Problem compiling openmpi-1.3.2

[lvcargnini@…]

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sudo port upgrade outdated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

[mf2k (Frank Schima)]

Duplicate of #18959.

[(none)]

Milestone Port Bugs deleted