From owner-freebsd-pkg-fallout@freebsd.org Tue Mar 29 08:39:02 2016 Return-Path: Delivered-To: freebsd-pkg-fallout@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id BDF61AE1571 for ; Tue, 29 Mar 2016 08:39:02 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from mailman.ysv.freebsd.org (unknown [127.0.1.3]) by mx1.freebsd.org (Postfix) with ESMTP id AD72112BE for ; Tue, 29 Mar 2016 08:39:02 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: by mailman.ysv.freebsd.org (Postfix) id A9517AE1570; Tue, 29 Mar 2016 08:39:02 +0000 (UTC) Delivered-To: pkg-fallout@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id A6A3AAE156F for ; Tue, 29 Mar 2016 08:39:02 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy8.nyi.freebsd.org (beefy8.nyi.freebsd.org [IPv6:2610:1c1:1:6080::16:eb]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mx1.freebsd.org (Postfix) with ESMTPS id 726B212BD for ; Tue, 29 Mar 2016 08:39:02 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy8.nyi.freebsd.org (localhost [127.0.0.1]) by beefy8.nyi.freebsd.org (8.15.2/8.15.2) with ESMTP id u2T8d1LY045692 for ; Tue, 29 Mar 2016 08:39:01 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy8.nyi.freebsd.org (8.15.2/8.15.2/Submit) id u2T8d1QQ045691; Tue, 29 Mar 2016 08:39:01 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Tue, 29 Mar 2016 08:39:01 GMT From: pkg-fallout@FreeBSD.org Message-Id: <201603290839.u2T8d1QQ045691@beefy8.nyi.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [package - head-armv6-default][biology/avida] Failed for avida-2.12.4 in build X-BeenThere: freebsd-pkg-fallout@freebsd.org X-Mailman-Version: 2.1.21 Precedence: list List-Id: Fallout logs from package building List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Tue, 29 Mar 2016 08:39:02 -0000 You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: ports@FreeBSD.org Last committer: swills@FreeBSD.org Ident: $FreeBSD: head/biology/avida/Makefile 403676 2015-12-13 16:07:27Z swills $ Log URL: http://beefy8.nyi.freebsd.org/data/head-armv6-default/p411721_s297210/logs/avida-2.12.4.log Build URL: http://beefy8.nyi.freebsd.org/build.html?mastername=head-armv6-default&build=p411721_s297210 Log: ====>> Building biology/avida build started at Tue Mar 29 08:37:56 UTC 2016 port directory: /usr/ports/biology/avida building for: FreeBSD head-armv6-default-job-01 11.0-CURRENT FreeBSD 11.0-CURRENT r297210 arm maintained by: ports@FreeBSD.org Makefile ident: $FreeBSD: head/biology/avida/Makefile 403676 2015-12-13 16:07:27Z swills $ Poudriere version: 3.1.12 Host OSVERSION: 1100100 Jail OSVERSION: 1100104 !!! Jail is newer than host. (Jail: 1100104, Host: 1100100) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/csh UNAME_p=armv6 UNAME_m=arm ABI_FILE=/usr/lib/crt1.o UNAME_v=FreeBSD 11.0-CURRENT r297210 UNAME_r=11.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 OPSYS=FreeBSD ARCH=armv6 LINUX_OSRELEASE=2.6.32 SAVED_TERM=screen QEMU_EMULATING=1 MASTERMNT=/usr/local/poudriere/data/.m/head-armv6-default/ref UID=0 PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin _JAVA_VERSION_LIST_REGEXP=1.6\|1.7\|1.8\|1.6+\|1.7+\|1.8+ POUDRIERE_BUILD_TYPE=bulk PKGNAME=avida-2.12.4 OSREL=11.0 _OSRELEASE=11.0-CURRENT PYTHONBASE=/usr/local OLDPWD=/ _SMP_CPUS=24 PWD=/usr/local/poudriere/data/.m/head-armv6-default/ref/.p/pool MASTERNAME=head-armv6-default SCRIPTPREFIX=/usr/local/share/poudriere _JAVA_VENDOR_LIST_REGEXP=openjdk\|oracle\|sun USER=root HOME=/root POUDRIERE_VERSION=3.1.12 SCRIPTPATH=/usr/local/share/poudriere/bulk.sh CONFIGURE_MAX_CMD_LEN=262144 LIBEXECPREFIX=/usr/local/libexec/poudriere LOCALBASE=/usr/local PACKAGE_BUILDING=yes _JAVA_OS_LIST_REGEXP=native\|linux OSVERSION=1100104 ---End Environment--- ---Begin OPTIONS List--- ===> The following configuration options are available for avida-2.12.4: DOCS=on: Build and/or install documentation ===> Use 'make config' to modify these settings ---End OPTIONS List--- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/avida/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/avida/work HOME=/wrkdirs/usr/ports/biology/avida/work TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/avida/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/avida/work HOME=/wrkdirs/usr/ports/biology/avida/work TMPDIR="/tmp" NO_PIE=yes WITHOUT_DEBUG_FILES=yes WITHOUT_KERNEL_SYMBOLS=yes SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="/nxb-bin/usr/bin/cc" CFLAGS="-O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing" CPP="/nxb-bin/usr/bin/cpp" CPPFLAGS="" LDFLAGS=" -Wl,-rpath=/usr/lib:/usr/local/lib" LIBS="" CXX="/nxb-bin/usr/bin/c++" CXXFLAGS="-O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 444" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- CMAKE_BUILD_TYPE="release" OSREL=11.