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Maintainer: [email protected] Last committer: @FreeBSD.org Ident: Makefile ident: Log URL: http://ampere2.nyi.freebsd.org/data/main-arm64-default/p338d8ba0f777_s5a89498d19/logs/protomol-2.0.3_14.log Build URL: http://ampere2.nyi.freebsd.org/build.html?mastername=main-arm64-default&build=p338d8ba0f777_s5a89498d19 Log: =>> Building biology/protomol build started at Wed Apr 21 02:46:52 UTC 2021 port directory: /usr/ports/biology/protomol package name: protomol-2.0.3_14 building for: FreeBSD main-arm64-default-job-13 14.0-CURRENT FreeBSD 14.0-CURRENT 1400008 arm64 maintained by: [email protected] Makefile ident: Poudriere version: 3.2.8-8-gaf08dbda Host OSVERSION: 1300139 Jail OSVERSION: 1400008 Job Id: 13 !!! Jail is newer than host. (Jail: 1400008, Host: 1300139) !!! !!! This is not supported. !!! !!! Host kernel must be same or newer than jail. !!! !!! Expect build failures. !!! ---Begin Environment--- SHELL=/bin/csh OSVERSION=1400008 UNAME_v=FreeBSD 14.0-CURRENT 1400008 UNAME_r=14.0-CURRENT BLOCKSIZE=K MAIL=/var/mail/root MM_CHARSET=UTF-8 LANG=C.UTF-8 STATUS=1 HOME=/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin LOCALBASE=/usr/local USER=root LIBEXECPREFIX=/usr/local/libexec/poudriere POUDRIERE_VERSION=3.2.8-8-gaf08dbda MASTERMNT=/usr/local/poudriere/data/.m/main-arm64-default/ref POUDRIERE_BUILD_TYPE=bulk PACKAGE_BUILDING=yes SAVED_TERM= PWD=/usr/local/poudriere/data/.m/main-arm64-default/ref/.p/pool P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS MASTERNAME=main-arm64-default SCRIPTPREFIX=/usr/local/share/poudriere OLDPWD=/usr/local/poudriere/data/.m/main-arm64-default/ref/.p SCRIPTPATH=/usr/local/share/poudriere/bulk.sh POUDRIEREPATH=/usr/local/bin/poudriere ---End Environment--- ---Begin Poudriere Port Flags/Env--- PORT_FLAGS= PKGENV= FLAVOR= DEPENDS_ARGS= MAKE_ARGS= ---End Poudriere Port Flags/Env--- ---Begin OPTIONS List--- ===> The following configuration options are available for protomol-2.0.3_14: EXAMPLES=on: Build and/or install examples GLUT=on: OpenGL Utility Toolkit support ===> Use 'make config' to modify these settings ---End OPTIONS List--- --MAINTAINER-- [email protected] --End MAINTAINER-- --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-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/protomol/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/protomol/work HOME=/wrkdirs/usr/ports/biology/protomol/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/protomol/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CONFIG_SITE=/usr/ports/Templates/config.site lt_cv_sys_max_cmd_len=524288 --End CONFIGURE_ENV-- --MAKE_ENV-- XDG_DATA_HOME=/wrkdirs/usr/ports/biology/protomol/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/protomol/work HOME=/wrkdirs/usr/ports/biology/protomol/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/protomol/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-I/usr/local/include" LDFLAGS=" -fstack-protector-strong " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444" --End MAKE_ENV-- --PLIST_SUB-- PORTEXAMPLES="" OSREL=14.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/protomol" EXAMPLESDIR="share/examples/protomol" DATADIR="share/protomol" WWWDIR="www/protomol" ETCDIR="etc/protomol" --End PLIST_SUB-- --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 PORTSDIR=/usr/ports PACKAGES=/packages DISTDIR=/distfiles PACKAGE_BUILDING=yes PACKAGE_BUILDING_FLAVORS=yes #### /usr/local/etc/poudriere.d/make.conf #### # XXX: We really need this but cannot use it while 'make checksum' does not # try the next mirror on checksum failure. It currently retries the same # failed mirror and then fails rather then trying another. It *does* # try the next if the size is mismatched though. #MASTER_SITE_FREEBSD=yes # Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs MAKE_JOBS_NUMBER=2 #### /usr/ports/Mk/Scripts/ports_env.sh #### _CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 ([email protected]:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _ALTCCVERSION_921dbbb2=none _CXXINTERNAL_acaad9ca=FreeBSD clang version 11.0.1 ([email