commit: a47e7c6629898c630edc013392245b5613fbdeeb Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> AuthorDate: Mon Jan 4 12:12:49 2021 +0000 Commit: Horea Christian <horea.christ <AT> gmail <DOT> com> CommitDate: Tue Jan 5 06:07:59 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=a47e7c66
sci-biology/barnacle: remove package, py2 only, does not compile This is broken beyond repair, it is not compatible with py3. I tried to save it with DISTUTILS_USE_SETUPTOOLS="no" but it does not compile: EOFError: EOF when reading a line We could patch it, but IMO it is not worth the effort upstream is dead since 2016. Package-Manager: Portage-3.0.12, Repoman-3.0.2 Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net> Signed-off-by: Horea Christian <chr <AT> chymera.eu> sci-biology/barnacle/barnacle-1.0.4.ebuild | 39 ------------------------------ sci-biology/barnacle/metadata.xml | 12 --------- 2 files changed, 51 deletions(-) diff --git a/sci-biology/barnacle/barnacle-1.0.4.ebuild b/sci-biology/barnacle/barnacle-1.0.4.ebuild deleted file mode 100644 index 970f127fd..000000000 --- a/sci-biology/barnacle/barnacle-1.0.4.ebuild +++ /dev/null @@ -1,39 +0,0 @@ -# Copyright 1999-2016 Gentoo Foundation -# Distributed under the terms of the GNU General Public License v2 - -EAPI=5 - -PYTHON_COMPAT=( python2_7 ) - -inherit distutils-r1 - -DESCRIPTION="Check de novo assembly for chimeric contigs/transcripts" -HOMEPAGE="http://www.bcgsc.ca/platform/bioinfo/software/barnacle"; -#SRC_URI="http://www.bcgsc.ca/platform/bioinfo/software/barnacle/releases/1.0.0/"${P}".tar.gz"; -SRC_URI="http://www.bcgsc.ca/platform/bioinfo/software/barnacle/releases/${PV}/${P}.tar.gz"; -# ftp://ftp.bcgsc.ca/supplementary/Barnacle_BMC_Genomics/aml_data.tar.gz -# http://www.bcgsc.ca/platform/bioinfo/software/barnacle/releases/1.0.3 - -LICENSE="bcca_2010" -SLOT="0" -KEYWORDS="" -IUSE="" - -DEPEND="" -RDEPEND="${DEPEND}" - -S="${S}" - -# follow README.txt -src_compile(){ - cd src || die - # Run setup.py to compile the portions of Barnacle that require compilation, and download and setup the default annotations - touch alignment_processing/gap_realigner_cluster || die # prevent compilation on a cluster - ./setup.py localhost || die -} - -src_install(){ - dodoc README.txt - cd src || die - # do something -} diff --git a/sci-biology/barnacle/metadata.xml b/sci-biology/barnacle/metadata.xml deleted file mode 100644 index 138cb7705..000000000 --- a/sci-biology/barnacle/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>[email protected]</email> - <name>Martin Mokrejs</name> - </maintainer> - <maintainer type="project"> - <email>[email protected]</email> - <name>Gentoo Biology Project</name> - </maintainer> -</pkgmetadata>
