From owner-svn-ports-all@freebsd.org Sat May 16 02:25:37 2020 Return-Path: Delivered-To: svn-ports-all@mailman.nyi.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2610:1c1:1:606c::19:1]) by mailman.nyi.freebsd.org (Postfix) with ESMTP id 08A352E0C05; Sat, 16 May 2020 02:25:37 +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 TLSv1.3 with cipher TLS_AES_256_GCM_SHA384 (256/256 bits) server-signature RSA-PSS (4096 bits) client-signature RSA-PSS (4096 bits) client-digest SHA256) (Client CN "mxrelay.nyi.freebsd.org", Issuer "Let's Encrypt Authority X3" (verified OK)) by mx1.freebsd.org (Postfix) with ESMTPS id 49P8Jc6Q72z3H2q; Sat, 16 May 2020 02:25:36 +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 D71686880; Sat, 16 May 2020 02:25:36 +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 04G2Pa7d093353; Sat, 16 May 2020 02:25:36 GMT (envelope-from yuri@FreeBSD.org) Received: (from yuri@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id 04G2PaR3093349; Sat, 16 May 2020 02:25:36 GMT (envelope-from yuri@FreeBSD.org) Message-Id: <202005160225.04G2PaR3093349@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: yuri set sender to yuri@FreeBSD.org using -f From: Yuri Victorovich Date: Sat, 16 May 2020 02:25:36 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r535344 - in head/biology: . py-scikit-bio X-SVN-Group: ports-head X-SVN-Commit-Author: yuri X-SVN-Commit-Paths: in head/biology: . py-scikit-bio X-SVN-Commit-Revision: 535344 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-BeenThere: svn-ports-all@freebsd.org X-Mailman-Version: 2.1.33 Precedence: list List-Id: SVN commit messages for the ports tree List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sat, 16 May 2020 02:25:37 -0000 Author: yuri Date: Sat May 16 02:25:35 2020 New Revision: 535344 URL: https://svnweb.freebsd.org/changeset/ports/535344 Log: New port: biology/py-scikit-bio: Data structures, algorithms, educational resources for bioinformatics Added: head/biology/py-scikit-bio/ head/biology/py-scikit-bio/Makefile (contents, props changed) head/biology/py-scikit-bio/distinfo (contents, props changed) head/biology/py-scikit-bio/pkg-descr (contents, props changed) Modified: head/biology/Makefile Modified: head/biology/Makefile ============================================================================== --- head/biology/Makefile Sat May 16 00:40:53 2020 (r535343) +++ head/biology/Makefile Sat May 16 02:25:35 2020 (r535344) @@ -137,6 +137,7 @@ SUBDIR += py-pandas-charm SUBDIR += py-pyfaidx SUBDIR += py-pysam + SUBDIR += py-scikit-bio SUBDIR += py-xenaPython SUBDIR += pyfasta SUBDIR += python-nexus Added: head/biology/py-scikit-bio/Makefile ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-scikit-bio/Makefile Sat May 16 02:25:35 2020 (r535344) @@ -0,0 +1,36 @@ +# $FreeBSD$ + +PORTNAME= scikit-bio +PORTVERSION= 0.5.6 +CATEGORIES= biology python +MASTER_SITES= CHEESESHOP +PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} + +MAINTAINER= yuri@FreeBSD.org +COMMENT= Data structures, algorithms, educational resources for bioinformatics + +LICENSE= BSDCLAUSE +LICENSE_FILE= ${WRKSRC}/COPYING.txt + +BUILD_DEPENDS= ${PYNUMPY} +RUN_DEPENDS= ${PYNUMPY} \ + ${PYTHON_PKGNAMEPREFIX}CacheControl>=0.11.5:www/py-cachecontrol@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}decorator>=3.4.2:devel/py-decorator@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}hdmedians>=0.13:math/py-hdmedians@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}ipython>=3.2.0:devel/ipython@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}lockfile>=0.10.2:devel/py-lockfile@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}matplotlib>=1.4.3:math/py-matplotlib@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}natsort>=4.0.3:devel/py-natsort@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}pandas>=1.0.0:math/py-pandas@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}scikit-learn>=0.19.1:science/py-scikit-learn@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}scipy>0:science/py-scipy@${PY_FLAVOR} + +USES= python:3.5+ +USE_PYTHON= autoplist distutils + +xpost-install: + @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/skbio/alignment/_ssw_wrapper.so + @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/skbio/diversity/_phylogenetic.so + @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/skbio/stats/__subsample.so + +.include Added: head/biology/py-scikit-bio/distinfo ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-scikit-bio/distinfo Sat May 16 02:25:35 2020 (r535344) @@ -0,0 +1,3 @@ +TIMESTAMP = 1589588901 +SHA256 (scikit-bio-0.5.6.tar.gz) = 48b73ec53ce0ff2c2e3e05f3cfcf93527c1525a8d3e9dd4ae317b4219c37f0ea +SIZE (scikit-bio-0.5.6.tar.gz) = 8380439 Added: head/biology/py-scikit-bio/pkg-descr ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/py-scikit-bio/pkg-descr Sat May 16 02:25:35 2020 (r535344) @@ -0,0 +1,4 @@ +scikit-bio is an open-source python package providing data structures, +algorithms, and educational resources for bioinformatics. + +WWW: http://scikit-bio.org/