[MOAB-dev] Build failed in Jenkins: moab_par_zoltan #2

Mon Oct 21 16:13:03 CDT 2013

See <https://jenkins-ci.mcs.anl.gov/job/moab_par_zoltan/2/>

------------------------------------------
Started by an SCM change
[EnvInject] - Loading node environment variables.
Building remotely on churn.mcs.anl.gov in workspace <https://jenkins-ci.mcs.anl.gov/job/moab_par_zoltan/ws/>
Checkout:moab_par_zoltan / <https://jenkins-ci.mcs.anl.gov/job/moab_par_zoltan/ws/> - hudson.remoting.Channel at 6e2ae12a:churn.mcs.anl.gov
Using strategy: Default
Last Built Revision: Revision eb9ac92ccd0af5fb762d42365b7bfd8f6b647a6a (origin/master)
Fetching changes from 1 remote Git repository
Fetching upstream changes from origin
Commencing build of Revision eb9ac92ccd0af5fb762d42365b7bfd8f6b647a6a (origin/master)
Checking out Revision eb9ac92ccd0af5fb762d42365b7bfd8f6b647a6a (origin/master)
[EnvInject] - Executing scripts and injecting environment variables after the SCM step.
[EnvInject] - Injecting as environment variables the properties content 
CUBIT13=/homes/fathom/3rdparty/cubit/Cubit64/Cubit-13.1
INSTALLDIR=/home/autotest/jenkins
HDF5PAR=/homes/fathom/3rdparty/hdf5-1.8.8-par-mpich2.1.5-gcc
NETCDF_PATH=/homes/fathom/3rdparty/netcdf/netcdf-4.2.1.1/gcc
PNETCDF_PATH=/homes/fathom/3rdparty/pnetcdf-mpich2-1.5
ZOLTAN_PATH=/homes/fathom/3rdparty/Zoltan_v3.3
PARMETIS_PATH=/homes/fathom/3rdparty/ParMETIS3_1/gcc
LD_LIBRARY_PATH=$CUBIT13/bin:$HDF5PAR/lib:/usr/lib/jvm/java-6-openjdk-amd64/jre/lib/amd64/server:/usr/lib/jvm/java-6-openjdk-amd64/jre/lib/amd64:/usr/lib/jvm/java-6-openjdk-amd64/jre/../lib/amd64

