From owner-freebsd-pkg-fallout@FreeBSD.ORG Thu Aug 29 15:04:46 2013 Return-Path: Delivered-To: pkg-fallout@FreeBSD.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) (using TLSv1 with cipher ADH-AES256-SHA (256/256 bits)) (No client certificate requested) by hub.freebsd.org (Postfix) with ESMTP id A2CD1FAC for ; Thu, 29 Aug 2013 15:04:46 +0000 (UTC) (envelope-from pkg-fallout@FreeBSD.org) Received: from beefy2.isc.freebsd.org (unknown [IPv6:2001:4f8:3:ffe0:4072:0:16:39]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by mx1.freebsd.org (Postfix) with ESMTPS id 8B7D72EA0 for ; Thu, 29 Aug 2013 15:04:46 +0000 (UTC) Received: from beefy2.isc.freebsd.org (localhost [127.0.0.1]) by beefy2.isc.freebsd.org (8.14.7/8.14.7) with ESMTP id r7TF4knI039141 for ; Thu, 29 Aug 2013 15:04:46 GMT (envelope-from pkg-fallout@FreeBSD.org) Received: (from root@localhost) by beefy2.isc.freebsd.org (8.14.7/8.14.7/Submit) id r7TF4kBj039116 for pkg-fallout@FreeBSD.org; Thu, 29 Aug 2013 15:04:46 GMT (envelope-from pkg-fallout@FreeBSD.org) Date: Thu, 29 Aug 2013 15:04:46 GMT From: pkg-fallout@FreeBSD.org Message-Id: <201308291504.r7TF4kBj039116@beefy2.isc.freebsd.org> To: pkg-fallout@FreeBSD.org Subject: [RELEASE - head-default] Build failed for protomol-2.0.3_8 during build X-BeenThere: freebsd-pkg-fallout@freebsd.org X-Mailman-Version: 2.1.14 Precedence: list List-Id: Fallout logs from package building List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Thu, 29 Aug 2013 15:04:46 -0000 Maintainer: sangwoos@gmail.com Last committer: jgh@FreeBSD.org Ident: $FreeBSD: head/biology/protomol/Makefile 314531 2013-03-18 06:54:39Z jgh $ Log URL: http://beefy2.isc.freebsd.org/bulk/head-default/2013-08-29_07h45m18s/logs/protomol-2.0.3_8.log Build URL: http://beefy2.isc.freebsd.org/bulk/head-default/2013-08-29_07h45m18s Log: ====>> Building biology/protomol build started at Thu Aug 29 15:01:00 UTC 2013 port directory: /usr/ports/biology/protomol building for: FreeBSD head-default-job-05 10.0-CURRENT FreeBSD 10.0-CURRENT amd64 maintained by: sangwoos@gmail.com Makefile ident: $FreeBSD: head/biology/protomol/Makefile 314531 2013-03-18 06:54:39Z jgh $ Poudriere version: 3.1-pre ---Begin Environment--- OSVERSION=1000035 UNAME_v=FreeBSD 10.0-CURRENT UNAME_r=10.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root STATUS=1 MASTERMNT=/usr/local/poudriere/data/build/head-default/ref PKG_EXT=txz tpid=40630 PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin POUDRIERE_BUILD_TYPE=bulk NBPARALLEL=24 PKGNG=1 PKGNAME=protomol-2.0.3_8 PKG_DELETE=/usr/local/sbin/pkg delete -y -f PKG_ADD=/usr/local/sbin/pkg add PWD=/root MASTERNAME=head-default USER=root HOME=/root POUDRIERE_VERSION=3.1-pre SKIPSANITY=0 LOCALBASE=/usr/local PACKAGE_BUILDING=yes ---End Environment--- ---Begin OPTIONS List--- ===> The following configuration options are available for protomol-2.0.3_8: GLUT=on: GLUT support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --CONFIGURE_ARGS-- --without-irix_mipspro_mpi --with-glut=yes --x-libraries=/usr/local/lib --x-includes=/usr/local/include --prefix=/usr/local ${_LATE_CONFIGURE_ARGS} --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- TMPDIR="/tmp" TMPDIR="/tmp" TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=262144 --End CONFIGURE_ENV-- --MAKE_ENV-- TMPDIR="/tmp" TMPDIR="/tmp" TMPDIR="/tmp" SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="cc" CFLAGS="-O2 -pipe -fno-strict-aliasing" CPP="cpp" CPPFLAGS="-I/usr/local/include" LDFLAGS="" CXX="c++" CXXFLAGS="-O2 -pipe -fno-strict-aliasing -L/usr/local/lib" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -o root -g wheel -m 555" BSD_INSTALL_LIB="install -s -o root -g wheel -m 444" BSD_INSTALL_SCRIPT="install -o root -g wheel -m 555" BSD_INSTALL_DATA="install -o root -g wheel -m 444" BSD_INSTALL_MAN="install -o root -g wheel -m 444" --End MAKE_ENV-- --SUB_LIST-- PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/protomol