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:     sangw...@gmail.com
Last committer: b...@freebsd.org
Ident:          $FreeBSD: head/biology/protomol/Makefile 327709 2013-09-20 
15:55:44Z bapt $
Log URL:        
http://beefy1.isc.freebsd.org/bulk/10i386-default/2013-10-17_04h52m04s/logs/protomol-2.0.3_8.log
Build URL:      
http://beefy1.isc.freebsd.org/bulk/10i386-default/2013-10-17_04h52m04s
Log:

====>> Building biology/protomol
build started at Thu Oct 17 14:05:13 UTC 2013
port directory: /usr/ports/biology/protomol
building for: FreeBSD 10i386-default-job-02 10.0-BETA1 FreeBSD 10.0-BETA1 
r256420 i386
maintained by: sangw...@gmail.com
Makefile ident:      $FreeBSD: head/biology/protomol/Makefile 327709 2013-09-20 
15:55:44Z bapt $
Poudriere version: 3.1-pre

---Begin Environment---
UNAME_m=i386
UNAME_p=i386
OSVERSION=1000500
UNAME_v=FreeBSD 10.0-BETA1 r256420
UNAME_r=10.0-BETA1
BLOCKSIZE=K
MAIL=/var/mail/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin
STATUS=1
MASTERMNT=/usr/local/poudriere/data/build/10i386-default/ref
PKG_EXT=txz
tpid=85151
POUDRIERE_BUILD_TYPE=bulk
PKGNG=1
PKGNAME=protomol-2.0.3_8
PKG_DELETE=/usr/local/sbin/pkg-static delete -y -f
PKG_ADD=/usr/local/sbin/pkg-static add
PWD=/root
MASTERNAME=10i386-default
USER=root
HOME=/root
POUDRIERE_VERSION=3.1-pre
LOCALBASE=/usr/local
PACKAGE_BUILDING=yes
PKG_VERSION=/poudriere/pkg-static version
PKG_BIN=/usr/local/sbin/pkg-static
---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---
ARCH=i386
MACHINE=i386
MACHINE_ARCH=i386
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
NO_RESTRICTED=yes
DISABLE_MAKE_JOBS=poudriere
---End make.conf---
===>  Cleaning for protomol-2.0.3_8
=======================<phase: check-config   >============================
===========================================================================
=======================<phase: pkg-depends    >============================
===>   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_8.txz
Installing pkg-1.1.4_8... done
If you are upgrading from the old package format, first run:

  # pkg2ng
===>   Returning to build of protomol-2.0.3_8
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===> Fetching all distfiles required by protomol-2.0.3_8 for building
===========================================================================
=======================<phase: checksum       >============================
===> Fetching all distfiles required by protomol-2.0.3_8 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_8 for building
===>  Extracting for protomol-2.0.3_8
=> SHA256 Checksum OK for protomol-2.0.3-tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for protomol-2.0.3_8
===>  Applying FreeBSD patches for protomol-2.0.3_8
===========================================================================
=======================<phase: build-depends  >============================
===>   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-1.1.2,1.txz
Installing libXmu-1.1.2,1...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... done
Installing libpthread-stubs-0.3_3... done
 done
Installing libXext-1.3.2,1...Installing libX11-1.6.2,1...Installing 
kbproto-1.0.6... done
 done
 done
Installing libSM-1.2.2,1...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
===========================================================================
=======================<phase: lib-depends    >============================
===>   protomol-2.0.3_8 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.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-1.4.2... 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-20131010... 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 x...@freebsd.org if there are any issues and side
effects because of this.
===>   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
===========================================================================
=======================<phase: configure      >============================
===>  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
<snip>
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
===>  Cleaning for protomol-2.0.3_8
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