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local PORTDOCS="" PORTEXAMPLES="" LIB32DIR=lib DOCSDIR="share/doc/avida" EXAMPLESDIR="share/examples/avida" DATADIR="share/avida" WWWDIR="www/avida" ETCDIR="etc/avida" --End PLIST_SUB-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/avida DOCSDIR=/usr/local/share/doc/avida EXAMPLESDIR=/usr/local/share/examples/avida WWWDIR=/usr/local/www/avida ETCDIR=/usr/local/etc/avida --End SUB_LIST-- ---Begin make.conf--- CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ AS=/nxb-bin/usr/bin/as NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed READELF=/nxb-bin/usr/bin/readelf RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc NM=/nxb-bin/usr/bin/nm MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ AS=/nxb-bin/usr/bin/as NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed READELF=/nxb-bin/usr/bin/readelf RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc NM=/nxb-bin/usr/bin/nm MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ AS=/nxb-bin/usr/bin/as NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed READELF=/nxb-bin/usr/bin/readelf RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc NM=/nxb-bin/usr/bin/nm MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ AS=/nxb-bin/usr/bin/as NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed READELF=/nxb-bin/usr/bin/readelf RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc NM=/nxb-bin/usr/bin/nm MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp CXX=/nxb-bin/usr/bin/c++ AS=/nxb-bin/usr/bin/as NM=/nxb-bin/usr/bin/nm LD=/nxb-bin/usr/bin/ld OBJCOPY=/nxb-bin/usr/bin/objcopy SIZE=/nxb-bin/usr/bin/size STRIPBIN=/nxb-bin/usr/bin/strip SED=/nxb-bin/usr/bin/sed READELF=/nxb-bin/usr/bin/readelf RANLIB=/nxb-bin/usr/bin/ranlib YACC=/nxb-bin/usr/bin/yacc NM=/nxb-bin/usr/bin/nm MAKE=/nxb-bin/usr/bin/make STRINGS=/nxb-bin/usr/bin/strings AWK=/nxb-bin/usr/bin/awk FLEX=/nxb-bin/usr/bin/flex CC=/nxb-bin/usr/bin/cc CPP=/nxb-bin/usr/bin/cpp =========================================================================== =================================================== ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by avida-2.12.4 for building =========================================================================== =================================================== ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by avida-2.12.4 for building => SHA256 Checksum OK for avida-2.12.4-src.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> License GPLv3 accepted by the user ===> Fetching all distfiles required by avida-2.12.4 for building ===> Extracting for avida-2.12.4 => SHA256 Checksum OK for avida-2.12.4-src.tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for avida-2.12.4 ===> Applying FreeBSD patches for avida-2.12.4 =========================================================================== =================================================== ===> avida-2.12.4 depends on file: /usr/local/bin/cmake - not found ===> Installing existing package /packages/All/cmake-3.5.0.txz [head-armv6-default-job-01] Installing cmake-3.5.0... [head-armv6-default-job-01] `-- Installing expat-2.1.0_3... [head-armv6-default-job-01] `-- Extracting expat-2.1.0_3: .......... done [head-armv6-default-job-01] `-- Installing cmake-modules-3.5.0... [head-armv6-default-job-01] `-- Extracting cmake-modules-3.5.0: .......... done [head-armv6-default-job-01] `-- Installing curl-7.47.1... [head-armv6-default-job-01] | `-- Installing