[EnvInject] - Variables injected successfully.
[moab_par_zoltan] $ /bin/sh -xe /tmp/hudson9043434640903974928.sh
+ autoreconf -fi
libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, `config'.
libtoolize: copying file `config/config.guess'
libtoolize: copying file `config/config.sub'
libtoolize: copying file `config/install-sh'
libtoolize: copying file `config/ltmain.sh'
libtoolize: putting macros in AC_CONFIG_MACRO_DIR, `config'.
libtoolize: copying file `config/libtool.m4'
libtoolize: copying file `config/ltoptions.m4'
libtoolize: copying file `config/ltsugar.m4'
libtoolize: copying file `config/ltversion.m4'
libtoolize: copying file `config/lt~obsolete.m4'
+ ./configure --prefix=/home/autotest/jenkins/moab --with-hdf5=/homes/fathom/3rdparty/hdf5-1.8.8-par-mpich2.1.5-gcc --with-cgm=/home/autotest/jenkins/cgm --enable-mbcoupler --enable-mbcslam --with-netcdf= --with-pnetcdf=/homes/fathom/3rdparty/pnetcdf-mpich2-1.5 --with-zoltan=ZOLTAN_PATH --with-parmetis=/homes/fathom/3rdparty/ParMETIS3_1/gcc
checking build system type... x86_64-unknown-linux-gnu
checking host system type... x86_64-unknown-linux-gnu
checking target system type... x86_64-unknown-linux-gnu
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... gawk
checking whether make sets $(MAKE)... yes
checking for sed... sed
checking for style of include used by make... GNU
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking dependency style of gcc... gcc3
checking how to run the C preprocessor... gcc -E
checking for g++... g++
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking dependency style of g++... gcc3
checking how to run the C++ preprocessor... g++ -E
checking for gfortran... gfortran
checking whether we are using the GNU Fortran compiler... yes
checking whether gfortran accepts -g... yes
checking for g77... no
checking for xlf... no
checking for f77... f77
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether f77 accepts -g... yes
checking whether ln -s works... yes
checking whether make sets $(MAKE)... (cached) yes
checking how to print strings... printf
checking for a sed that does not truncate output... sed
checking for grep that handles long lines and -e... /bin/grep
checking for egrep... /bin/grep -E
checking for fgrep... /bin/grep -F
checking for ld used by gcc... /usr/bin/ld
checking if the linker (/usr/bin/ld) is GNU ld... yes
checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B
checking the name lister (/usr/bin/nm -B) interface... BSD nm
checking the maximum length of command line arguments... 1572864
checking whether the shell understands some XSI constructs... yes
checking whether the shell understands "+="... yes
checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop
checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop
checking for /usr/bin/ld option to reload object files... -r
checking for objdump... objdump
checking how to recognize dependent libraries... pass_all
checking for dlltool... no
checking how to associate runtime and link libraries... printf %s\n
checking for ar... ar
checking for archiver @FILE support... @
checking for strip... strip
checking for ranlib... ranlib
checking command to parse /usr/bin/nm -B output from gcc object... ok
checking for sysroot... no
checking for mt... mt
checking if mt is a manifest tool... no
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking for dlfcn.h... yes
checking for objdir... .libs
checking if gcc supports -fno-rtti -fno-exceptions... no
checking for gcc option to produce PIC... -fPIC -DPIC
checking if gcc PIC flag -fPIC -DPIC works... yes
checking if gcc static flag -static works... yes
checking if gcc supports -c -o file.o... yes
checking if gcc supports -c -o file.o... (cached) yes
checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking whether stripping libraries is possible... yes
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking how to run the C++ preprocessor... g++ -E
checking for ld used by g++... /usr/bin/ld -m elf_x86_64
checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking for g++ option to produce PIC... -fPIC -DPIC
checking if g++ PIC flag -fPIC -DPIC works... yes
checking if g++ static flag -static works... yes
checking if g++ supports -c -o file.o... yes
checking if g++ supports -c -o file.o... (cached) yes
checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for f77 option to produce PIC... -fPIC
checking if f77 PIC flag -fPIC works... yes
checking if f77 static flag -static works... yes
checking if f77 supports -c -o file.o... yes
checking if f77 supports -c -o file.o... (cached) yes
checking whether the f77 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking if libtool supports shared libraries... yes
checking whether to build shared libraries... no
checking whether to build static libraries... yes
checking for gfortran option to produce PIC... -fPIC
checking if gfortran PIC flag -fPIC works... yes
checking if gfortran static flag -static works... yes
checking if gfortran supports -c -o file.o... yes
checking if gfortran supports -c -o file.o... (cached) yes
checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes
checking dynamic linker characteristics... (cached) GNU/Linux ld.so
checking how to hardcode library paths into programs... immediate
checking for known C compilers... GNU
checking for known compiler/OS combinations... GNU:x86_64
checking for known c++ compilers... GNU
checking for known compiler/OS combinations... GNU:x86_64
checking whether make supports nested variables... yes
checking whether byte ordering is bigendian... no
checking if platform is IBM BlueGene... no
checking for gunzip... gunzip -c
checking for gzip... (cached) gunzip -c
checking for zcat... (cached) gunzip -c
checking if C++ compiler supports template class specialization... yes
checking if C++ compiler supports template function specialization... yes
checking if g++ works... yes
checking how to get verbose linking output from gfortran... -v
checking for Fortran libraries of gfortran...  -L/usr/lib/gcc/x86_64-linux-gnu/4.6 -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../.. -lgfortran -lm -lquadmath
checking for dummy main to link with Fortran libraries... none
checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore
checking whether Fortran 77 supports Cray-style pointer... yes
checking for Fortran 77 compiler flag for Cray-style pointer... -fcray-pointer
checking whether Fortran 90 supports Cray-style pointer... yes
checking for Fortran 90 compiler flag for Cray-style pointer... -fcray-pointer
checking for vsnprintf... yes
checking if std::vector has templatized insert method... yes
checking if std::copy must be old SGI format... no
checking for inttypes.h... (cached) yes
checking for stdint.h... (cached) yes
checking for sys/types.h... (cached) yes
checking stddef.h usability... yes
checking stddef.h presence... yes
checking for stddef.h... yes
checking for stdlib.h... (cached) yes
checking size of void *... 8
checking for size_t... yes
checking for ptrdiff_t... yes
checking size of EntityHandle... 8
checking if iMesh support is to be built... yes
checking if iGeom support is to be built... no
configure: creating ./config.lt
config.lt: creating libtool
checking ieeefp.h usability... no
checking ieeefp.h presence... no
checking for ieeefp.h... no
checking for C++ unordered_map... std::tr1
checking for deflate in -lz... yes
checking for SZ_Decompress in -lsz... no
checking if HDF5 support is enabled... yes
checking hdf5.h usability... no
checking hdf5.h presence... no
checking for hdf5.h... no
checking for H5Fopen in -lhdf5... yes
configure: error: HDF5 library not found or not usable.
Build step 'Execute shell' marked build as failure