From owner-svn-ports-head@freebsd.org Tue Jan 12 18:12:13 2021 Return-Path: Delivered-To: svn-ports-head@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 B64094E1A1D; Tue, 12 Jan 2021 18:12:13 +0000 (UTC) (envelope-from jrm@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) key-exchange X25519 server-signature RSA-PSS (4096 bits) server-digest SHA256 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 4DFdvd4rpjz4SDD; Tue, 12 Jan 2021 18:12:13 +0000 (UTC) (envelope-from jrm@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 99E2E1356; Tue, 12 Jan 2021 18:12:13 +0000 (UTC) (envelope-from jrm@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id 10CICD89085597; Tue, 12 Jan 2021 18:12:13 GMT (envelope-from jrm@FreeBSD.org) Received: (from jrm@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id 10CICDiI085595; Tue, 12 Jan 2021 18:12:13 GMT (envelope-from jrm@FreeBSD.org) Message-Id: <202101121812.10CICDiI085595@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: jrm set sender to jrm@FreeBSD.org using -f From: Joseph Mingrone Date: Tue, 12 Jan 2021 18:12:13 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r561368 - in head/biology/iqtree: . files X-SVN-Group: ports-head X-SVN-Commit-Author: jrm X-SVN-Commit-Paths: in head/biology/iqtree: . files X-SVN-Commit-Revision: 561368 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: 2.1.34 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: Tue, 12 Jan 2021 18:12:13 -0000 Author: jrm Date: Tue Jan 12 18:12:12 2021 New Revision: 561368 URL: https://svnweb.freebsd.org/changeset/ports/561368 Log: biology/iqtree: Remove USES=compiler:openmp, fix amd64 clang++ build - USES=compiler:openmp still forces building with GCC. This is no longer necessary on tier 1 platforms, which have openmp in base. - Mark broken on i386, because base clang doesn't have 64 bit atomic functions for i386 (see bug 230888). PR: 247753, 252379 Submitted by: cmt (based on) Added: head/biology/iqtree/files/ head/biology/iqtree/files/patch-CMakeLists.txt (contents, props changed) Modified: head/biology/iqtree/Makefile (contents, props changed) Modified: head/biology/iqtree/Makefile ============================================================================== --- head/biology/iqtree/Makefile Tue Jan 12 18:11:15 2021 (r561367) +++ head/biology/iqtree/Makefile Tue Jan 12 18:12:12 2021 (r561368) @@ -3,7 +3,7 @@ PORTNAME= iqtree DISTVERSIONPREFIX= v DISTVERSION= 2.0.6 -PORTREVISION= 1 +PORTREVISION= 2 CATEGORIES= biology MAINTAINER= jrm@FreeBSD.org @@ -15,11 +15,12 @@ LICENSE_FILE= ${WRKSRC}/LICENSE BROKEN_aarch64= fails to compile: unrecognized command line option '-msse3' BROKEN_armv6= fails to compile: unrecognized command line options '-m32' and '-msse3' BROKEN_armv7= fails to compile: unrecognized command line options '-m32' and '-msse3' +BROKEN_i386= ld: error: unable to find library -latomic (see bug 230888) BROKEN_powerpc64= fails to build: GCC version must be at least 4.8! LIB_DEPENDS= libboost_filesystem.so:devel/boost-libs -USES= cmake compiler:openmp eigen:3 +USES= cmake compiler:c++11-lang eigen:3 USE_GITHUB= yes GH_ACCOUNT= Cibiv GH_PROJECT= IQ-TREE Added: head/biology/iqtree/files/patch-CMakeLists.txt ============================================================================== --- /dev/null 00:00:00 1970 (empty, because file is newly added) +++ head/biology/iqtree/files/patch-CMakeLists.txt Tue Jan 12 18:12:12 2021 (r561368) @@ -0,0 +1,11 @@ +--- CMakeLists.txt.orig 2021-01-11 20:50:45 UTC ++++ CMakeLists.txt +@@ -323,7 +323,7 @@ if (NOT IQTREE_FLAGS MATCHES "single") + + if(CLANG AND APPLE) + link_directories(${PROJECT_SOURCE_DIR}/libmac) +- elseif (WIN32 OR UNIX) ++ elseif (WIN32 OR UNIX AND NOT ${CMAKE_SYSTEM_NAME} STREQUAL "FreeBSD") + if (BINARY32) + link_directories(${PROJECT_SOURCE_DIR}/lib32) + else()