[package - 10amd64-quarterly][biology/protomol] Failed for protomol-2.0.3_9 in build

pkg-fallout at FreeBSD.org pkg-fallout at FreeBSD.org
Wed Aug 27 15:58:09 UTC 2014


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:     sangwoos at gmail.com
Last committer: zeising at FreeBSD.org
Ident:          $FreeBSD: branches/2014Q3/biology/protomol/Makefile 351411 2014-04-16 18:28:47Z zeising $
Log URL:        http://beefy2.isc.freebsd.org/data/10amd64-quarterly/2014-08-27_15h21m01s/logs/protomol-2.0.3_9.log
Build URL:      http://beefy2.isc.freebsd.org/build.html?mastername=10amd64-quarterly&build=2014-08-27_15h21m01s
Log:

====>> Building biology/protomol
build started at Wed Aug 27 15:53:58 UTC 2014
port directory: /usr/ports/biology/protomol
building for: FreeBSD 10amd64-quarterly-job-08 10.0-RELEASE-p7 FreeBSD 10.0-RELEASE-p7 amd64
maintained by: sangwoos at gmail.com
Makefile ident:      $FreeBSD: branches/2014Q3/biology/protomol/Makefile 351411 2014-04-16 18:28:47Z zeising $
Poudriere version: 3.1-pre
Host OSVERSION: 1100027
Jail OSVERSION: 1000510

---Begin Environment---
OSVERSION=1000510
UNAME_v=FreeBSD 10.0-RELEASE-p7
UNAME_r=10.0-RELEASE-p7
BLOCKSIZE=K
MAIL=/var/mail/root
STATUS=1
SAVED_TERM=screen
MASTERMNT=/usr/local/poudriere/data/.m/10amd64-quarterly/ref
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin
POUDRIERE_BUILD_TYPE=bulk
PKGNAME=protomol-2.0.3_9
OLDPWD=/root/poudriere
PWD=/usr/local/poudriere/data/.m/10amd64-quarterly/ref/.p/pool
MASTERNAME=10amd64-quarterly
USER=root
HOME=/root
POUDRIERE_VERSION=3.1-pre
LOCALBASE=/usr/local
PACKAGE_BUILDING=yes
---End Environment---

---Begin OPTIONS List---
===> The following configuration options are available for protomol-2.0.3_9:
     GLUT=on: OpenGL Utility Toolkit 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--
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" 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" 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--
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" 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" NO_PIE=yes 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="" LIBS=""  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--

--PLIST_SUB--
OSREL=10.0
PREFIX=%D
LOCALBASE=/usr/local
PORTDOCS=""
PORTEXAMPLES=""
PORTDATA=""
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
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
#### /usr/local/etc/poudriere.d/make.conf ####
WITH_PKGNG=yes
#WITH_PKGNG=devel
# clean-restricted ran via poudriere.conf NO_RESTRICTED
#NO_RESTRICTED=yes
DISABLE_MAKE_JOBS=poudriere
---End make.conf---
=======================<phase: check-sanity   >============================
===========================================================================
=======================<phase: pkg-depends    >============================
===>   protomol-2.0.3_9 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-1.2.7_4.txz
Installing pkg-1.2.7_4... done
If you are upgrading from the old package format, first run:

