[gentoo-commits] proj/sci:master commit in: sci-biology/deeptools/

[Horea Christian]

commit:     76926ef29fca81c7d72833654c27f9dccc09358c
Author:     Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Jan  2 13:35:22 2021 +0000
Commit:     Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sun Jan  3 06:25:30 2021 +0000
URL:        https://gitweb.gentoo.org/proj/sci.git/commit/?id=76926ef2

sci-biology/deeptools: version bump, bump py targets, enable sphinx

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/deeptools/deeptools-2.5.0.ebuild | 30 -----------------------
 sci-biology/deeptools/deeptools-3.5.0.ebuild | 36 ++++++++++++++++++++++++++++
 sci-biology/deeptools/deeptools-9999.ebuild  | 29 ----------------------
 3 files changed, 36 insertions(+), 59 deletions(-)

diff --git a/sci-biology/deeptools/deeptools-2.5.0.ebuild b/sci-biology/deeptools/deeptools-2.5.0.ebuild
deleted file mode 100644
index e57fe3313..000000000
--- a/sci-biology/deeptools/deeptools-2.5.0.ebuild
+++ /dev/null
@@ -1,30 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-PYTHON_COMPAT=( python2_7 python3_5 )
-
-inherit distutils-r1
-
-[[ "$PV" == "9999" ]] && inherit git-r3
-
-DESCRIPTION="Extract reads from BAM files, normalize, draw figures, convert BAM to bigWig"
-HOMEPAGE="https://github.com/fidelram/deepTools"
-if [[ "$PV" == "9999" ]]; then
-	EGIT_REPO_URI="https://github.com/fidelram/deepTools"
-else
-	SRC_URI="https://github.com/fidelram/deepTools/archive/2.5.0.tar.gz -> ${P}.tar.gz"
-fi
-
-LICENSE="GPL-3"
-SLOT="0"
-KEYWORDS="~amd64"
-
-DEPEND=">=dev-python/numpy-1.8.0
-		>=dev-python/scipy-0.17.0
-		>=dev-python/py2bit-0.1.0
-		>=dev-python/pyBigWig-0.2.1
-		>=sci-biology/pysam-0.8
-		>=dev-python/matplotlib-1.4.0"
-RDEPEND="${DEPEND}"

diff --git a/sci-biology/deeptools/deeptools-3.5.0.ebuild b/sci-biology/deeptools/deeptools-3.5.0.ebuild
new file mode 100644
index 000000000..f53a19bcb
--- /dev/null
+++ b/sci-biology/deeptools/deeptools-3.5.0.ebuild
@@ -0,0 +1,36 @@
+# 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="Extract reads from BAM files, normalize, draw figures, convert BAM to bigWig"
+HOMEPAGE="https://github.com/deeptools/deepTools"
+SRC_URI="https://github.com/deeptools/deepTools/archive/${PV}.tar.gz -> ${P}.tar.gz"
+
+LICENSE="BSD"
+SLOT="0"
+KEYWORDS="~amd64 ~x86"
+
+# TODO: fix this
+RESTRICT="test"
+
+RDEPEND="
+	>=sci-biology/deeptools-intervals-0.1.8[${PYTHON_USEDEP}]
+	>=dev-python/numpy-1.9.0[${PYTHON_USEDEP}]
+	>=dev-python/numpydoc-0.5[${PYTHON_USEDEP}]
+	>=dev-python/scipy-0.17.0[${PYTHON_USEDEP}]
+	>=dev-python/plotly-2.0.0[${PYTHON_USEDEP}]
+	>=dev-python/py2bit-0.2.0[${PYTHON_USEDEP}]
+	>=dev-python/pyBigWig-0.2.1[${PYTHON_USEDEP}]
+	>=sci-biology/pysam-0.14.0[${PYTHON_USEDEP}]
+	>=dev-python/matplotlib-3.1.0[${PYTHON_USEDEP}]
+"
+
+S="${WORKDIR}/deepTools-${PV}"
+
+distutils_enable_sphinx docs dev-python/sphinx_rtd_theme dev-python/sphinx-argparse
+distutils_enable_tests nose

diff --git a/sci-biology/deeptools/deeptools-9999.ebuild b/sci-biology/deeptools/deeptools-9999.ebuild
deleted file mode 100644
index 89a8bf763..000000000
--- a/sci-biology/deeptools/deeptools-9999.ebuild
+++ /dev/null
@@ -1,29 +0,0 @@
-# Copyright 1999-2020 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=7
-
-PYTHON_COMPAT=( python2_7 python3_5 )
-
-inherit distutils-r1
-
-[[ "$PV" == "9999" ]] && inherit git-r3
-
-DESCRIPTION="Extract reads from BAM files, normalize, draw figures, convert BAM to bigWig"
-HOMEPAGE="https://github.com/fidelram/deepTools"
-if [[ "$PV" == "9999" ]]; then
-	EGIT_REPO_URI="https://github.com/fidelram/deepTools"
-else
-	SRC_URI="https://github.com/fidelram/deepTools/archive/2.5.0.tar.gz -> ${P}.tar.gz"
-fi
-
-LICENSE="GPL-3"
-SLOT="0"
-
-DEPEND=">=dev-python/numpy-1.8.0
-		>=dev-python/scipy-0.17.0
-		>=dev-python/py2bit-0.1.0
-		>=dev-python/pyBigWig-0.2.1
-		>=sci-biology/pysam-0.8
-		>=dev-python/matplotlib-1.4.0"
-RDEPEND="${DEPEND}"