From owner-svn-ports-head@freebsd.org Thu Jun 14 06:25:23 2018 Return-Path: Delivered-To: svn-ports-head@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id 5F74710053CD; Thu, 14 Jun 2018 06:25:23 +0000 (UTC) (envelope-from yuri@FreeBSD.org) Received: from mxrelay.nyi.freebsd.org (mxrelay.nyi.freebsd.org [IPv6:2610:1c1:1:606c::19:3]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client CN "mxrelay.nyi.freebsd.org", Issuer "Let's Encrypt Authority X3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 0EE5E76B34; Thu, 14 Jun 2018 06:25:23 +0000 (UTC) (envelope-from yuri@FreeBSD.org) Received: from repo.freebsd.org (repo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:0]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mxrelay.nyi.freebsd.org (Postfix) with ESMTPS id E425424B20; Thu, 14 Jun 2018 06:25:22 +0000 (UTC) (envelope-from yuri@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id w5E6PMhc057693; Thu, 14 Jun 2018 06:25:22 GMT (envelope-from yuri@FreeBSD.org) Received: (from yuri@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id w5E6PMav057689; Thu, 14 Jun 2018 06:25:22 GMT (envelope-from yuri@FreeBSD.org) Message-Id: <201806140625.w5E6PMav057689@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: yuri set sender to yuri@FreeBSD.org using -f From: Yuri Victorovich Date: Thu, 14 Jun 2018 06:25:22 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r472358 - in head/biology: . py-orange3-bioinformatics X-SVN-Group: ports-head X-SVN-Commit-Author: yuri X-SVN-Commit-Paths: in head/biology: . py-orange3-bioinformatics X-SVN-Commit-Revision: 472358 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-BeenThere: svn-ports-head@freebsd.org X-Mailman-Version: 2.1.26 Precedence: list List-Id: SVN commit messages for the ports tree for head List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Thu, 14 Jun 2018 06:25:23 -0000 Author: yuri Date: Thu Jun 14 06:25:21 2018 New Revision: 472358 URL: https://svnweb.freebsd.org/changeset/ports/472358 Log: New port: biology/py-orange3-bioinformatics: Orange add-on providing common functionality for bioinformatics Added: head/biology/py-orange3-bioinformatics/ head/biology/py-orange3-bioinformatics/Makefile (contents, props changed) head/biology/py-orange3-bioinformatics/distinfo (contents, props changed) head/biology/py-orange3-bioinformatics/pkg-descr (contents, props changed) Modified: head/biology/Makefile Modified: head/biology/Makefile ============================================================================== --- head/biology/Makefile Thu Jun 14 06:12:35 2018 (r472357) +++ head/biology/Makefile Thu Jun 14 06:25:21 2018 (r472358) @@ -102,6 +102,7 @@ SUBDIR += py-bx-python SUBDIR += py-cutadapt SUBDIR += py-macs2 + SUBDIR += py-orange3-bioinformatics SUBDIR += py-pysam SUBDIR += pycogent SUBDIR += pyfasta Added: head/biology/py-orange3-bioinformatics/Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-orange3-bioinformatics/Makefile Thu Jun 14 06:25:21 2018 (r472358) @@ -0,0 +1,26 @@ +# $FreeBSD$ + +PORTNAME= orange3-bioinformatics +DISTVERSION= 3.1.0 +CATEGORIES= biology python +PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} + +MAINTAINER= yuri@FreeBSD.org +COMMENT= Orange add-on providing common functionality for bioinformatics + +LICENSE= GPLv3 +LICENSE_FILE= ${WRKSRC}/LICENSE + +RUN_DEPENDS= orange3>0:misc/orange3 \ + ${PYTHON_PKGNAMEPREFIX}Genesis-PyAPI>0:biology/py-Genesis-PyAPI@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}requests>0:www/py-requests@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}requests-cache>0:www/py-requests-cache@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}serverfiles>0:misc/py-serverfiles@${PY_FLAVOR} + +USES= python:3.4+ +USE_GITHUB= yes +GH_ACCOUNT= biolab +USE_PYTHON= distutils autoplist +NO_ARCH= yes + +.include Added: head/biology/py-orange3-bioinformatics/distinfo ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-orange3-bioinformatics/distinfo Thu Jun 14 06:25:21 2018 (r472358) @@ -0,0 +1,3 @@ +TIMESTAMP = 1528854565 +SHA256 (biolab-orange3-bioinformatics-3.1.0_GH0.tar.gz) = fee8c31b1099fe076c4401951f0813a1e56bbeeae8c9a5c15e78c11cfbf29e4b +SIZE (biolab-orange3-bioinformatics-3.1.0_GH0.tar.gz) = 1969698 Added: head/biology/py-orange3-bioinformatics/pkg-descr ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-orange3-bioinformatics/pkg-descr Thu Jun 14 06:25:21 2018 (r472358) @@ -0,0 +1,11 @@ +Orange Bioinformatics extends Orange, a data mining software package, with +common functionality for bioinformatics. The provided functionality can be +accessed as a Python library or through a visual programming interface (Orange +Canvas). The latter is also suitable for non-programmers. + +Orange Bioinformatics provides access to publicly available data, like GEO data +sets, GO and KEGG. All features can be combined with powerful visualization, +network exploration and data mining techniques from the Orange data mining +framework. + +WWW: https://github.com/biolab/orange3-bioinformatics