ca_root_nss-3.22.2... [head-armv6-default-job-01] | `-- Extracting ca_root_nss-3.22.2: ....... done [head-armv6-default-job-01] `-- Extracting curl-7.47.1: .......... done [head-armv6-default-job-01] `-- Installing libarchive-3.1.2_6,1... [head-armv6-default-job-01] | `-- Installing lzo2-2.09... [head-armv6-default-job-01] | `-- Extracting lzo2-2.09: .......... done [head-armv6-default-job-01] `-- Extracting libarchive-3.1.2_6,1: .......... done [head-armv6-default-job-01] `-- Installing jsoncpp-0.6.0.r2_2... [head-armv6-default-job-01] `-- Extracting jsoncpp-0.6.0.r2_2: .......... done [head-armv6-default-job-01] Extracting cmake-3.5.0: .......... done Message from ca_root_nss-3.22.2: ********************************* WARNING ********************************* FreeBSD does not, and can not warrant that the certification authorities whose certificates are included in this package have in any way been audited for trustworthiness or RFC 3647 compliance. Assessment and verification of trust is the complete responsibility of the system administrator. *********************************** NOTE ********************************** This package installs symlinks to support root certificates discovery by default for software that uses OpenSSL. This enables SSL Certificate Verification by client software without manual intervention. If you prefer to do this manually, replace the following symlinks with either an empty file or your site-local certificate bundle. * /etc/ssl/cert.pem * /usr/local/etc/ssl/cert.pem * /usr/local/openssl/cert.pem *************************************************************************** ===> avida-2.12.4 depends on file: /usr/local/bin/cmake - found ===> Returning to build of avida-2.12.4 =========================================================================== =================================================== =========================================================================== =================================================== ===> Configuring for avida-2.12.4 ===> Performing out-of-source build /bin/mkdir -p /wrkdirs/usr/ports/biology/avida/work/.build -- The C compiler identification is Clang 3.7.1 -- The CXX compiler identification is Clang 3.7.1 -- Check for working C compiler: /nxb-bin/usr/bin/cc -- Check for working C compiler: /nxb-bin/usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /nxb-bin/usr/bin/c++ -- Check for working CXX compiler: /nxb-bin/usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Performing Test HAVE_FUSED_MADD -- Performing Test HAVE_FUSED_MADD - Failed -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_C_FLAGS_DEBUG CMAKE_C_FLAGS_RELEASE CMAKE_MODULE_LINKER_FLAGS THREADS_HAVE_PTHREAD_ARG -- Build files have been written to: /wrkdirs/usr/ports/biology/avida/work/.build =========================================================================== =================================================== ===> Building for avida-2.12.4 /usr/local/bin/cmake -H/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src -B/wrkdirs/usr/ports/biology/avida/work/.build --check-build-system CMakeFiles/Makefile.cmake 0 /usr/local/bin/cmake -E cmake_progress_start /wrkdirs/usr/ports/biology/avida/work/.build/CMakeFiles /wrkdirs/usr/ports/biology/avida/work/.build/CMakeFiles/progress.marks /nxb-bin/usr/bin/make -f CMakeFiles/Makefile2 all /nxb-bin/usr/bin/make -f libs/apto/src/CMakeFiles/aptoshared.dir/build.make libs/apto/src/CMakeFiles/aptoshared.dir/depend cd /wrkdirs/usr/ports/biology/avida/work/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src /wrkdirs/usr/ports/biology/avida/work/.build /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src/CMakeFiles/aptoshared.dir/DependInfo.cmake Scanning dependencies of target aptoshared /nxb-bin/usr/bin/make -f libs/apto/src/CMakeFiles/aptoshared.dir/build.make libs/apto/src/CMakeFiles/aptoshared.dir/build [ 0%] Building CXX object libs/apto/src/CMakeFiles/aptoshared.dir/core/FileSystem.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -Daptoshared_EXPORTS -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -fPIC -o CMakeFiles/aptoshared.dir/core/FileSystem.