[MacPorts] #19422: Problem compiling openmpi-1.3.2

MacPorts noreply at macports.org
Fri Apr 24 08:32:08 PDT 2009 

#19422: Problem compiling openmpi-1.3.2
----------------------------------+-----------------------------------------
 Reporter:  lvcargnini@…          |       Owner:  macports-tickets@…                   
     Type:  defect                |      Status:  new                                  
 Priority:  High                  |   Milestone:  Port Bugs                            
Component:  ports                 |     Version:  1.7.1                                
 Keywords:  openmpi               |        Port:                                       
----------------------------------+-----------------------------------------
 Here follows the problem reported by my ports.
 command:
 sudo port upgrade outdated

 output:
 --->  Fetching openmpi
 --->  Attempting to fetch openmpi-1.3.2.tar.bz2 from
 ftp://ftp5.freebsd.org/pub/FreeBSD/ports/distfiles/
 --->  Attempting to fetch openmpi-1.3.2.tar.bz2 from
 ftp://ftp5.freebsd.org/pub/FreeBSD/ports/local-distfiles/
 --->  Attempting to fetch openmpi-1.3.2.tar.bz2 from http://www.open-
 mpi.org/software/ompi/v1.3/downloads/
 --->  Verifying checksum(s) for openmpi
 --->  Extracting openmpi
 --->  Configuring openmpi
 --->  Building openmpi
 Error: Target org.macports.build returned: shell command " cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/build"
 && make all " returned error 2
 Command output: /bin/sh ../../../../libtool --tag=CC   --mode=link
 /usr/bin/gcc-4.0  -DNDEBUG -O2 -finline-functions -fno-strict-aliasing
 -fvisibility=hidden -module -avoid-version -export-dynamic
 -L/opt/local/lib  -o mca_routed_linear.la -rpath /opt/local/lib/openmpi
 routed_linear.lo routed_linear_component.lo  -lutil
 libtool: link: ar cru .libs/mca_routed_linear.a  routed_linear.o
 routed_linear_component.o
 libtool: link: ranlib .libs/mca_routed_linear.a
 libtool: link: ( cd ".libs" && rm -f "mca_routed_linear.la" && ln -s
 "../mca_routed_linear.la" "mca_routed_linear.la" )
 Making all in tools/orte-checkpoint
 make[2]: Nothing to be done for `all'.
 Making all in tools/orte-clean
 depbase=`echo orte-clean.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
         /usr/bin/gcc-4.0 -DHAVE_CONFIG_H -I.
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/orte/tools
 /orte-clean -I../../../opal/include -I../../../orte/include
 -I../../../ompi/include
 -I../../../opal/mca/paffinity/linux/plpa/src/libplpa
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2
 -I../../..
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/opal/include
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/orte/include
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/ompi/include
 -I/opt/local/include -D_REENTRANT  -DNDEBUG -O2 -finline-functions -fno-
 strict-aliasing  -fvisibility=hidden -MT orte-clean.o -MD -MP -MF
 $depbase.Tpo -c -o orte-clean.o
 /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/orte/tools
 /orte-clean/orte-clean.c &&\
         mv -f $depbase.Tpo $depbase.Po
 /bin/sh ../../../libtool --tag=CC   --mode=link /usr/bin/gcc-4.0  -DNDEBUG
 -O2 -finline-functions -fno-strict-aliasing  -fvisibility=hidden  -export-
 dynamic -L/opt/local/lib  -o orte-clean orte-clean.o ../../../orte
 /libopen-rte.la -lutil
 libtool: link: /usr/bin/gcc-4.0 -DNDEBUG -O2 -finline-functions -fno-
 strict-aliasing -fvisibility=hidden -o orte-clean orte-clean.o
 -L/opt/local/lib ../../../orte/.libs/libopen-rte.a
 /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/build/opal/.libs
 /libopen-pal.a -lutil
 Creating orte-clean.1 man page...
 Making all in tools/orte-iof
 depbase=`echo orte-iof.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\
         /usr/bin/gcc-4.0 -DHAVE_CONFIG_H -I.
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/orte/tools
 /orte-iof -I../../../opal/include -I../../../orte/include
 -I../../../ompi/include
 -I../../../opal/mca/paffinity/linux/plpa/src/libplpa
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2
 -I../../..
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/opal/include
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/orte/include
 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/ompi/include
 -I/opt/local/include -D_REENTRANT  -DNDEBUG -O2 -finline-functions -fno-
 strict-aliasing  -fvisibility=hidden -MT orte-iof.o -MD -MP -MF
 $depbase.Tpo -c -o orte-iof.o
 /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/openmpi-1.3.2/orte/tools
 /orte-iof/orte-iof.c &&\
         mv -f $depbase.Tpo $depbase.Po
 /bin/sh ../../../libtool --tag=CC   --mode=link /usr/bin/gcc-4.0  -DNDEBUG
 -O2 -finline-functions -fno-strict-aliasing  -fvisibility=hidden  -export-
 dynamic -L/opt/local/lib  -o orte-iof orte-iof.o ../../../orte/libopen-
 rte.la -lutil
 libtool: link: /usr/bin/gcc-4.0 -DNDEBUG -O2 -finline-functions -fno-
 strict-aliasing -fvisibility=hidden -o orte-iof orte-iof.o
 -L/opt/local/lib ../../../orte/.libs/libopen-rte.a
 /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/build/opal/.libs
 /libopen-pal.a -lutil
 Undefined symbols:
   "_orte_iof", referenced from:
       _orte_iof$non_lazy_ptr in orte-iof.o
   "_orte_routed", referenced from:
       _orte_routed$non_lazy_ptr in libopen-rte.a(hnp_contact.o)
       _orte_routed$non_lazy_ptr in libopen-rte.a(rml_base_contact.o)
 ld: symbol(s) not found
 collect2: ld returned 1 exit status
 make[2]: *** [orte-iof] Error 1
 make[1]: *** [all-recursive] Error 1
 make: *** [all-recursive] Error 1