DOCSDIR=/usr/local/share/doc/protomol EXAMPLESDIR=/usr/local/share/examples/protomol WWWDIR=/usr/local/www/protomol ETCDIR=/usr/local/etc/protomol --End SUB_LIST-- ---Begin make.conf--- USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PACKAGES=/packages DISTDIR=/distfiles #### /usr/local/etc/poudriere.d/make.conf #### WITH_PKGNG=yes NO_RESTRICTED=yes DISABLE_MAKE_JOBS=yes ---End make.conf--- ===> Cleaning for protomol-2.0.3_8 =================================================== =========================================================================== =================================================== ===> protomol-2.0.3_8 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /usr/ports/ports-mgmt/pkg ===> Installing existing package /packages/All/pkg-1.1.4_1.txz Installing pkg-1.1.4_1... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of protomol-2.0.3_8 =========================================================================== =================================================== =========================================================================== =================================================== ===> Fetching all distfiles required by protomol-2.0.3_8 for building =========================================================================== =================================================== ===> Fetching all distfiles required by protomol-2.0.3_8 for building => SHA256 Checksum OK for protomol-2.0.3-tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Fetching all distfiles required by protomol-2.0.3_8 for building ===> Extracting for protomol-2.0.3_8 => SHA256 Checksum OK for protomol-2.0.3-tar.gz. =========================================================================== =================================================== =========================================================================== =================================================== ===> Patching for protomol-2.0.3_8 ===> Applying FreeBSD patches for protomol-2.0.3_8 =========================================================================== =================================================== ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - not found ===> Verifying install for /usr/local/libdata/pkgconfig/xmu.pc in /usr/ports/x11-toolkits/libXmu ===> Installing existing package /packages/All/libXmu-1.1.1,1.txz Installing libXmu-1.1.1,1...Installing xproto-7.0.24... done Installing xextproto-7.2.1... done Installing libxcb-1.9.1...Installing libXdmcp-1.1.1... done Installing libXau-1.0.8... done Installing libxml2-2.8.0_2...Installing pkgconf-0.9.3... done Installing libiconv-1.14_1... done done Installing libpthread-stubs-0.3_3... done done Installing libXext-1.3.2,1...Installing libX11-1.6.1,1...Installing kbproto-1.0.6... done done done Installing libSM-1.2.1,1...Installing libICE-1.0.8,1... done done Installing libXt-1.1.4,1... done done ===> Returning to build of protomol-2.0.3_8 ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/xt.pc - found ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/sm.pc - found ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/ice.pc - found ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/xext.pc - found ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> protomol-2.0.3_8 depends on file: /usr/local/libdata/pkgconfig/xi.pc - not found ===> Verifying install for /usr/local/libdata/pkgconfig/xi.pc in /usr/ports/x11/libXi ===> Installing existing package /packages/All/libXi-1.7.2,1.txz Installing libXi-1.7.2,1...Installing libXfixes-5.0.1...Installing fixesproto-5.0... done done Installing inputproto-2.3... done done ===> Returning to build of protomol-2.0.3_8 =========================================================================== =================================================== ===> protomol-2.0.3_8 depends on shared library: png15 - not found ===> Verifying install for png15 in /usr/ports/graphics/png ===> Installing existing