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/core/FileSystem.cc [ 1%] Building CXX object libs/apto/src/CMakeFiles/aptoshared.dir/core/RefCount.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -Daptoshared_EXPORTS -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -fPIC -o CMakeFiles/aptoshared.dir/core/RefCount.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/core/RefCount.cc [ 1%] Building CXX object libs/apto/src/CMakeFiles/aptoshared.dir/core/Thread.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -Daptoshared_EXPORTS -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -fPIC -o CMakeFiles/aptoshared.dir/core/Thread.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/core/Thread.cc [ 2%] Building CXX object libs/apto/src/CMakeFiles/aptoshared.dir/platform/Platform.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -Daptoshared_EXPORTS -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -fPIC -o CMakeFiles/aptoshared.dir/platform/Platform.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/platform/Platform.cc [ 2%] Building CXX object libs/apto/src/CMakeFiles/aptoshared.dir/stat/ContingencyTable.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -Daptoshared_EXPORTS -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -fPIC -o CMakeFiles/aptoshared.dir/stat/ContingencyTable.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/stat/ContingencyTable.cc [ 3%] Building CXX object libs/apto/src/CMakeFiles/aptoshared.dir/stat/FishersExact.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -Daptoshared_EXPORTS -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -fPIC -o CMakeFiles/aptoshared.dir/stat/FishersExact.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/stat/FishersExact.cc /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/stat/FishersExact.cc:1052:21: warning: unsequenced modification and access to 'idx_inc' [-Wunsequenced] while (row_diff[++idx_inc] == row_marginals[idx_inc]) ; ^ ~~~~~~~ 1 warning generated. [ 3%] Linking CXX shared library ../../../lib/libapto.so cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/aptoshared.dir/link.txt --verbose=1 /nxb-bin/usr/bin/c++ -fPIC -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -Wl,-rpath=/usr/lib:/usr/local/lib -shared -Wl,-soname,libapto.so -o ../../../lib/libapto.so CMakeFiles/aptoshared.dir/core/FileSystem.cc.o CMakeFiles/aptoshared.dir/core/RefCount.cc.o CMakeFiles/aptoshared.dir/core/Thread.cc.o CMakeFiles/aptoshared.dir/platform/Platform.cc.o CMakeFiles/aptoshared.dir/stat/ContingencyTable.cc.o CMakeFiles/aptoshared.dir/stat/FishersExact.cc.o -pthread -pthread [ 3%] Built target aptoshared /nxb-bin/usr/bin/make -f libs/apto/src/CMakeFiles/aptostatic.dir/build.make libs/apto/src/CMakeFiles/aptostatic.dir/depend cd /wrkdirs/usr/ports/biology/avida/work/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src /wrkdirs/usr/ports/biology/avida/work/.build /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src/CMakeFiles/aptostatic.dir/DependInfo.cmake Scanning dependencies of target aptostatic /nxb-bin/usr/bin/make -f libs/apto/src/CMakeFiles/aptostatic.dir/build.make libs/apto/src/CMakeFiles/aptostatic.dir/build [ 4%] Building CXX object libs/apto/src/CMakeFiles/aptostatic.dir/core/FileSystem.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/aptostatic.dir/core/FileSystem.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/core/FileSystem.cc [ 4%] Building CXX object libs/apto/src/CMakeFiles/aptostatic.dir/core/RefCount.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/aptostatic.dir/core/RefCount.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/core/RefCount.cc [ 5%] Building CXX object libs/apto/src/CMakeFiles/aptostatic.dir/core/Thread.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/aptostatic.dir/core/Thread.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/core/Thread.cc [ 6%] Building CXX object libs/apto/src/CMakeFiles/aptostatic.dir/platform/Platform.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/aptostatic.dir/platform/Platform.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/platform/Platform.cc [ 6%] Building CXX object libs/apto/src/CMakeFiles/aptostatic.dir/stat/ContingencyTable.