commit: 8c781c78ded4e1a70e007beb1f5b82ab863ad6cb
Author: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
AuthorDate: Tue Apr 25 11:29:50 2023 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> gentoo <DOT> org>
CommitDate: Tue Apr 25 11:29:50 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=8c781c78
sci-biology/RSeQC: treeclean, depends on nose
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> gentoo.org>
profiles/package.mask | 4 ----
sci-biology/RSeQC/RSeQC-4.0.0-r1.ebuild | 34 ---------------------------------
sci-biology/RSeQC/metadata.xml | 15 ---------------
3 files changed, 53 deletions(-)
diff --git a/profiles/package.mask b/profiles/package.mask
index acc8c9346..a8da49349 100644
--- a/profiles/package.mask
+++ b/profiles/package.mask
@@ -34,7 +34,3 @@
# Needs bump of PYTHON_COMPAT to at least python3_10
sci-biology/chiron
sci-biology/trans-abyss
-
-# Andrew Ammerlaan <andrewammerl...@gentoo.org) (12 Jan 2023)
-# Depends on dev-python/nose, needs porting to pytest
-sci-biology/RSeQC
diff --git a/sci-biology/RSeQC/RSeQC-4.0.0-r1.ebuild
b/sci-biology/RSeQC/RSeQC-4.0.0-r1.ebuild
deleted file mode 100644
index 9df8930e5..000000000
--- a/sci-biology/RSeQC/RSeQC-4.0.0-r1.ebuild
+++ /dev/null
@@ -1,34 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-PYTHON_COMPAT=( python3_{7,8,9} )
-
-inherit distutils-r1
-
-DESCRIPTION="Utilities for RNA-seq data quality control"
-HOMEPAGE="https://sourceforge.net/projects/rseqc/";
-SRC_URI="https://sourceforge.net/projects/rseqc/files/RSeQC-${PV}.tar.gz
- https://sourceforge.net/projects/rseqc/files/other/fetchChromSizes";
-
-LICENSE="GPL-3"
-SLOT="0"
-KEYWORDS="~amd64"
-
-BDEPEND="
- dev-python/cython[${PYTHON_USEDEP}]
- dev-python/nose[${PYTHON_USEDEP}]
-"
-RDEPEND="
- >=sci-biology/pysam-0.7.5[${PYTHON_USEDEP}]
- sci-biology/bx-python[${PYTHON_USEDEP}]
- dev-python/numpy[${PYTHON_USEDEP}]
- dev-python/pyBigWig[${PYTHON_USEDEP}]
-"
-
-python_prepare_all() {
- distutils-r1_python_prepare_all
- # avoid file collision with bx-python
- rm lib/psyco_full.py || die
-}
diff --git a/sci-biology/RSeQC/metadata.xml b/sci-biology/RSeQC/metadata.xml
deleted file mode 100644
index 5c8442330..000000000
--- a/sci-biology/RSeQC/metadata.xml
+++ /dev/null
@@ -1,15 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd";>
-<pkgmetadata>
- <maintainer type="person">
- <email>mmokr...@fold.natur.cuni.cz</email>
- <name>Martin Mokrejs</name>
- </maintainer>
- <maintainer type="project">
- <email>sci-biol...@gentoo.org</email>
- <name>Gentoo Biology Project</name>
- </maintainer>
- <upstream>
- <remote-id type="sourceforge">rseqc</remote-id>
- </upstream>
-</pkgmetadata>
