From owner-svn-ports-all@freebsd.org Sun Mar 24 21:20:25 2019 Return-Path: Delivered-To: svn-ports-all@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 4C1601544D1C; Sun, 24 Mar 2019 21:20:25 +0000 (UTC) (envelope-from jwb@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 E4429680BB; Sun, 24 Mar 2019 21:20:24 +0000 (UTC) (envelope-from jwb@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 BD85625DD2; Sun, 24 Mar 2019 21:20:24 +0000 (UTC) (envelope-from jwb@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id x2OLKO2e089972; Sun, 24 Mar 2019 21:20:24 GMT (envelope-from jwb@FreeBSD.org) Received: (from jwb@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id x2OLKOCd089970; Sun, 24 Mar 2019 21:20:24 GMT (envelope-from jwb@FreeBSD.org) Message-Id: <201903242120.x2OLKOCd089970@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: jwb set sender to jwb@FreeBSD.org using -f From: "Jason W. Bacon" Date: Sun, 24 Mar 2019 21:20:24 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r496783 - head/biology/py-cutadapt X-SVN-Group: ports-head X-SVN-Commit-Author: jwb X-SVN-Commit-Paths: head/biology/py-cutadapt X-SVN-Commit-Revision: 496783 X-SVN-Commit-Repository: ports MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-Rspamd-Queue-Id: E4429680BB X-Spamd-Bar: -- Authentication-Results: mx1.freebsd.org X-Spamd-Result: default: False [-2.98 / 15.00]; local_wl_from(0.00)[FreeBSD.org]; NEURAL_HAM_MEDIUM(-1.00)[-0.999,0]; NEURAL_HAM_LONG(-1.00)[-1.000,0]; NEURAL_HAM_SHORT(-0.98)[-0.980,0]; ASN(0.00)[asn:11403, ipnet:2610:1c1:1::/48, country:US] X-BeenThere: svn-ports-all@freebsd.org X-Mailman-Version: 2.1.29 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: Sun, 24 Mar 2019 21:20:25 -0000 Author: jwb Date: Sun Mar 24 21:20:24 2019 New Revision: 496783 URL: https://svnweb.freebsd.org/changeset/ports/496783 Log: biology/py-cutadapt: Upgrade to 2.1 Add do-test target Modified: head/biology/py-cutadapt/Makefile head/biology/py-cutadapt/distinfo Modified: head/biology/py-cutadapt/Makefile ============================================================================== --- head/biology/py-cutadapt/Makefile Sun Mar 24 20:53:48 2019 (r496782) +++ head/biology/py-cutadapt/Makefile Sun Mar 24 21:20:24 2019 (r496783) @@ -1,7 +1,7 @@ # $FreeBSD$ PORTNAME= cutadapt -PORTVERSION= 1.18 +DISTVERSION= 2.1 CATEGORIES= biology python MASTER_SITES= CHEESESHOP PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} @@ -12,13 +12,19 @@ COMMENT= Trim adapters from high-throughput sequencing LICENSE= MIT LICENSE_FILE= ${WRKSRC}/LICENSE -RUN_DEPENDS= ${PYTHON_PKGNAMEPREFIX}xopen>=0.3.2:archivers/py-xopen@${PY_FLAVOR} \ - ${PYTHON_PKGNAMEPREFIX}bz2file>=0.98:archivers/py-bz2file@${PY_FLAVOR} +BUILD_DEPENDS= ${PYTHON_PKGNAMEPREFIX}setuptools_scm>0:devel/py-setuptools_scm@${PY_FLAVOR} +RUN_DEPENDS= ${PYTHON_PKGNAMEPREFIX}xopen>=0.5.0:archivers/py-xopen@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}dnaio>=0.3:biology/py-dnaio@${PY_FLAVOR} +TEST_DEPENDS= ${PYTHON_PKGNAMEPREFIX}pytest>0:devel/py-pytest@${PY_FLAVOR} \ + ${PYTHON_PKGNAMEPREFIX}pytest-timeout>0:devel/py-pytest-timeout@${PY_FLAVOR} USES= python:3.4+ -USE_PYTHON= autoplist concurrent distutils +USE_PYTHON= autoplist concurrent cython distutils post-install: @${STRIP_CMD} ${STAGEDIR}${PYTHON_SITELIBDIR}/cutadapt/*.so + +do-test: + @cd ${WRKSRC} && ${PYTHON_CMD} -m pytest .include Modified: head/biology/py-cutadapt/distinfo ============================================================================== --- head/biology/py-cutadapt/distinfo Sun Mar 24 20:53:48 2019 (r496782) +++ head/biology/py-cutadapt/distinfo Sun Mar 24 21:20:24 2019 (r496783) @@ -1,3 +1,3 @@ -TIMESTAMP = 1536508727 -SHA256 (cutadapt-1.18.tar.gz) = 17aabf9b19d09a426d96030a83ad003c97b26dba9d45bf5570d33088fcd533f9 -SIZE (cutadapt-1.18.tar.gz) = 342050 +TIMESTAMP = 1553346146 +SHA256 (cutadapt-2.1.tar.gz) = 09fd222a27cc1eeb571633f2bd54442ea9d4ff668ef1f475fd9d5253a7d315ef +SIZE (cutadapt-2.1.tar.gz) = 264993