 Error: Unable to upgrade port: 1
 --->  Building openmpi
 Error: Target org.macports.build returned: shell command " cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/build"
 && make all " returned error 2
 Command output: Making all in mca/rmaps/round_robin
 make[2]: Nothing to be done for `all'.
 Making all in mca/rmaps/seq
 make[2]: Nothing to be done for `all'.
 Making all in mca/rml/oob
 make[2]: Nothing to be done for `all'.
 Making all in mca/routed/binomial
 make[2]: Nothing to be done for `all'.
 Making all in mca/routed/direct
 make[2]: Nothing to be done for `all'.
 Making all in mca/routed/linear
 make[2]: Nothing to be done for `all'.
 Making all in tools/orte-checkpoint
 make[2]: Nothing to be done for `all'.
 Making all in tools/orte-clean
 make[2]: Nothing to be done for `all'.
 Making all in tools/orte-iof
 /bin/sh ../../../libtool --tag=CC   --mode=link /usr/bin/gcc-4.0  -DNDEBUG
 -O2 -finline-functions -fno-strict-aliasing  -fvisibility=hidden  -export-
 dynamic -L/opt/local/lib  -o orte-iof orte-iof.o ../../../orte/libopen-
 rte.la -lutil
 libtool: link: /usr/bin/gcc-4.0 -DNDEBUG -O2 -finline-functions -fno-
 strict-aliasing -fvisibility=hidden -o orte-iof orte-iof.o
 -L/opt/local/lib ../../../orte/.libs/libopen-rte.a
 /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_openmpi/work/build/opal/.libs
 /libopen-pal.a -lutil
 Undefined symbols:
   "_orte_iof", referenced from:
       _orte_iof$non_lazy_ptr in orte-iof.o
   "_orte_routed", referenced from:
       _orte_routed$non_lazy_ptr in libopen-rte.a(hnp_contact.o)
       _orte_routed$non_lazy_ptr in libopen-rte.a(rml_base_contact.o)
 ld: symbol(s) not found
 collect2: ld returned 1 exit status
 make[2]: *** [orte-iof] Error 1
 make[1]: *** [all-recursive] Error 1
 make: *** [all-recursive] Error 1

 Error: Unable to upgrade port: 1
 --->  Configuring petsc
 Error: Target org.macports.configure returned: configure failure: shell
 command " cd
 "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5"
 &&
 /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/configure.py
 --prefix=/opt/local --with-python --with-debugging=0 --with-c-support=1
 --with-c++-support=1 --with-pic=fPIC --prefix=/opt/local/lib/petsc --with-
 cc=/opt/local/bin/openmpicc --with-cxx=/opt/local/bin/openmpicxx --with-
 fc=/opt/local/bin/openmpif90 COPTFLAGS=-O3 CXXOPTFLAGS=-O3 FOPTFLAGS=-O3 "
 returned error 1
 Command output: TESTING: configureMkdir from
 config.programs(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/programs.py:21)
 TESTING: configurePrograms from
 config.programs(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/programs.py:43)
 TESTING: configureDebuggers from
 PETSc.utilities.debuggers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/debuggers.py:22)
 TESTING: configureMake from
 PETSc.utilities.Make(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/Make.py:21)
 TESTING: configureCLanguage from
 PETSc.utilities.languages(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/languages.py:43)
 TESTING: configureLanguageSupport from
 PETSc.utilities.languages(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/languages.py:49)
 TESTING: configureExternC from
 PETSc.utilities.languages(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/languages.py:66)
 TESTING: configureFortranLanguage from
 PETSc.utilities.languages(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/languages.py:72)
 TESTING: configureMercurial from
 config.sourceControl(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/sourceControl.py:23)
 TESTING: configureCVS from
 config.sourceControl(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/sourceControl.py:30)
 TESTING: configureSubversion from
 config.sourceControl(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/sourceControl.py:35)
 TESTING: configureDirectories from
 PETSc.utilities.petscdir(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/petscdir.py:37)
 TESTING: configureExternalPackagesDir from
 PETSc.utilities.petscdir(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/petscdir.py:109)
 TESTING: configureInstallationMethod from
 PETSc.utilities.petscdir(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/petscdir.py:116)
 TESTING: configureETags from
 PETSc.utilities.Etags(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/Etags.py:27)
 TESTING: getDatafilespath from
 PETSc.utilities.dataFilesPath(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/PETSc/utilities/dataFilesPath.py:29)
 TESTING: checkMPICompilerOverride from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:1290)
 TESTING: checkVendor from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:273)
 TESTING: checkInitialFlags from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:283)
 TESTING: checkCCompiler from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:394)
 TESTING: checkCPreprocessor from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:451)
 TESTING: checkCxxCompiler from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:557)
 TESTING: checkCxxPreprocessor from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:616)
 TESTING: checkFortranCompiler from
 config.setCompilers(/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_math_petsc/work/petsc-3.0.0-p5/config/BuildSystem/config/setCompilers.py:726)
 *********************************************************************************
          UNABLE to CONFIGURE with GIVEN OPTIONS    (see configure.log for
 details):
 ---------------------------------------------------------------------------------------
 Fortran compiler you provided with --with-fc=/opt/local/bin/openmpif90
 does not work
 *********************************************************************************


 Error: Unable to upgrade port: 1

-- 
Ticket URL: <http://trac.macports.org/ticket/19422>
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