diff options
| -rw-r--r-- | profiles/package.mask | 5 | ||||
| -rw-r--r-- | sci-biology/diya/Manifest | 1 | ||||
| -rw-r--r-- | sci-biology/diya/diya-1.0_rc4.ebuild | 42 | ||||
| -rw-r--r-- | sci-biology/diya/metadata.xml | 11 |
4 files changed, 0 insertions, 59 deletions
diff --git a/profiles/package.mask b/profiles/package.mask index 7fe45dfde90d..34796fa37a10 100644 --- a/profiles/package.mask +++ b/profiles/package.mask @@ -637,11 +637,6 @@ dev-php/PEAR-Net_LDAP3 # #542940, #574632, #780396, removal in 30 days. sci-biology/gatk -# David Seifert <soap@gentoo.org> (2021-04-05) -# Tests broken since perl 5.22, last release in 2008, -# Bug #625492, removal in 30 days. -sci-biology/diya - # Michał Górny <mgorny@gentoo.org> (2021-03-31) # New versions remove PORTAGE_CONFIGROOT support, breaking a lot # of scripts. diff --git a/sci-biology/diya/Manifest b/sci-biology/diya/Manifest deleted file mode 100644 index 7a98449a5c8d..000000000000 --- a/sci-biology/diya/Manifest +++ /dev/null @@ -1 +0,0 @@ -DIST diya-1.0-rc4.tar.gz 386706 BLAKE2B 9d000892c3da9ec307a8e089056611bc9cd566ac2dea046601506215c1a5c5fb67621324d2d9e1de94ee4e00129325448e3a1a8aa417e5d8c07f564a77e287d6 SHA512 64a00cb7f07200882d0b97f58e6b7f26d08ab0eab43834c3d19ab08f61080f8edb4a63833095e876c72c087324d39b2c4334ed1d3aa0280b7efb6a7ab3e08007 diff --git a/sci-biology/diya/diya-1.0_rc4.ebuild b/sci-biology/diya/diya-1.0_rc4.ebuild deleted file mode 100644 index ae923b60da8d..000000000000 --- a/sci-biology/diya/diya-1.0_rc4.ebuild +++ /dev/null @@ -1,42 +0,0 @@ -# Copyright 1999-2017 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI="5" - -inherit perl-module - -DESCRIPTION="Do It Yourself Annotation, tools & libraries for sequence assembly & annotation" -HOMEPAGE="http://gmod.org/wiki/Diya" -SRC_URI="mirror://sourceforge/diyg/files/diya/diya-1.0/diya-${PV/_/-}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -IUSE="-minimal" -KEYWORDS="~amd64 ~x86" - -DEPEND="sci-biology/bioperl - dev-perl/Data-Utilities - dev-perl/XML-Simple" -RDEPEND="${DEPEND} - !minimal? ( - sci-biology/mummer - sci-biology/glimmer - sci-biology/trnascan-se - sci-biology/infernal )" - -# see ftp://ftp.ncbi.nih.gov/blast/ to check if blast and blast+ are different from ncbi-tools and ncbi-tools++ -# * rfamscan.pl v0.1 (http://www.sanger.ac.uk/Users/sgj/code/) -# * UniRef50 (http://www.ebi.ac.uk/uniref/) -# * Protein Clusters (ftp://ftp.ncbi.nih.gov/genomes/Bacteria/CLUSTERS/) -# The file cddid_all.tbl can be found at ftp://ftp.ncbi.nih.gov/pub/mmdb/cdd/. - -S="${WORKDIR}/diya-${PV/_/-}" - -SRC_TEST=do - -src_install() { - mydoc="INSTALL README docs/diya.html" - perl-module_src_install - insinto /usr/share/${PN} - doins -r diya.conf docs examples scripts -} diff --git a/sci-biology/diya/metadata.xml b/sci-biology/diya/metadata.xml deleted file mode 100644 index 37bde911b940..000000000000 --- a/sci-biology/diya/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@gentoo.org</email> - <name>Gentoo Biology Project</name> - </maintainer> - <upstream> - <remote-id type="sourceforge">diyg</remote-id> - </upstream> -</pkgmetadata> |