package /packages/All/png-1.5.17.txz Installing png-1.5.17... done ===> Returning to build of protomol-2.0.3_8 ===> protomol-2.0.3_8 depends on shared library: jpeg.11 - not found ===> Verifying install for jpeg.11 in /usr/ports/graphics/jpeg ===> Installing existing package /packages/All/jpeg-8_4.txz Installing jpeg-8_4... done ===> Returning to build of protomol-2.0.3_8 ===> protomol-2.0.3_8 depends on shared library: tiff.4 - not found ===> Verifying install for tiff.4 in /usr/ports/graphics/tiff ===> Installing existing package /packages/All/tiff-4.0.3.txz Installing tiff-4.0.3...Installing jbigkit-1.6... done done ===> Returning to build of protomol-2.0.3_8 ===> protomol-2.0.3_8 depends on shared library: glut.12 - not found ===> Verifying install for glut.12 in /usr/ports/graphics/freeglut ===> Installing existing package /packages/All/freeglut-2.8.1.txz Installing freeglut-2.8.1...Installing xf86vidmodeproto-2.3.1... done Installing renderproto-0.11.1... done Installing randrproto-1.4.0... done Installing libXxf86vm-1.1.3... done Installing libXrender-0.9.8... done Installing libXrandr-1.4.1... done Installing libXdamage-1.1.4...Installing damageproto-1.2.1... done done Installing dri2proto-2.8... done Installing expat-2.1.0... done Installing pciids-20130823... done Installing libdrm-2.4.17_1...Installing libpciaccess-0.13.2... done done Installing libGLU-9.0.0...Installing libGL-7.6.1_4... done done done Since FreeBSD has new USB stack, freeglut normally doesn't build on FreeBSD 8 (yet). To workaround this a small patch adds one include file and comments out content of one function (only leaves return NULL). This might cause side effects. Joysticks do not work, and there might be ports that do not compile or applications that crash because of this. Do not hesitate to contact x11@FreeBSD.org if there are any issues and side effects because of this. ===> Returning to build of protomol-2.0.3_8 =========================================================================== =================================================== ===> Configuring for protomol-2.0.3_8 ===> FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/biology/protomol/work/protomol/aclocal.m4 ===> FreeBSD 10 autotools fix applied to /wrkdirs/usr/ports/biology/protomol/work/protomol/configure configure: loading site script /usr/ports/Templates/config.site checking for a BSD-compatible install... /usr/bin/install -c -o root -g wheel checking whether build environment is sane... yes checking for gawk... (cached) /usr/bin/awk c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ModifierShake.o `test -f 'ModifierShake.cpp' || echo './'`ModifierShake.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ModifierRattle.o `test -f 'ModifierRattle.cpp' || echo './'`ModifierRattle.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ModifierNPTShake.o `test -f 'ModifierNPTShake.cpp' || echo './'`ModifierNPTShake.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ModifierNPTRattle.o `test -f 'ModifierNPTRattle.cpp' || echo './'`ModifierNPTRattle.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ModifierNVTShake.o `test -f 'ModifierNVTShake.cpp' || echo './'`ModifierNVTShake.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ModifierNVTRattle.o `test -f 'ModifierNVTRattle.cpp' || echo './'`ModifierNVTRattle.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o PLeapfrogIntegrator.o `test -f 'PLeapfrogIntegrator.cpp' || echo './'`PLeapfrogIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o MOLLYIntegrator.o `test -f 'MOLLYIntegrator.cpp' || echo './'`MOLLYIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o UmbrellaIntegrator.o `test -f 'UmbrellaIntegrator.cpp' || echo './'`UmbrellaIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o MTSIntegrator.o `test -f 'MTSIntegrator.cpp' || echo './'`MTSIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o NoseNVTLeapfrogIntegrator.o `test -f 'NoseNVTLeapfrogIntegrator.cpp' || echo './'`NoseNVTLeapfrogIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o PaulTrapIntegrator.o `test -f 'PaulTrapIntegrator.cpp' || echo './'`PaulTrapIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o LangevinImpulseIntegrator.o `test -f 'LangevinImpulseIntegrator.cpp' || echo './'`LangevinImpulseIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o StandardIntegrator.o `test -f 'StandardIntegrator.cpp' || echo './'`StandardIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o STSIntegrator.o `test -f 'STSIntegrator.cpp' || echo './'`STSIntegrator.