commit: 34fb671e52382f1d6c2196917dc43014d413ddde Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net> AuthorDate: Mon Jan 4 13:11:07 2021 +0000 Commit: Horea Christian <horea.christ <AT> gmail <DOT> com> CommitDate: Tue Jan 5 06:08:00 2021 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=34fb671e
sci-biology/tigmint: version bump, bump py targets, add keywords 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/tigmint/tigmint-1.1.0.ebuild | 31 ------------------------------- sci-biology/tigmint/tigmint-1.2.1.ebuild | 29 +++++++++++++++++++++++++++++ 2 files changed, 29 insertions(+), 31 deletions(-) diff --git a/sci-biology/tigmint/tigmint-1.1.0.ebuild b/sci-biology/tigmint/tigmint-1.1.0.ebuild deleted file mode 100644 index 7e2d6d143..000000000 --- a/sci-biology/tigmint/tigmint-1.1.0.ebuild +++ /dev/null @@ -1,31 +0,0 @@ -# Copyright 1999-2020 Gentoo Authors -# Distributed under the terms of the GNU General Public License v2 - -EAPI=6 - -DESCRIPTION="Correct misassemblies using linked reads from 10x Genomics Chromium" -HOMEPAGE="https://github.com/bcgsc/tigmint"; -SRC_URI="https://github.com/bcgsc/tigmint/archive/1.1.0.tar.gz -> ${P}.tar.gz" - -LICENSE="GPL-3" -SLOT="0" -KEYWORDS="" -IUSE="" - -DEPEND=" - dev-python/intervaltree - sci-biology/pybedtools - sci-biology/pysam - dev-python/statistics" -RDEPEND="${DEPEND} - sci-biology/bwa - sci-biology/bedtools - sci-biology/samtools:0 - sci-biology/seqtk - dev-util/makefile2graph - media-gfx/graphviz - dev-vcs/git - dev-libs/libxslt - net-misc/curl" -# for full features also sci-biology/abyss should be installed but it addition here -# would create circular dependency diff --git a/sci-biology/tigmint/tigmint-1.2.1.ebuild b/sci-biology/tigmint/tigmint-1.2.1.ebuild new file mode 100644 index 000000000..e2a9c626a --- /dev/null +++ b/sci-biology/tigmint/tigmint-1.2.1.ebuild @@ -0,0 +1,29 @@ +# Copyright 1999-2021 Gentoo Authors +# Distributed under the terms of the GNU General Public License v2 + +EAPI=7 + +PYTHON_COMPAT=( python3_{7,8} ) + +inherit distutils-r1 + +DESCRIPTION="Correct misassemblies using linked reads from 10x Genomics Chromium" +HOMEPAGE="https://github.com/bcgsc/tigmint https://bcgsc.github.io/tigmint/"; +SRC_URI="https://github.com/bcgsc/tigmint/archive/${PV}.tar.gz -> ${P}.tar.gz" + +LICENSE="GPL-3" +SLOT="0" +KEYWORDS="~amd64 ~x86" + +# TODO: fix this +# FileNotFoundError: [Errno 2] No such file or directory +# happens even with --install +RESTRICT="test" + +RDEPEND=" + dev-python/intervaltree[${PYTHON_USEDEP}] + sci-biology/pybedtools[${PYTHON_USEDEP}] + sci-biology/pysam[${PYTHON_USEDEP}] +" + +distutils_enable_tests pytest
