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Date:      Wed, 27 Aug 2014 03:34:43 GMT
From:      pkg-fallout@FreeBSD.org
To:        pkg-fallout@FreeBSD.org
Subject:   [package - head-i386-default][biology/protomol] Failed for protomol-2.0.3_9 in build
Message-ID:  <201408270334.s7R3YhEM036800@beefy1.isc.freebsd.org>

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You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.

Maintainer:     ports@FreeBSD.org
Last committer: bapt@FreeBSD.org
Ident:          $FreeBSD: head/biology/protomol/Makefile 362705 2014-07-23 16:44:27Z bapt $
Log URL:        http://beefy1.isc.freebsd.org/data/head-i386-default/2014-08-27_02h45m49s/logs/protomol-2.0.3_9.log
Build URL:      http://beefy1.isc.freebsd.org/build.html?mastername=head-i386-default&build=2014-08-27_02h45m49s
Log:

====>> Building biology/protomol
build started at Wed Aug 27 03:29:14 UTC 2014
port directory: /usr/ports/biology/protomol
building for: FreeBSD head-i386-default-job-13 11.0-CURRENT FreeBSD 11.0-CURRENT r270192 i386
maintained by: ports@FreeBSD.org
Makefile ident:      $FreeBSD: head/biology/protomol/Makefile 362705 2014-07-23 16:44:27Z bapt $
Poudriere version: 3.1-pre
Host OSVERSION: 1100027
Jail OSVERSION: 1100029




!!! Jail is newer than host. (Jail: 1100029, Host: 1100027) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!



---Begin Environment---
UNAME_m=i386
UNAME_p=i386
OSVERSION=1100029
UNAME_v=FreeBSD 11.0-CURRENT r270192
UNAME_r=11.0-CURRENT
BLOCKSIZE=K
MAIL=/var/mail/root
STATUS=1
SAVED_TERM=screen
MASTERMNT=/usr/local/poudriere/data/.m/head-i386-default/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=/usr/local/poudriere/data/logs/bulk
PWD=/usr/local/poudriere/data/.m/head-i386-default/ref/.p/pool
MASTERNAME=head-i386-default
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=11.0
PREFIX=%D
LOCALBASE=/usr/local
RESETPREFIX=/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---
ARCH=i386
MACHINE=i386
MACHINE_ARCH=i386
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
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
#WITH_PKGNG=devel
# clean-restricted via poudriere.conf NO_RESTRICTED
#NO_RESTRICTED=yes
DISABLE_MAKE_JOBS=poudriere
---End make.conf---
=======================<phase: check-sanity   >============================
===>   NOTICE:

This port is deprecated; you may wish to reconsider installing it:

Not staged. See http://lists.freebsd.org/pipermail/freebsd-ports-announce/2014-May/000080.html.

It is scheduled to be removed on or after 2014-08-31.

===========================================================================
=======================<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-1.3.7.txz
[head-i386-default-job-13] Installing pkg-1.3.7... done
Message for pkg-1.3.7:
 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          >============================
===>   NOTICE:

This port is deprecated; you may wish to reconsider installing it:

Not staged. See http://lists.freebsd.org/pipermail/freebsd-ports-announce/2014-May/000080.html.

It is scheduled to be removed on or after 2014-08-31.

===> Fetching all distfiles required by protomol-2.0.3_9 for building
===========================================================================
=======================<phase: checksum       >============================
===>   NOTICE:

This port is deprecated; you may wish to reconsider installing it:

Not staged. See http://lists.freebsd.org/pipermail/freebsd-ports-announce/2014-May/000080.html.

It is scheduled to be removed on or after 2014-08-31.

===> 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        >============================
===>   NOTICE:

This port is deprecated; you may wish to reconsider installing it:

Not staged. See http://lists.freebsd.org/pipermail/freebsd-ports-announce/2014-May/000080.html.

It is scheduled to be removed on or after 2014-08-31.

===> 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
[head-i386-default-job-13] Installing kbproto-1.0.6... done
[head-i386-default-job-13] Installing xproto-7.0.26... done
[head-i386-default-job-13] Installing libXau-1.0.8_2... done
[head-i386-default-job-13] Installing libXdmcp-1.1.1_2... done
[head-i386-default-job-13] Installing libpthread-stubs-0.3_5... done
[head-i386-default-job-13] Installing libxml2-2.9.1_1... done
[head-i386-default-job-13] Installing libxcb-1.10_2... done
[head-i386-default-job-13] Installing libX11-1.6.2_2,1... done
[head-i386-default-job-13] Installing xextproto-7.3.0... done
[head-i386-default-job-13] Installing libXext-1.3.2_2,1... done
[head-i386-default-job-13] Installing libICE-1.0.9,1... done
[head-i386-default-job-13] Installing libSM-1.2.2_2,1... done
[head-i386-default-job-13] Installing libXt-1.1.4_2,1... done
[head-i386-default-job-13] Installing libXmu-1.1.2_2,1... 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
<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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