[package - main-arm64-default][biology/protomol] Failed for protomol-2.0.3_14 in stage
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Wed Apr 21 02:58:21 UTC 2021
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 at FreeBSD.org
Last committer: @FreeBSD.org
Ident: Makefile ident:
Log URL: http://ampere2.nyi.freebsd.org/data/main-arm64-default/p338d8ba0f777_s5a89498d19/logs/protomol-2.0.3_14.log
Build URL: http://ampere2.nyi.freebsd.org/build.html?mastername=main-arm64-default&build=p338d8ba0f777_s5a89498d19
Log:
=>> Building biology/protomol
build started at Wed Apr 21 02:46:52 UTC 2021
port directory: /usr/ports/biology/protomol
package name: protomol-2.0.3_14
building for: FreeBSD main-arm64-default-job-13 14.0-CURRENT FreeBSD 14.0-CURRENT 1400008 arm64
maintained by: ports at FreeBSD.org
Makefile ident:
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Host OSVERSION: 1300139
Jail OSVERSION: 1400008
Job Id: 13
!!! Jail is newer than host. (Jail: 1400008, Host: 1300139) !!!
!!! This is not supported. !!!
!!! Host kernel must be same or newer than jail. !!!
!!! Expect build failures. !!!
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===> The following configuration options are available for protomol-2.0.3_14:
EXAMPLES=on: Build and/or install examples
GLUT=on: OpenGL Utility Toolkit support
===> Use 'make config' to modify these settings
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ports at FreeBSD.org
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=======================<phase: check-sanity >============================
===> NOTICE:
The protomol port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port
===> License GPLv2 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> protomol-2.0.3_14 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.16.3.txz
[main-arm64-default-job-13] Installing pkg-1.16.3...
[main-arm64-default-job-13] Extracting pkg-1.16.3: .......... done
===> protomol-2.0.3_14 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of protomol-2.0.3_14
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> NOTICE:
The protomol port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://www.freebsd.org/doc/en/articles/contributing/ports-contributing.html#maintain-port
===> License GPLv2 accepted by the user
===> Fetching all distfiles required by protomol-2.0.3_14 for building
===========================================================================
=======================<phase: checksum >============================
<snip>
--- iSGIdealGasLennardJonesForce.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGIdealGasLennardJonesForce.o `test -f 'iSGIdealGasLennardJonesForce.cpp' || echo './'`iSGIdealGasLennardJonesForce.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGLennardJonesTableForce.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGLennardJonesTableForce.o `test -f 'iSGLennardJonesTableForce.cpp' || echo './'`iSGLennardJonesTableForce.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGCoulombEwaldRealForce.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGCoulombEwaldRealForce.o `test -f 'iSGCoulombEwaldRealForce.cpp' || echo './'`iSGCoulombEwaldRealForce.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGCoulombEwaldRealTableForce.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/forces -I../../../framework/base -I../../../framework/topology -I../../../framework/forces -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../framework/parallel -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGCoulombEwaldRealTableForce.o `test -f 'iSGCoulombEwaldRealTableForce.cpp' || echo './'`iSGCoulombEwaldRealTableForce.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- Makefile ---
cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/forces/Makefile
config.status: creating applications/iSGProtomol-app/forces/Makefile
--- libISGforces.a ---
rm -f libISGforces.a
ar cru libISGforces.a iSGAngleSystemForceBase.o iSGBondSystemForceBase.o iSGDihedralSystemForceBase.o iSGImproperSystemForceBase.o iSGLennardJonesForce.o iSGCoulombForce.o iSGNonbondedFullEwaldSystemForceBase.o iSGNonbondedPMEwaldSystemForceBase.o iSGIdealGasCoulombForce.o iSGIdealGasLennardJonesForce.o iSGLennardJonesTableForce.o iSGCoulombEwaldRealForce.o iSGCoulombEwaldRealTableForce.o
