[gentoo-commits] proj/sci:master commit in: sci-biology/RSeQC/, profiles/

[gentoo-commits] proj/sci:master commit in: sci-biology/RSeQC/, profiles/

[Andrew Ammerlaan]

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 <andrewammerlaan@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>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>
-	<upstream>
-		<remote-id type="sourceforge">rseqc</remote-id>
-	</upstream>
-</pkgmetadata>