protected]:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o" CC_OUTPUT_921dbbb2_58173849=yes CC_OUTPUT_921dbbb2_9bdba57c=yes CC_OUTPUT_921dbbb2_6a4fe7f5=yes CC_OUTPUT_921dbbb2_6bcac02b=yes CC_OUTPUT_921dbbb2_67d20829=yes CC_OUTPUT_921dbbb2_bfa62e83=yes CC_OUTPUT_921dbbb2_f0b4d593=yes CC_OUTPUT_921dbbb2_308abb44=yes CC_OUTPUT_921dbbb2_f00456e5=yes CC_OUTPUT_921dbbb2_65ad290d=yes CC_OUTPUT_921dbbb2_f2776b26=yes CC_OUTPUT_921dbbb2_b2657cc3=yes CC_OUTPUT_921dbbb2_380987f7=yes CC_OUTPUT_921dbbb2_160933ec=yes CC_OUTPUT_921dbbb2_fb62803b=yes _OBJC_CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 ([email protected]:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin _OBJC_ALTCCVERSION_921dbbb2=none ARCH=aarch64 OPSYS=FreeBSD _OSRELEASE=14.0-CURRENT OSREL=14.0 OSVERSION=1400008 PYTHONBASE=/usr/local CONFIGURE_MAX_CMD_LEN=524288 HAVE_PORTS_ENV=1 #### Misc Poudriere #### GID=0 UID=0 ---End make.conf--- --Resource limits-- cpu time (seconds, -t) unlimited file size (512-blocks, -f) unlimited data seg size (kbytes, -d) 1048576 stack size (kbytes, -s) 1048576 core file size (512-blocks, -c) unlimited max memory size (kbytes, -m) unlimited locked memory (kbytes, -l) unlimited max user processes (-u) 89999 open files (-n) 1024 virtual mem size (kbytes, -v) unlimited swap limit (kbytes, -w) unlimited socket buffer size (bytes, -b) unlimited pseudo-terminals (-p) unlimited kqueues (-k) unlimited umtx shared locks (-o) unlimited --End resource limits-- =======================<phase: check-sanity >============================ ===> NOTICE: The protomol port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> License GPLv2 accepted by the user =========================================================================== =======================<phase: pkg-depends >============================ ===> protomol-2.0.3_14 depends on file: /usr/local/sbin/pkg - not found ===> Installing existing package /packages/All/pkg-1.16.3.txz [main-arm64-default-job-13] Installing pkg-1.16.3... [main-arm64-default-job-13] Extracting pkg-1.16.3: .......... done ===> protomol-2.0.3_14 depends on file: /usr/local/sbin/pkg - found ===> Returning to build of protomol-2.0.3_14 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ ===> NOTICE: The protomol port currently does not have a maintainer. As a result, it is more likely to have unresolved issues, not be up-to-date, or even be removed in the future. To volunteer to maintain this port, please create an issue at: https://bugs.freebsd.org/bugzilla More information about port maintainership is available at: https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port ===> License GPLv2 accepted by the user ===> Fetching all distfiles required by protomol-2.0.3_14 for building =========================================================================== =======================<phase: checksum >============================ <snip> --- iSGIdealGasLennardJonesForce.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGIdealGasLennardJonesForce.o `test -f 'iSGIdealGasLennardJonesForce.cpp' || echo './'`iSGIdealGasLennardJonesForce.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGLennardJonesTableForce.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGLennardJonesTableForce.o `test -f 'iSGLennardJonesTableForce.cpp' || echo './'`iSGLennardJonesTableForce.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGCoulombEwaldRealForce.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGCoulombEwaldRealForce.o `test -f 'iSGCoulombEwaldRealForce.cpp' || echo './'`iSGCoulombEwaldRealForce.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGCoulombEwaldRealTableForce.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGCoulombEwaldRealTableForce.o `test -f 'iSGCoulombEwaldRealTableForce.cpp' || echo './'`iSGCoulombEwaldRealTableForce.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- Makefile --- cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/forces/Makefile config.status: creating applications/iSGProtomol-app/forces/Makefile --- libISGforces.a --- rm -f libISGforces.a ar cru libISGforces.a iSGAngleSystemForceBase.o iSGBondSystemForceBase.o iSGDihedralSystemForceBase.o iSGImproperSystemForceBase.o iSGLennardJonesForce.o iSGCoulombForce.o iSGNonbondedFullEwaldSystemForceBase.o iSGNonbondedPMEwaldSystemForceBase.o iSGIdealGasCoulombForce.o iSGIdealGasLennardJonesForce.o iSGLennardJonesTableForce.o iSGCoulombEwaldRealForce.o iSGCoulombEwaldRealTableForce.o ranlib libISGforces.a Making all in frontend --- OutputFinalXSC.o --- --- OutputISGProperties.o --- --- OutputFinalXSC.