ranlib libISGforces.a
Making all in frontend
--- OutputFinalXSC.o ---
--- OutputISGProperties.o ---
--- OutputFinalXSC.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o OutputFinalXSC.o `test -f 'OutputFinalXSC.cpp' || echo './'`OutputFinalXSC.cpp
--- OutputISGProperties.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o OutputISGProperties.o `test -f 'OutputISGProperties.cpp' || echo './'`OutputISGProperties.cpp
--- OutputFinalXSC.o ---
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- OutputISGProperties.o ---
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- OutputFinalPSF.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o OutputFinalPSF.o `test -f 'OutputFinalPSF.cpp' || echo './'`OutputFinalPSF.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- buildISGTopology.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/base -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/integrators -I../../../framework/base -I../../../framework/io -I../../../framework/frontend -I../../../framework/topology -I../../../framework/integrators -I../../../framework/forces -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o buildISGTopology.o `test -f 'buildISGTopology.cpp' || echo './'`buildISGTopology.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- Makefile ---
cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/frontend/Makefile
config.status: creating applications/iSGProtomol-app/frontend/Makefile
--- libISGfrontend.a ---
rm -f libISGfrontend.a
ar cru libISGfrontend.a OutputFinalXSC.o OutputISGProperties.o OutputFinalPSF.o buildISGTopology.o
ranlib libISGfrontend.a
Making all in factories
--- iSGregisterOutputExemplars.o ---
--- iSGregisterIntegratorExemplars.o ---
--- iSGregisterOutputExemplars.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterOutputExemplars.o `test -f 'iSGregisterOutputExemplars.cpp' || echo './'`iSGregisterOutputExemplars.cpp
--- iSGregisterIntegratorExemplars.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterIntegratorExemplars.o `test -f 'iSGregisterIntegratorExemplars.cpp' || echo './'`iSGregisterIntegratorExemplars.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterOutputExemplars.o ---
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplars.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplars.o `test -f 'iSGregisterForceExemplars.cpp' || echo './'`iSGregisterForceExemplars.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplarsBonded.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsBonded.o `test -f 'iSGregisterForceExemplarsBonded.cpp' || echo './'`iSGregisterForceExemplarsBonded.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplarsCutoff.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsCutoff.o `test -f 'iSGregisterForceExemplarsCutoff.cpp' || echo './'`iSGregisterForceExemplarsCutoff.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplarsFull.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsFull.o `test -f 'iSGregisterForceExemplarsFull.cpp' || echo './'`iSGregisterForceExemplarsFull.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplarsSimpleFull.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsSimpleFull.o `test -f 'iSGregisterForceExemplarsSimpleFull.cpp' || echo './'`iSGregisterForceExemplarsSimpleFull.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplarsFastElectrostatic.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsFastElectrostatic.o `test -f 'iSGregisterForceExemplarsFastElectrostatic.cpp' || echo './'`iSGregisterForceExemplarsFastElectrostatic.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- iSGregisterForceExemplarsIdealGas.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/io -I../../../applications/iSGProtomol-app/base -I../../../framework/io -I../../../framework/base -I../../../applications/iSGProtomol-app/topology -I../../../applications/iSGProtomol-app/forces -I../../../framework/topology -I../../../applications/iSGProtomol-app/frontend -I../../../framework/frontend -I../../../framework/integrators -I../../../applications/iSGProtomol-app -I../../../applications/iSGProtomol-app/integrators -I../../../applications/iSGProtomol-app/factories -I../../../framework/parallel -I../../../framework/forces -I../../../framework/factories -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGregisterForceExemplarsIdealGas.o `test -f 'iSGregisterForceExemplarsIdealGas.cpp' || echo './'`iSGregisterForceExemplarsIdealGas.cpp