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/aptostatic.dir/stat/ContingencyTable.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/stat/ContingencyTable.cc [ 7%] Building CXX object libs/apto/src/CMakeFiles/aptostatic.dir/stat/FishersExact.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/../include -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/aptostatic.dir/stat/FishersExact.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/stat/FishersExact.cc /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/apto/src/stat/FishersExact.cc:1052:21: warning: unsequenced modification and access to 'idx_inc' [-Wunsequenced] while (row_diff[++idx_inc] == row_marginals[idx_inc]) ; ^ ~~~~~~~ 1 warning generated. [ 7%] Linking CXX static library ../../../lib/libapto.a cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /usr/local/bin/cmake -P CMakeFiles/aptostatic.dir/cmake_clean_target.cmake cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/apto/src && /usr/local/bin/cmake -E cmake_link_script CMakeFiles/aptostatic.dir/link.txt --verbose=1 /nxb-bin/usr/bin/ar qc ../../../lib/libapto.a CMakeFiles/aptostatic.dir/core/FileSystem.cc.o CMakeFiles/aptostatic.dir/core/RefCount.cc.o CMakeFiles/aptostatic.dir/core/Thread.cc.o CMakeFiles/aptostatic.dir/platform/Platform.cc.o CMakeFiles/aptostatic.dir/stat/ContingencyTable.cc.o CMakeFiles/aptostatic.dir/stat/FishersExact.cc.o /nxb-bin/usr/bin/ranlib ../../../lib/libapto.a [ 7%] Built target aptostatic /nxb-bin/usr/bin/make -f libs/tcmalloc-1.4/CMakeFiles/tcmalloc-1.4.dir/build.make libs/tcmalloc-1.4/CMakeFiles/tcmalloc-1.4.dir/depend cd /wrkdirs/usr/ports/biology/avida/work/.build && /usr/local/bin/cmake -E cmake_depends "Unix Makefiles" /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4 /wrkdirs/usr/ports/biology/avida/work/.build /wrkdirs/usr/ports/biology/avida/work/.build/libs/tcmalloc-1.4 /wrkdirs/usr/ports/biology/avida/work/.build/libs/tcmalloc-1.4/CMakeFiles/tcmalloc-1.4.dir/DependInfo.cmake Scanning dependencies of target tcmalloc-1.4 /nxb-bin/usr/bin/make -f libs/tcmalloc-1.4/CMakeFiles/tcmalloc-1.4.dir/build.make libs/tcmalloc-1.4/CMakeFiles/tcmalloc-1.4.dir/build [ 7%] Building CXX object libs/tcmalloc-1.4/CMakeFiles/tcmalloc-1.4.dir/src/atomicops-internals-x86.cc.o cd /wrkdirs/usr/ports/biology/avida/work/.build/libs/tcmalloc-1.4 && /nxb-bin/usr/bin/c++ -I/wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src -O2 -pipe -mfloat-abi=softfp -fno-strict-aliasing -funroll-loops -fstrict-aliasing -ftree-vectorize -fvisibility-inlines-hidden -Wextra -Wno-unknown-pragmas -Wno-trigraphs -DNDEBUG -o CMakeFiles/tcmalloc-1.4.dir/src/atomicops-internals-x86.cc.o -c /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops-internals-x86.cc In file included from /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops-internals-x86.cc:56: In file included from /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops.h:126: /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops-internals-x86.h:98:26: error: invalid output constraint '=a' in asm : "=a" (prev) ^ /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops-internals-x86.h:386:5: error: unknown register name 'st' in asm "st", "st(1)", "st(2)", "st(3)", "st(4)", ^ /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops-internals-x86.h:409:26: error: unknown register name 'st' in asm "st", "st(1)", "st(2)", "st(3)", "st(4)", ^ In file included from /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/atomicops-internals-x86.cc:57: /wrkdirs/usr/ports/biology/avida/work/avida-2.12.4-src/libs/tcmalloc-1.4/src/basictypes.h:105:51: warning: shifting a negative signed value is undefined [-Wshift-negative-value] const int64 kint64min = ( ((( int64) kint32min) << 32) | 0 ); ~~~~~~~~~~~~~~~~~~~~ ^ 1 warning and 3 errors generated. *** Error code 1 Stop. make[3]: stopped in /wrkdirs/usr/ports/biology/avida/work/.build *** Error code 1 Stop. make[2]: stopped in /wrkdirs/usr/ports/biology/avida/work/.build *** Error code 1 Stop. make[1]: stopped in /wrkdirs/usr/ports/biology/avida/work/.build *** Error code 1 Stop. make: stopped in /usr/ports/biology/avida