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o OutputFinalXSC.o `test -f 'OutputFinalXSC.cpp' || echo './'`OutputFinalXSC.cpp --- OutputISGProperties.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o OutputISGProperties.o `test -f 'OutputISGProperties.cpp' || echo './'`OutputISGProperties.cpp --- OutputFinalXSC.o --- c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- OutputISGProperties.o --- c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- OutputFinalPSF.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o OutputFinalPSF.o `test -f 'OutputFinalPSF.cpp' || echo './'`OutputFinalPSF.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- buildISGTopology.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o buildISGTopology.o `test -f 'buildISGTopology.cpp' || echo './'`buildISGTopology.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- Makefile --- cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/frontend/Makefile config.status: creating applications/iSGProtomol-app/frontend/Makefile --- libISGfrontend.a --- rm -f libISGfrontend.a ar cru libISGfrontend.a OutputFinalXSC.o OutputISGProperties.o OutputFinalPSF.o buildISGTopology.o ranlib libISGfrontend.a Making all in factories --- iSGregisterOutputExemplars.o --- --- iSGregisterIntegratorExemplars.o --- --- iSGregisterOutputExemplars.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterOutputExemplars.o `test -f 'iSGregisterOutputExemplars.cpp' || echo './'`iSGregisterOutputExemplars.cpp --- iSGregisterIntegratorExemplars.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterIntegratorExemplars.o `test -f 'iSGregisterIntegratorExemplars.cpp' || echo './'`iSGregisterIntegratorExemplars.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterOutputExemplars.o --- c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplars.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplars.o `test -f 'iSGregisterForceExemplars.cpp' || echo './'`iSGregisterForceExemplars.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplarsBonded.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsBonded.o `test -f 'iSGregisterForceExemplarsBonded.cpp' || echo './'`iSGregisterForceExemplarsBonded.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplarsCutoff.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsCutoff.o `test -f 'iSGregisterForceExemplarsCutoff.cpp' || echo './'`iSGregisterForceExemplarsCutoff.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplarsFull.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsFull.o `test -f 'iSGregisterForceExemplarsFull.cpp' || echo './'`iSGregisterForceExemplarsFull.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplarsSimpleFull.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsSimpleFull.o `test -f 'iSGregisterForceExemplarsSimpleFull.cpp' || echo './'`iSGregisterForceExemplarsSimpleFull.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplarsFastElectrostatic.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsFastElectrostatic.o `test -f 'iSGregisterForceExemplarsFastElectrostatic.cpp' || echo './'`iSGregisterForceExemplarsFastElectrostatic.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- iSGregisterForceExemplarsIdealGas.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsIdealGas.o `test -f 'iSGregisterForceExemplarsIdealGas.cpp' || echo './'`iSGregisterForceExemplarsIdealGas.cpp c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- Makefile --- cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/factories/Makefile config.status: creating applications/iSGProtomol-app/factories/Makefile --- libISGfactories.a --- rm -f libISGfactories.a ar cru libISGfactories.a iSGregisterOutputExemplars.o iSGregisterIntegratorExemplars.o iSGregisterForceExemplars.o iSGregisterForceExemplarsBonded.o iSGregisterForceExemplarsCutoff.o iSGregisterForceExemplarsFull.o iSGregisterForceExemplarsSimpleFull.o iSGregisterForceExemplarsFastElectrostatic.o iSGregisterForceExemplarsIdealGas.o ranlib libISGfactories.a Making all in integrators --- iSGIntegrator.o --- --- ModifierISG.o --- --- iSGIntegrator.