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' rm -f libintegrators.a ar cru libintegrators.a ModifierMetaShake.o ModifierMetaRattle.o ModifierMetaRattleShake.o NPTVerletIntegrator.o NVTVerletIntegrator.o BSplineMOLLYIntegrator.o EquilibriumMOLLYIntegrator.o DihedralHMCIntegrator.o DLMCIntegrator.o ShadowHMCIntegrator.o HMCIntegrator.o MCIntegrator.o ImpulseIntegrator.o Integrator.o IntegratorDefinition.o LeapfrogIntegrator.o DMDLeapfrogIntegrator.o BBKIntegrator.o ModifierShake.o ModifierRattle.o ModifierNPTShake.o ModifierNPTRattle.o ModifierNVTShake.o ModifierNVTRattle.o PLeapfrogIntegrator.o MOLLYIntegrator.o UmbrellaIntegrator.o MTSIntegrator.o NoseNVTLeapfrogIntegrator.o PaulTrapIntegrator.o LangevinImpulseIntegrator.o StandardIntegrator.o STSIntegrator.o NPTVerletIntegrator.o NVTVerletIntegrator.o ranlib libintegrators.a Making all in frontend c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o HelpTextFactory.o `test -f 'HelpTextFactory.cpp' || echo './'`HelpTextFactory.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o ForceFactoryDetails.o `test -f 'ForceFactoryDetails.cpp' || echo './'`ForceFactoryDetails.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o InputPosVel.o `test -f 'InputPosVel.cpp' || echo './'`InputPosVel.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o InputPosVelType.o `test -f 'InputPosVelType.cpp' || echo './'`InputPosVelType.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o IntegratorFactoryDetails.o `test -f 'IntegratorFactoryDetails.cpp' || echo './'`IntegratorFactoryDetails.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' IntegratorFactoryDetails.cpp:178:13: warning: '&&' within '||' [-Wlogical-op-parentheses] i > 0 && dynamic_cast(prototype))){ ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ IntegratorFactoryDetails.cpp:178:13: note: place parentheses around the '&&' expression to silence this warning i > 0 && dynamic_cast(prototype))){ ^ ( ) 1 warning generated. c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o Output.o `test -f 'Output.cpp' || echo './'`Output.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputCache.o `test -f 'OutputCache.cpp' || echo './'`OutputCache.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputCollection.o `test -f 'OutputCollection.cpp' || echo './'`OutputCollection.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputDCDTrajectory.o `test -f 'OutputDCDTrajectory.cpp' || echo './'`OutputDCDTrajectory.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputDiffusion.o `test -f 'OutputDiffusion.cpp' || echo './'`OutputDiffusion.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputDihedrals.o `test -f 'OutputDihedrals.cpp' || echo './'`OutputDihedrals.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputEnergies.o `test -f 'OutputEnergies.cpp' || echo './'`OutputEnergies.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFactoryDetails.o `test -f 'OutputFactoryDetails.cpp' || echo './'`OutputFactoryDetails.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFile.o `test -f 'OutputFile.cpp' || echo './'`OutputFile.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFinalXYZBinPos.o `test -f 'OutputFinalXYZBinPos.cpp' || echo './'`OutputFinalXYZBinPos.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFinalXYZBinVel.o `test -f 'OutputFinalXYZBinVel.cpp' || echo './'`OutputFinalXYZBinVel.