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- Makefile ---
cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/factories/Makefile
config.status: creating applications/iSGProtomol-app/factories/Makefile
--- libISGfactories.a ---
rm -f libISGfactories.a
ar cru libISGfactories.a iSGregisterOutputExemplars.o iSGregisterIntegratorExemplars.o iSGregisterForceExemplars.o iSGregisterForceExemplarsBonded.o iSGregisterForceExemplarsCutoff.o iSGregisterForceExemplarsFull.o iSGregisterForceExemplarsSimpleFull.o iSGregisterForceExemplarsFastElectrostatic.o iSGregisterForceExemplarsIdealGas.o
ranlib libISGfactories.a
Making all in integrators
--- iSGIntegrator.o ---
--- ModifierISG.o ---
--- iSGIntegrator.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../framework/base -I../../../framework/frontend -I../../../applications/iSGProtomol-app/base -I../../../framework/topology -I../../../framework/frontend -I../../../framework/integrators -I../../../framework/forces -I../../../framework/parallel -I../../../applications/iSGProtomol-app/io -I../../../framework/io -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGIntegrator.o `test -f 'iSGIntegrator.cpp' || echo './'`iSGIntegrator.cpp
--- ModifierISG.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../../.. -I../../../applications/iSGProtomol-app/frontend -I../../../framework/base -I../../../framework/frontend -I../../../applications/iSGProtomol-app/base -I../../../framework/topology -I../../../framework/frontend -I../../../framework/integrators -I../../../framework/forces -I../../../framework/parallel -I../../../applications/iSGProtomol-app/io -I../../../framework/io -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o ModifierISG.o `test -f 'ModifierISG.cpp' || echo './'`ModifierISG.cpp
--- iSGIntegrator.o ---
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- ModifierISG.o ---
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- Makefile ---
cd ../../.. && /bin/sh ./config.status applications/iSGProtomol-app/integrators/Makefile
config.status: creating applications/iSGProtomol-app/integrators/Makefile
--- libISGintegrators.a ---
rm -f libISGintegrators.a
ar cru libISGintegrators.a iSGIntegrator.o ModifierISG.o
ranlib libISGintegrators.a
--- iSGProtomol.o ---
--- Makefile ---
--- iSGProtomol.o ---
c++ -DHAVE_CONFIG_H -I. -I. -I../.. -I../../framework/base -I../../framework/io -I../../framework/parallel -I../../framework/topology -I../../framework/forces -I../../framework/imd -I../../framework/integrators -I../../framework/frontend -I../../framework/factories -I../../applications/iSGProtomol-app/base -I../../applications/iSGProtomol-app/io -I../../applications/iSGProtomol-app/forces -I../../applications/iSGProtomol-app/frontend -I../../applications/iSGProtomol-app/factories -I../../applications/iSGProtomol-app/integrators -I/usr/local/include -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -c -o iSGProtomol.o `test -f 'iSGProtomol.cpp' || echo './'`iSGProtomol.cpp
--- Makefile ---
cd ../.. && /bin/sh ./config.status applications/iSGProtomol-app/Makefile
--- iSGProtomol.o ---
c++: warning: argument unused during compilation: '-L/usr/local/lib' [-Wunused-command-line-argument]
--- Makefile ---
config.status: creating applications/iSGProtomol-app/Makefile
--- iSGProtomol.o ---
iSGProtomol.cpp:90:6: warning: illegal character encoding in string literal [-Winvalid-source-encoding]
<< PACKAGE_CITE <<endl
^~~~~~~~~~~~
./../protomol_config.h:120:278: note: expanded from macro 'PACKAGE_CITE'
#define PACKAGE_CITE "Please cite T. Matthey, T. Cickovski, S. S. Hampton, A. Ko, Q. Ma, M. Nyerges, T. Raeder,\nT. Slabach, and J. A. Izaguirre. ProtoMol: An object-oriented framework for prototyping\nnovel algorithms for molecular dynamics. ACM Trans. Math. Softw., 30(3):237<AD>265, 2004."
^~~~
1 warning generated.