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../framework/base -I../../../framework/frontend -I../../../applications/iSGProtomol-app/base -I../../../framework/topology -I../../../framework/frontend -I../../../framework/integrators -I../../../framework/forces -I../../../framework/parallel -I../../../applications/iSGProtomol-app/io -I../../../framework/io -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGIntegrator.o `test -f 'iSGIntegrator.cpp' || echo './'`iSGIntegrator.cpp --- ModifierISG.o --- c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../framework/base -I../../../framework/frontend -I../../../applications/iSGProtomol-app/base -I../../../framework/topology -I../../../framework/frontend -I../../../framework/integrators -I../../../framework/forces -I../../../framework/parallel -I../../../applications/iSGProtomol-app/io -I../../../framework/io -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o ModifierISG.o `test -f 'ModifierISG.cpp' || echo './'`ModifierISG.cpp --- iSGIntegrator.o --- c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- ModifierISG.o --- c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- Makefile --- cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/integrators/Makefile config.status: creating applications/iSGProtomol-app/integrators/Makefile --- libISGintegrators.a --- rm -f libISGintegrators.a ar cru libISGintegrators.a iSGIntegrator.o ModifierISG.o ranlib libISGintegrators.a --- iSGProtomol.o --- --- Makefile --- --- iSGProtomol.o --- 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../../applications/iSGProtomol-app/base -I../../applications/iSGProtomol-app/io -I../../applications/iSGProtomol-app/forces -I../../applications/iSGProtomol-app/frontend -I../../applications/iSGProtomol-app/factories -I../../applications/iSGProtomol-app/integrators -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGProtomol.o `test -f 'iSGProtomol.cpp' || echo './'`iSGProtomol.cpp --- Makefile --- cd ../.. && /bin/sh ./config.status applications/iSGProtomol-app/Makefile --- iSGProtomol.o --- c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument] --- Makefile --- config.status: creating applications/iSGProtomol-app/Makefile --- iSGProtomol.o --- iSGProtomol.cpp:90:6: warning: illegal character encoding in string literal [-Winvalid-source-encoding] << PACKAGE_CITE <<endl ^~~~~~~~~~~~ ./../protomol_config.h:120:278: note: expanded from macro 'PACKAGE_CITE' #define PACKAGE_CITE "Please cite T. Matthey, T. Cickovski, S. S. Hampton, A. Ko, Q. Ma, M. Nyerges, T. Raeder,\nT. Slabach, and J. A. Izaguirre. ProtoMol: An object-oriented framework for prototyping\nnovel algorithms for molecular dynamics. ACM Trans. Math. Softw., 30(3):237<AD>265, 2004." ^~~~ 1 warning generated. --- iSGProtomol --- c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -fstack-protector-strong -o iSGProtomol iSGProtomol.o -L../../framework/base -L../../framework/io -L../../framework/parallel -L../../framework/topology -L../../framework/forces -L../../framework/imd -L../../framework/integrators -L../../framework/frontend -L../../applications/iSGProtomol-app/base -L../../applications/iSGProtomol-app/io -L../../applications/iSGProtomol-app/forces -L../../applications/iSGProtomol-app/frontend -L../../applications/iSGProtomol-app/factories -L../../applications/iSGProtomol-app/integrators -lISGintegrators -lISGfactories -lISGfrontend -lISGforces -lISGio -lISGbase ../../framework/factories/registerTopologyExemplars.o -lfrontend -lintegrators -limd -lforces -ltopology -lparallel -lio -lbase -lpng --- Makefile --- cd .. && /bin/sh ./config.status applications/Makefile config.status: creating applications/Makefile --- Makefile --- cd . && /bin/sh ./config.status Makefile config.status: creating Makefile =========================================================================== =======================<phase: run-depends >============================ ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xt.pc - found ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/sm.pc - found ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/ice.pc - found ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xext.pc - found ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found ===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xi.pc - found =========================================================================== =======================<phase: stage >============================ ===> Staging for protomol-2.0.3_14 ===> Generating temporary packing list Making install in framework Making install in base cd ../.. && /bin/sh ./config.status framework/base/Makefile config.status: creating framework/base/Makefile Making install in io cd ../.. && /bin/sh ./config.status framework/io/Makefile config.status: creating framework/io/Makefile Making install in parallel cd ../.. && /bin/sh ./config.status framework/parallel/Makefile config.status: creating framework/parallel/Makefile Making install in topology cd ../.. && /bin/sh ./config.status framework/topology/Makefile config.status: creating framework/topology/Makefile Making install in forces cd ../.. && /bin/sh ./config.status framework/forces/Makefile config.status: creating framework/forces/Makefile Making install in imd cd ../.. && /bin/sh ./config.status framework/imd/Makefile config.status: creating framework/imd/Makefile Making install in integrators cd ../.. && /bin/sh ./config.status framework/integrators/Makefile config.status: creating framework/integrators/Makefile Making install in frontend cd ../.. && /bin/sh ./config.status framework/frontend/Makefile config.status: creating framework/frontend/Makefile Making install in factories cd ../.. && /bin/sh ./config.status framework/factories/Makefile config.status: creating framework/factories/Makefile cd .. && /bin/sh ./config.status framework/Makefile config.status: creating framework/Makefile Making install in applications Making install in protomol-app cd ../.. && /bin/sh ./config.status applications/protomol-app/Makefile config.status: creating applications/protomol-app/Makefile /bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin install -s -m 555 protomol /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/protomol Making install in coulomb-app /bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin install -s -m 555 coulomb /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/coulomb Making install in dcd2dcd-app /bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin install -s -m 555 dcd2dcd /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/dcd2dcd Making install in coords2coords-app /bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin install -s -m 555 coords2coords /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/coords2coords Making install in xyzviz-app /bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin install -s -m 555 xyzviz /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/xyzviz Making install in iSGProtomol-app Making install in base Making install in io Making install in forces Making install in frontend Making install in factories Making install in integrators /bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin install -s -m 555 iSGProtomol /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/iSGProtomol cd /wrkdirs/usr/ports/biology/protomol/work/protomol/examples ; /bin/sh -c '(/usr/bin/find -Ed $1 $3 | /usr/bin/cpio -dumpl $2 >/dev/null 2>&1) && /usr/bin/find -Ed $1 $3 \( -type d -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 755 "$@"'\'' . {} + -o -type f -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 0644 "$@"'\'' . {} + \)' COPYTREE_SHARE . /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/share/examples/protomol "! -name .cvsignore" *** Error code 1 Stop. make: stopped in /usr/ports/biology/protomol _______________________________________________ [email protected] mailing list https://lists.freebsd.org/mailman/listinfo/freebsd-pkg-fallout To unsubscribe, send any mail to "[email protected]"