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFinalXYZPos.o `test -f 'OutputFinalXYZPos.cpp' || echo './'`OutputFinalXYZPos.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFinalPDBPos.o `test -f 'OutputFinalPDBPos.cpp' || echo './'`OutputFinalPDBPos.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputFinalXYZVel.o `test -f 'OutputFinalXYZVel.cpp' || echo './'`OutputFinalXYZVel.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputMomentum.o `test -f 'OutputMomentum.cpp' || echo './'`OutputMomentum.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputPaulTrap.o `test -f 'OutputPaulTrap.cpp' || echo './'`OutputPaulTrap.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputPDBFramePos.o `test -f 'OutputPDBFramePos.cpp' || echo './'`OutputPDBFramePos.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputScreen.o `test -f 'OutputScreen.cpp' || echo './'`OutputScreen.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputTemperatures.o `test -f 'OutputTemperatures.cpp' || echo './'`OutputTemperatures.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputXYZTrajectoryForce.o `test -f 'OutputXYZTrajectoryForce.cpp' || echo './'`OutputXYZTrajectoryForce.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputXYZTrajectoryPos.o `test -f 'OutputXYZTrajectoryPos.cpp' || echo './'`OutputXYZTrajectoryPos.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o OutputXYZTrajectoryVel.o `test -f 'OutputXYZTrajectoryVel.cpp' || echo './'`OutputXYZTrajectoryVel.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o TopologyFactoryDetails.o `test -f 'TopologyFactoryDetails.cpp' || echo './'`TopologyFactoryDetails.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o buildTopology.o `test -f 'buildTopology.cpp' || echo './'`buildTopology.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o inputValueDefinitions.o `test -f 'inputValueDefinitions.cpp' || echo './'`inputValueDefinitions.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o parseCommandLine.o `test -f 'parseCommandLine.cpp' || echo './'`parseCommandLine.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' rm -f libfrontend.a ar cru libfrontend.a HelpTextFactory.o ForceFactoryDetails.o InputPosVel.o InputPosVelType.o IntegratorFactoryDetails.o Output.o OutputCache.o OutputCollection.o OutputDCDTrajectory.o OutputDiffusion.o OutputDihedrals.o OutputEnergies.o OutputFactoryDetails.o OutputFile.o OutputFinalXYZBinPos.o OutputFinalXYZBinVel.o OutputFinalXYZPos.o OutputFinalPDBPos.o OutputFinalXYZVel.o OutputMomentum.o OutputPaulTrap.o OutputPDBFramePos.o OutputScreen.o OutputTemperatures.o OutputXYZTrajectoryForce.o OutputXYZTrajectoryPos.o OutputXYZTrajectoryVel.o TopologyFactoryDetails.o buildTopology.o inputValueDefinitions.o parseCommandLine.o ranlib libfrontend.a Making all in factories c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I../../framework/factories -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o registerForceExemplars.o `test -f 'registerForceExemplars.cpp' || echo './'`registerForceExemplars.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I../../framework/factories -I/usr/local/include -O2 -pipe -fno-strict-aliasing -L/usr/local/lib -c -o registerForceExemplarsBonded.o `test -f 'registerForceExemplarsBonded.cpp' || echo './'`registerForceExemplarsBonded.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' In file included from registerForceExemplarsBonded.cpp:8: ./../framework/forces/ImproperSystemForce.h:72:7: error: use of undeclared identifier 'calcTorsion' calcTorsion(boundary,topo->impropers[i], positions, forces, (*energies)[ScalarStructure::IMPROPER],energies); ^ this-> registerForceExemplarsBonded.cpp:16:40: note: in instantiation of member function 'ProtoMol::ImproperSystemForce::evaluate' requested here ForceFactory::registerExemplar(new ImproperSystemForce()); ^ ./../framework/forces/MTorsionSystemForce.h:21:10: note: must qualify identifier to find