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| author |   Andrew Ammerlaan <andrewammerlaan@gentoo.org> | 2022-01-23 13:55:20 +0100 |
|---|---|---|
| committer | Andrew Ammerlaan <andrewammerlaan@gentoo.org> | 2022-01-23 13:55:20 +0100 |
| commit | d0fcff8a955005d6edf20a3e019ab83d0f0a7864 (patch) | |
| tree | bd7af5e61196f11c634b818f26125c23c48e7b6d | |
| parent | sci-biology/cramtools: remove old java package (diff) | |
| download | sci-d0fcff8a955005d6edf20a3e019ab83d0f0a7864.tar.gz sci-d0fcff8a955005d6edf20a3e019ab83d0f0a7864.tar.bz2 sci-d0fcff8a955005d6edf20a3e019ab83d0f0a7864.zip | |
sci-biology/cramtools: remove old java package
Signed-off-by: Andrew Ammerlaan <andrewammerlaan@gentoo.org>
| -rw-r--r-- | profiles/package.mask | 1 | ||||
| -rw-r--r-- | sci-biology/pilon-bin/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/pilon-bin/metadata.xml | 12 | ||||
| -rw-r--r-- | sci-biology/pilon-bin/pilon-bin-1.24.ebuild | 29 |
4 files changed, 0 insertions, 43 deletions
diff --git a/profiles/package.mask b/profiles/package.mask index 275d7f3fc..1440925e0 100644 --- a/profiles/package.mask +++ b/profiles/package.mask @@ -56,7 +56,6 @@ sci-biology/conrad sci-libs/jhdf5 # ancient java, can't update due to gradle/maven limitation dev-java/htsjdk -sci-biology/pilon-bin sci-misc/opennlp-maxent # Andrew Ammerlaan <andrewammerlaan@gentoo.org (13 Jan 2022) diff --git a/sci-biology/pilon-bin/Manifest b/sci-biology/pilon-bin/Manifest deleted file mode 100644 index 3f3de6bcc..000000000 --- a/sci-biology/pilon-bin/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST pilon-1.24.jar 11034933 BLAKE2B 7c97c8e30a05ad56c8d2830e414c285eb086bc3ccb51ab10af33fe53771287b4c99880930484fe7574dd1f57df5c003af3ceb98b9026d842ee447aecaacb78f8 SHA512 48d3688059f0bcb2055fd9291cd36d282733724f68832633ffc08adb883af4b3146759bb2b13d99f0695b11f283d3bb89a2f8ff18102b1a125e38fb2de0f5461 diff --git a/sci-biology/pilon-bin/metadata.xml b/sci-biology/pilon-bin/metadata.xml deleted file mode 100644 index 138cb7705..000000000 --- a/sci-biology/pilon-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> diff --git a/sci-biology/pilon-bin/pilon-bin-1.24.ebuild b/sci-biology/pilon-bin/pilon-bin-1.24.ebuild deleted file mode 100644 index 49d15366f..000000000 --- a/sci-biology/pilon-bin/pilon-bin-1.24.ebuild +++ /dev/null @@ -1,29 +0,0 @@ -# Copyright 1999-2021 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=7 - -inherit java-pkg-2 - -DESCRIPTION="Fix assembled reference using BAM-aligned reads, call SNPs" -HOMEPAGE=" - https://github.com/broadinstitute/pilon - https://github.com/broadinstitute/pilon/wiki" -SRC_URI="https://github.com/broadinstitute/pilon/releases/download/v${PV}/pilon-${PV}.jar" - -LICENSE="GPL-2" -SLOT="0" -KEYWORDS="~amd64" - -# contains bundled sbt-assembly module -DEPEND=">=virtual/jdk-1.7:*" -RDEPEND="${DEPEND} - >=virtual/jre-1.7:* - >=dev-java/htsjdk-1.130" - -S="${WORKDIR}" - -src_install(){ - cp -p "${DISTDIR}"/pilon-${PV}.jar . || die - java-pkg_dojar pilon-${PV}.jar -} |