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 F08921382FE for ; Tue, 12 Jul 2016 14:52:03 +0000 (UTC) Received: from pigeon.gentoo.org (localhost [127.0.0.1]) by pigeon.gentoo.org (Postfix) with SMTP id 73A3FE0A5F; Tue, 12 Jul 2016 14:52:01 +0000 (UTC) Received: from smtp.gentoo.org (smtp.gentoo.org [140.211.166.183]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by pigeon.gentoo.org (Postfix) with ESMTPS id 159D7E0A5F for ; Tue, 12 Jul 2016 14:52:00 +0000 (UTC) Received: from oystercatcher.gentoo.org (oystercatcher.gentoo.org [148.251.78.52]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by smtp.gentoo.org (Postfix) with ESMTPS id A3244340AC7 for ; Tue, 12 Jul 2016 14:51:58 +0000 (UTC) Received: from localhost.localdomain (localhost [127.0.0.1]) by oystercatcher.gentoo.org (Postfix) with ESMTP id EC3F32416 for ; Tue, 12 Jul 2016 14:51:53 +0000 (UTC) From: "Martin Mokrejs" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Martin Mokrejs" Message-ID: <1468335099.6b020466331bf69a623d04b7f30b7a6b3f78fd50.mmokrejs@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: sci-biology/wgs_tools/ X-VCS-Repository: proj/sci X-VCS-Files: sci-biology/wgs_tools/metadata.xml sci-biology/wgs_tools/wgs_tools-9999.ebuild X-VCS-Directories: sci-biology/wgs_tools/ X-VCS-Committer: mmokrejs X-VCS-Committer-Name: Martin Mokrejs X-VCS-Revision: 6b020466331bf69a623d04b7f30b7a6b3f78fd50 X-VCS-Branch: master Date: Tue, 12 Jul 2016 14:51:53 +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-Archives-Salt: 9cdc7786-0910-4cf8-9dc4-87d0a9487894 X-Archives-Hash: 51fe6ecf3d5364013a7615e66871259f commit: 6b020466331bf69a623d04b7f30b7a6b3f78fd50 Author: Martin Mokrejš fold natur cuni cz> AuthorDate: Tue Jul 12 14:51:39 2016 +0000 Commit: Martin Mokrejs fold natur cuni cz> CommitDate: Tue Jul 12 14:51:39 2016 +0000 URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=6b020466 sci-biology/wgs_tools: add taxonomy-related info to NCBI SRA and BLAST+ Package-Manager: portage-2.2.28 sci-biology/wgs_tools/metadata.xml | 12 ++++++++++ sci-biology/wgs_tools/wgs_tools-9999.ebuild | 36 +++++++++++++++++++++++++++++ 2 files changed, 48 insertions(+) diff --git a/sci-biology/wgs_tools/metadata.xml b/sci-biology/wgs_tools/metadata.xml new file mode 100644 index 0000000..f68a1b6 --- /dev/null +++ b/sci-biology/wgs_tools/metadata.xml @@ -0,0 +1,12 @@ + + + + + mmokrejs@fold.natur.cuni.cz + Martin Mokrejs + + + sci-biology@gentoo.org + Gentoo Biology Project + + diff --git a/sci-biology/wgs_tools/wgs_tools-9999.ebuild b/sci-biology/wgs_tools/wgs_tools-9999.ebuild new file mode 100644 index 0000000..d3c7656 --- /dev/null +++ b/sci-biology/wgs_tools/wgs_tools-9999.ebuild @@ -0,0 +1,36 @@ +# Copyright 1999-2016 Gentoo Foundation +# Distributed under the terms of the GNU General Public License v2 +# $Id$ + +EAPI=5 + +DESCRIPTION="Scripts for ncbi-tools++ and SRA postprocessing using taxonomy" +HOMEPAGE="ftp://ftp.ncbi.nih.gov/blast/WGS_TOOLS + http://www.ncbi.nlm.nih.gov/books/NBK279690/ + http://www.ncbi.nlm.nih.gov/genbank/wgs" +SRC_URI="ftp://ftp.ncbi.nih.gov/blast/WGS_TOOLS/taxid2tsa.pl + ftp://ftp.ncbi.nih.gov/blast/WGS_TOOLS/taxid2wgs.pl" + +LICENSE="all-rights-reserved" +SLOT="0" +KEYWORDS="~amd64 ~x86" +IUSE="" + +DEPEND="" +RDEPEND="${DEPEND} + dev-lang/perl" + +src_install(){ + dobin *.pl + dodoc README* +} + +pkg_postinst(){ + einfo "These scripts are helpful for VDB-enabled blast+ applications" + einfo "and for tools from SRA toolkit sci-biology/sra_sdk or" + einfo "sci-biology/sra_toolkit-bin. They are not added to DEPENDENCIES" + einfo "yet until the packages are stable. Probably you want to download" + einfo "Please read http://www.ncbi.nlm.nih.gov/books/NBK158899/" + einfo "and unpack one of the prebuilt binaries from:" + einfo "https://github.com/ncbi/sra-tools/wiki/Downloads" +}