  # pkg2ng
===>   Returning to build of protomol-2.0.3_9
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===> Fetching all distfiles required by protomol-2.0.3_9 for building
===========================================================================
=======================<phase: checksum       >============================
===> Fetching all distfiles required by protomol-2.0.3_9 for building
=> SHA256 Checksum OK for protomol-2.0.3-tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===> Fetching all distfiles required by protomol-2.0.3_9 for building
===>  Extracting for protomol-2.0.3_9
=> SHA256 Checksum OK for protomol-2.0.3-tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for protomol-2.0.3_9
===>  Applying FreeBSD patches for protomol-2.0.3_9
===========================================================================
=======================<phase: build-depends  >============================
===>   protomol-2.0.3_9 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-1.1.2_2,1.txz
Installing libXmu-1.1.2_2,1...Installing libX11-1.6.2_2,1...Installing kbproto-1.0.6... done
Installing libXau-1.0.8_2...Installing xproto-7.0.25... done
 done
Installing libXdmcp-1.1.1_2... done
Installing libxcb-1.10_2...Installing libpthread-stubs-0.3_5... done
Installing libxml2-2.9.1_1... done
 done
 done
Installing libXext-1.3.2_2,1...Installing xextproto-7.3.0... done
 done
Installing libXt-1.1.4_2,1...Installing libSM-1.2.2_2,1...Installing libICE-1.0.8_2,1... done
 done
 done
 done
===>   Returning to build of protomol-2.0.3_9
===>   protomol-2.0.3_9 depends on file: /usr/local/libdata/pkgconfig/xt.pc - found
===>   protomol-2.0.3_9 depends on file: /usr/local/libdata/pkgconfig/sm.pc - found
===>   protomol-2.0.3_9 depends on file: /usr/local/libdata/pkgconfig/ice.pc - found
===>   protomol-2.0.3_9 depends on file: /usr/local/libdata/pkgconfig/xext.pc - found
===>   protomol-2.0.3_9 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found
===>   protomol-2.0.3_9 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_2,1.txz
Installing libXi-1.7.2_2,1...Installing inputproto-2.3... done
Installing libXfixes-5.0.1_2...Installing fixesproto-5.0... done
 done
 done
===>   Returning to build of protomol-2.0.3_9
===========================================================================
=======================<phase: lib-depends    >============================
===>   protomol-2.0.3_9 depends on shared library: libpng15.so - not found
===>    Verifying for libpng15.so in /usr/ports/graphics/png
===>   Installing existing package /packages/All/png-1.5.18.txz
Installing png-1.5.18... done
===>   Returning to build of protomol-2.0.3_9
===>   protomol-2.0.3_9 depends on shared library: libjpeg.so - not found
===>    Verifying for libjpeg.so in /usr/ports/graphics/jpeg
===>   Installing existing package /packages/All/jpeg-8_5.txz
Installing jpeg-8_5... done
===>   Returning to build of protomol-2.0.3_9
===>   protomol-2.0.3_9 depends on shared library: libtiff.so - not found
===>    Verifying for libtiff.so in /usr/ports/graphics/tiff
===>   Installing existing package /packages/All/tiff-4.0.3_4.txz
Installing tiff-4.0.3_4...Installing jbigkit-2.1_1... done
 done
===>   Returning to build of protomol-2.0.3_9
===>   protomol-2.0.3_9 depends on shared library: libglut.so - not found
===>    Verifying for libglut.so in /usr/ports/graphics/freeglut
===>   Installing existing package /packages/All/freeglut-2.8.1_2.txz
Installing freeglut-2.8.1_2...Installing libGLU-9.0.0...Installing libGL-7.6.1_4...Installing dri2proto-2.8... done
Installing expat-2.1.0_1... done
Installing libXdamage-1.1.4_2...Installing damageproto-1.2.1... done
 done
Installing libXxf86vm-1.1.3_2...Installing xf86vidmodeproto-2.3.1... done
 done
Installing libdrm-2.4.17_1...Installing libpciaccess-0.13.2_2...Installing pciids-20140620... done
 done
 done
 done
 done
Installing libXrandr-1.4.2_2...Installing libXrender-0.9.8_2...Installing renderproto-0.11.1... done
 done
Installing randrproto-1.4.0... 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).

<snip>
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 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<const MTSIntegrator*>(prototype))){
             ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
IntegratorFactoryDetails.cpp:178:13: note: place parentheses around the '&&' expression to silence this warning
             i > 0 && dynamic_cast<const MTSIntegrator*>(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<ProtoMol::PeriodicBoundaryConditions>::evaluate' requested here
    ForceFactory::registerExemplar(new ImproperSystemForce<PeriodicBoundaryConditions>());
                                       ^
./../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<ProtoMol::PeriodicBoundaryConditions>::parallelEvaluate' requested here
    ForceFactory::registerExemplar(new ImproperSystemForce<PeriodicBoundaryConditions>());
                                       ^
./../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<ProtoMol::PeriodicBoundaryConditions>::evaluate' requested here
    ForceFactory::registerExemplar(new DihedralSystemForce<PeriodicBoundaryConditions>());
                                       ^
./../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<ProtoMol::PeriodicBoundaryConditions>::parallelEvaluate' requested here
    ForceFactory::registerExemplar(new DihedralSystemForce<PeriodicBoundaryConditions>());
                                       ^
./../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<ProtoMol::PeriodicBoundaryConditions>::evaluate' requested here
    ForceFactory::registerExemplar(new HarmDihedralSystemForce<PeriodicBoundaryConditions>());
                                       ^
./../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<ProtoMol::PeriodicBoundaryConditions>::parallelEvaluate' requested here
    ForceFactory::registerExemplar(new HarmDihedralSystemForce<PeriodicBoundaryConditions>());
                                       ^
./../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[4]: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol/framework/factories
*** Error code 1

Stop.
make[3]: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol/framework
*** Error code 1

Stop.
make[2]: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol
*** Error code 1

Stop.
make[1]: stopped in /wrkdirs/usr/ports/biology/protomol/work/protomol
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/protomol


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