f2717c8a640dc68b34db4c47f299d6e9dffac SHA512 16cf79e2dab8cfc62f9d012b88b0d81e712e67cf2f70582969624a019863f21ee20a4ce0517d5b74782d8d200318451e3f889fb967c6935e896d526d2a6fc02e
-DIST goby_1.9.8.1-src.zip 15748880 BLAKE2B 06fda375ff926137c6abc18b8b388e3d49731600f98fe1c23e6607a0ff0ef4c818acec356e86eacb6b20d2e9600e0ee7a9b5770e524c1b30266cc4a3c9b5bbee SHA512 68e772f1a60d1c78d2b08ee203f462e6ac19a46124d25ac1bd7c69065d8122ce6dbfbd3cc6aa287b13b11d5442e9b41609463a8391ffe037249655a212284ff0

diff --git a/sci-biology/goby/goby-1.9.7.3-r1.ebuild b/sci-biology/goby/goby-1.9.7.3-r1.ebuild
deleted file mode 100644
index 9cab1b56d54..00000000000
--- a/sci-biology/goby/goby-1.9.7.3-r1.ebuild
+++ /dev/null
@@ -1,56 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=4
-
-ESVN_REPO_URI="https://pbtech-vc.med.cornell.edu/public/svn/icb/trunk/goby"
-EANT_GENTOO_CLASSPATH="commons-logging,commons-lang-2.1,commons-io-1,protobuf-java,fastutil,log4j,jsap,commons-configuration,commons-math-2"
-EANT_GENTOO_CLASSPATH_EXTRA="lib/icb-utils.jar:lib/edu.mssm.crover.cli.jar:lib/JRI.jar:lib/dsiutils-1.0.12.jar"
-
-JAVA_ANT_REWRITE_CLASSPATH="true"
-
-#inherit java-pkg-2 java-ant-2 subversion
-inherit java-pkg-2 java-ant-2
-
-MY_P="${PN}_${PV}"
-
-DESCRIPTION="A DNA sequencing data management framework"
-HOMEPAGE="http://campagnelab.org/software/goby/"
-SRC_URI="http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-src.zip
-	http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-deps.zip"
-
-LICENSE="GPL-3 LGPL-3"
-SLOT="0"
-IUSE="+cpp"
-KEYWORDS="~amd64 ~x86"
-
-COMMON_DEPS="dev-java/commons-logging
-	dev-java/commons-lang:2.1
-	dev-java/commons-io:1
-	dev-java/protobuf-java:0
-	dev-java/fastutil:0
-	dev-java/log4j
-	dev-java/jsap
-	dev-java/commons-configuration
-	dev-java/commons-math:2"
-DEPEND=">=virtual/jdk-1.6
-	${COMMON_DEPS}"
-RDEPEND=">=virtual/jre-1.6
-	${COMMON_DEPS}
-	cpp? ( ~sci-biology/goby-cpp-${PV} )"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
-	sed -i '/sge/ d' build.xml || die
-	java-pkg-2_src_prepare
-}
-
-src_install() {
-	java-pkg_dojar goby*.jar
-	java-pkg_dolauncher goby --jar goby.jar
-
-	insinto /usr/share/${PN}
-	doins -r python
-	dodoc CHANGES.txt
-}

diff --git a/sci-biology/goby/goby-1.9.8.1-r1.ebuild b/sci-biology/goby/goby-1.9.8.1-r1.ebuild
deleted file mode 100644
index 9cab1b56d54..00000000000
--- a/sci-biology/goby/goby-1.9.8.1-r1.ebuild
+++ /dev/null
@@ -1,56 +0,0 @@
-# Copyright 1999-2017 Gentoo Foundation
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=4
-
-ESVN_REPO_URI="https://pbtech-vc.med.cornell.edu/public/svn/icb/trunk/goby"
-EANT_GENTOO_CLASSPATH="commons-logging,commons-lang-2.1,commons-io-1,protobuf-java,fastutil,log4j,jsap,commons-configuration,commons-math-2"
-EANT_GENTOO_CLASSPATH_EXTRA="lib/icb-utils.jar:lib/edu.mssm.crover.cli.jar:lib/JRI.jar:lib/dsiutils-1.0.12.jar"
-
-JAVA_ANT_REWRITE_CLASSPATH="true"
-
-#inherit java-pkg-2 java-ant-2 subversion
-inherit java-pkg-2 java-ant-2
-
-MY_P="${PN}_${PV}"
-
-DESCRIPTION="A DNA sequencing data management framework"
-HOMEPAGE="http://campagnelab.org/software/goby/"
-SRC_URI="http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-src.zip
-	http://chagall.med.cornell.edu/goby/releases/archive/release-${MY_P}/${MY_P}-deps.zip"
-
-LICENSE="GPL-3 LGPL-3"
-SLOT="0"
-IUSE="+cpp"
-KEYWORDS="~amd64 ~x86"
-
-COMMON_DEPS="dev-java/commons-logging
-	dev-java/commons-lang:2.1
-	dev-java/commons-io:1
-	dev-java/protobuf-java:0
-	dev-java/fastutil:0
-	dev-java/log4j
-	dev-java/jsap
-	dev-java/commons-configuration
-	dev-java/commons-math:2"
-DEPEND=">=virtual/jdk-1.6
-	${COMMON_DEPS}"
-RDEPEND=">=virtual/jre-1.6
-	${COMMON_DEPS}
-	cpp? ( ~sci-biology/goby-cpp-${PV} )"
-
-S="${WORKDIR}/${MY_P}"
-
-src_prepare() {
-	sed -i '/sge/ d' build.xml || die
-	java-pkg-2_src_prepare
-}
-
-src_install() {
-	java-pkg_dojar goby*.jar
-	java-pkg_dolauncher goby --jar goby.jar
-
-	insinto /usr/share/${PN}
-	doins -r python
-	dodoc CHANGES.txt
-}

diff --git a/sci-biology/goby/metadata.xml b/sci-biology/goby/metadata.xml
deleted file mode 100644
index a1e19f7893c..00000000000
--- a/sci-biology/goby/metadata.xml
+++ /dev/null
@@ -1,11 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
-<pkgmetadata>
-  <maintainer type="project">
-    <email>sci-biology@g.o</email>
-    <name>Gentoo Biology Project</name>
-  </maintainer>
-  <use>
-    <flag name="cpp">Compile C/C++ API</flag>
-  </use>
-</pkgmetadata>