--- iSGProtomol ---
c++ -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -L/usr/local/lib -std=c++98 -fstack-protector-strong -o iSGProtomol iSGProtomol.o -L../../framework/base -L../../framework/io -L../../framework/parallel -L../../framework/topology -L../../framework/forces -L../../framework/imd -L../../framework/integrators -L../../framework/frontend -L../../applications/iSGProtomol-app/base -L../../applications/iSGProtomol-app/io -L../../applications/iSGProtomol-app/forces -L../../applications/iSGProtomol-app/frontend -L../../applications/iSGProtomol-app/factories -L../../applications/iSGProtomol-app/integrators -lISGintegrators -lISGfactories -lISGfrontend -lISGforces -lISGio -lISGbase ../../framework/factories/registerTopologyExemplars.o -lfrontend -lintegrators -limd -lforces -ltopology -lparallel -lio -lbase -lpng
--- Makefile ---
cd .. && /bin/sh ./config.status applications/Makefile
config.status: creating applications/Makefile
--- Makefile ---
cd . && /bin/sh ./config.status Makefile
config.status: creating Makefile
===========================================================================
=======================<phase: run-depends >============================
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xmu.pc - found
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xt.pc - found
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/sm.pc - found
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/ice.pc - found
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xext.pc - found
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/x11.pc - found
===> protomol-2.0.3_14 depends on file: /usr/local/libdata/pkgconfig/xi.pc - found
===========================================================================
=======================<phase: stage >============================
===> Staging for protomol-2.0.3_14
===> Generating temporary packing list
Making install in framework
Making install in base
cd ../.. && /bin/sh ./config.status framework/base/Makefile
config.status: creating framework/base/Makefile
Making install in io
cd ../.. && /bin/sh ./config.status framework/io/Makefile
config.status: creating framework/io/Makefile
Making install in parallel
cd ../.. && /bin/sh ./config.status framework/parallel/Makefile
config.status: creating framework/parallel/Makefile
Making install in topology
cd ../.. && /bin/sh ./config.status framework/topology/Makefile
config.status: creating framework/topology/Makefile
Making install in forces
cd ../.. && /bin/sh ./config.status framework/forces/Makefile
config.status: creating framework/forces/Makefile
Making install in imd
cd ../.. && /bin/sh ./config.status framework/imd/Makefile
config.status: creating framework/imd/Makefile
Making install in integrators
cd ../.. && /bin/sh ./config.status framework/integrators/Makefile
config.status: creating framework/integrators/Makefile
Making install in frontend
cd ../.. && /bin/sh ./config.status framework/frontend/Makefile
config.status: creating framework/frontend/Makefile
Making install in factories
cd ../.. && /bin/sh ./config.status framework/factories/Makefile
config.status: creating framework/factories/Makefile
cd .. && /bin/sh ./config.status framework/Makefile
config.status: creating framework/Makefile
Making install in applications
Making install in protomol-app
cd ../.. && /bin/sh ./config.status applications/protomol-app/Makefile
config.status: creating applications/protomol-app/Makefile
/bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin
install -s -m 555 protomol /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/protomol
Making install in coulomb-app
/bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin
install -s -m 555 coulomb /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/coulomb
Making install in dcd2dcd-app
/bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin
install -s -m 555 dcd2dcd /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/dcd2dcd
Making install in coords2coords-app
/bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin
install -s -m 555 coords2coords /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/coords2coords
Making install in xyzviz-app
/bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin
install -s -m 555 xyzviz /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/xyzviz
Making install in iSGProtomol-app
Making install in base
Making install in io
Making install in forces
Making install in frontend
Making install in factories
Making install in integrators
/bin/sh ../../mkinstalldirs /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin
install -s -m 555 iSGProtomol /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/bin/iSGProtomol
cd /wrkdirs/usr/ports/biology/protomol/work/protomol/examples ; /bin/sh -c '(/usr/bin/find -Ed $1 $3 | /usr/bin/cpio -dumpl $2 >/dev/null 2>&1) && /usr/bin/find -Ed $1 $3 \( -type d -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 755 "$@"'\'' . {} + -o -type f -exec /bin/sh -c '\''cd '\''$2'\'' && chmod 0644 "$@"'\'' . {} + \)' COPYTREE_SHARE . /wrkdirs/usr/ports/biology/protomol/work/stage/usr/local/share/examples/protomol "! -name .cvsignore"
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/protomol
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