this declaration in dependent base class void calcTorsion(const TBoundaryConditions &boundary, ^ In file included from registerForceExemplarsBonded.cpp:8: ./../framework/forces/ImproperSystemForce.h:93:4: error: use of undeclared identifier 'calcTorsion' calcTorsion(boundary, topo->impropers[j], positions, forces, (*energies)[ScalarStructure::IMPROPER],energies); ^ this-> registerForceExemplarsBonded.cpp:16:40: note: in instantiation of member function 'ProtoMol::ImproperSystemForce::parallelEvaluate' requested here ForceFactory::registerExemplar(new ImproperSystemForce()); ^ ./../framework/forces/MTorsionSystemForce.h:21:10: note: must qualify identifier to find this declaration in dependent base class void calcTorsion(const TBoundaryConditions &boundary, ^ In file included from registerForceExemplarsBonded.cpp:9: ./../framework/forces/DihedralSystemForce.h:75:7: error: use of undeclared identifier 'calcTorsion' calcTorsion(boundary,topo->dihedrals[i], positions, forces,(*energies)[ScalarStructure::DIHEDRAL],energies); ^ this-> registerForceExemplarsBonded.cpp:17:40: note: in instantiation of member function 'ProtoMol::DihedralSystemForce::evaluate' requested here ForceFactory::registerExemplar(new DihedralSystemForce()); ^ ./../framework/forces/MTorsionSystemForce.h:21:10: note: must qualify identifier to find this declaration in dependent base class void calcTorsion(const TBoundaryConditions &boundary, ^ In file included from registerForceExemplarsBonded.cpp:9: ./../framework/forces/DihedralSystemForce.h:96:4: error: use of undeclared identifier 'calcTorsion' calcTorsion(boundary, topo->dihedrals[j], positions, forces, (*energies)[ScalarStructure::DIHEDRAL],energies); ^ this-> registerForceExemplarsBonded.cpp:17:40: note: in instantiation of member function 'ProtoMol::DihedralSystemForce::parallelEvaluate' requested here ForceFactory::registerExemplar(new DihedralSystemForce()); ^ ./../framework/forces/MTorsionSystemForce.h:21:10: note: must qualify identifier to find this declaration in dependent base class void calcTorsion(const TBoundaryConditions &boundary, ^ In file included from registerForceExemplarsBonded.cpp:10: ./../framework/forces/HarmDihedralSystemForce.h:122:6: error: use of undeclared identifier 'calcTorsion' calcTorsion(boundary,topo->dihedrals[i], positions, forces,(*energies)[ScalarStructure::DIHEDRAL],energies); ^ this-> registerForceExemplarsBonded.cpp:18:40: note: in instantiation of member function 'ProtoMol::HarmDihedralSystemForce::evaluate' requested here ForceFactory::registerExemplar(new HarmDihedralSystemForce()); ^ ./../framework/forces/MTorsionSystemForce.h:21:10: note: must qualify identifier to find this declaration in dependent base class void calcTorsion(const TBoundaryConditions &boundary, ^ In file included from registerForceExemplarsBonded.cpp:10: ./../framework/forces/HarmDihedralSystemForce.h:152:6: error: use of undeclared identifier 'calcTorsion' calcTorsion(boundary,topo->dihedrals[j], positions, forces,(*energies)[ScalarStructure::DIHEDRAL],energies); ^ this-> registerForceExemplarsBonded.cpp:18:40: note: in instantiation of member function 'ProtoMol::HarmDihedralSystemForce::parallelEvaluate' requested here ForceFactory::registerExemplar(new HarmDihedralSystemForce()); ^ ./../framework/forces/MTorsionSystemForce.h:21:10: note: must qualify identifier to find this declaration in dependent base class void calcTorsion(const TBoundaryConditions &boundary, ^ 6 errors generated. *** Error code 1 Stop. make: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol/framework/factories *** Error code 1 Stop. make: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol/framework *** Error code 1 Stop. make: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol *** Error code 1 Stop. make: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol *** Error code 1 Stop. make: stopped in /usr/ports/biology/protomol ===> Cleaning for protomol-2.0.3_8