From mboxrd@z Thu Jan 1 00:00:00 1970 Return-Path: Received: from lists.gentoo.org (pigeon.gentoo.org [208.92.234.80]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by finch.gentoo.org (Postfix) with ESMTPS id 50BD01382C5 for ; Sun, 3 Jan 2021 06:31:05 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id B630EE0815; Sun, 3 Jan 2021 06:31:03 +0000 (UTC) Received: from smtp.gentoo.org (woodpecker.gentoo.org [IPv6:2001:470:ea4a:1:5054:ff:fec7:86e4]) (using TLSv1.2 with cipher ECDHE-RSA-AES128-GCM-SHA256 (128/128 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 33FC7E0801 for ; Sun, 3 Jan 2021 06:31:03 +0000 (UTC) Received: from oystercatcher.gentoo.org (oystercatcher.gentoo.org [148.251.78.52]) (using TLSv1.2 with cipher ECDHE-RSA-AES128-GCM-SHA256 (128/128 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id EBAC5341000 for ; Sun, 3 Jan 2021 06:31:01 +0000 (UTC) Received: from localhost.localdomain (localhost [IPv6:::1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id 5C15248A for ; Sun, 3 Jan 2021 06:31:00 +0000 (UTC) From: "Horea Christian" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Horea Christian" Message-ID: <1609655130.76926ef29fca81c7d72833654c27f9dccc09358c.chymera@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/deeptools/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/deeptools/deeptools-2.5.0.ebuild sci-biology/deeptools/deeptools-3.5.0.ebuild sci-biology/deeptools/deeptools-9999.ebuild X-VCS-Directories: sci-biology/deeptools/ X-VCS-Committer: chymera X-VCS-Committer-Name: Horea Christian X-VCS-Revision: 76926ef29fca81c7d72833654c27f9dccc09358c X-VCS-Branch: master Date: Sun, 3 Jan 2021 06:31:00 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Auto-Response-Suppress: DR, RN, NRN, OOF, AutoReply X-Archives-Salt: 4392b4cc-e46a-4de8-8097-d05a251a59aa X-Archives-Hash: c69ddec5e86b02af975a31b3e6bb4f8c commit: 76926ef29fca81c7d72833654c27f9dccc09358c Author: Andrew Ammerlaan riseup net> AuthorDate: Sat Jan 2 13:35:22 2021 +0000 Commit: Horea Christian gmail 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 riseup.net> Signed-off-by: Horea Christian 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}"