[Support #IJK-126633]: Compilation problem

> Oops. I forgot one had to explicitly redirect the stderr (durrr...)
> ./configure FC=f95 F77=g77 CC=gcc CXX=g++ --prefix=/users/lptl/wong/apps
> > probconf 2>&1
> make check >probmake  2>&1
> make install >probmakeinstall  2>&1
>
> Unidata netCDF Support wrote:
> >> I'm just wanting to install netCDF to be able to use MMTK.
> >>
> >> I don't remember the installation being problematic before (I don't
> >> remember having to declare so many environment variables)
> >>
> >> Version : 3.6.2
> >> ./configure FC=f95 F77=g77 CC=gcc CXX=g++
> >> --prefix=/users/lptl/wong/apps > probconf
> >> make check > probmake
> >>
> >>
> >
> > Howdy!
> >
> > I did not see the output from the make check - did all the tests succeed?
> >
> > Did you then do a make install?
> >
> > What makes you think something is wrong? There is no error message in the
make output you sent.
> >
> > Please let me know if I am missing something...
> >
> > Thanks!
> >
> > Ed
> >
> > Ticket Details
> > ===================
> > Ticket ID: IJK-126633
> > Department: Support netCDF
> > Priority: Normal
> > Status: Open
> >
> >
>
>
> configure: netCDF 3.6.2
> checking build system type... x86_64-unknown-linux-gnu
> checking host 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 gawk... gawk
> checking whether make sets $(MAKE)... yes
> configure: checking user options
> checking whether CXX is set to ''... no
> checking whether FC is set to ''... no
> checking whether F90 is set to ''... no
> checking whether documentation is to be installed... no
> checking whether Fortran compiler(s) should be tested during configure... yes
> checking whether configure should try to set compiler flags... yes
> checking whether FFIO will be used... no
> checking whether to skip C++, F77, or F90 APIs if compiler is broken... yes
> checking whether only the C library is desired... no
> checking whether examples should be built... yes
> checking whether F77 API is desired... yes
> checking whether F90 API is desired... yes
> checking whether fortran type sizes should be checked... yes
> checking whether C API is desired... yes
> checking where to get netCDF C-only library for separate fortran
libraries...
> checking whether CXX API is desired... yes
> checking whether v2 netCDF API should be built... yes
> checking whether the ncgen/ncdump should be built... yes
> checking whether large file (> 2GB) tests should be run... no
> checking whether extreme numbers should be used in tests... yes
> checking where to put large temp files if large file tests are run... .
> checking whether a win32 DLL is desired... no
> checking whether separate fortran libs are desired... no
> configure: finding C compiler
> checking for C compiler default output file name... a.out
> checking whether the C compiler works... yes
> checking whether we are cross compiling... no
> checking for suffix of executables...
> 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 for style of include used by make... GNU
> checking dependency style of gcc... gcc3
> checking whether gcc and cc understand -c and -o together... yes
> checking for an ANSI C-conforming const... yes
> configure: finding Fortran compiler (will not be used if Fortran API is not
desired)
> checking whether we are using the GNU Fortran compiler... yes
> checking whether f95 accepts -g... yes
> checking whether we are using the GNU Fortran 77 compiler... yes
> checking whether g77 accepts -g... yes
> configure: setting up Fortran 90
> checking for Fortran flag to compile .f90 files... none
> checking fortran 90 modules inclusion flag... -I
> checking if Fortran compiler can handle Fortran-90... yes
> configure: finding C++ compiler (will not be used if C++ API is not desired)
> checking whether we are using the GNU C++ compiler... yes
> checking whether g++ accepts -g... yes
> checking dependency style of g++... gcc3
> checking for a sed that does not truncate output... /bin/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 whether ln -s works... yes
> checking the maximum length of command line arguments... 32768
> checking whether the shell understands some XSI constructs... yes
> checking whether the shell understands "+="... yes
> checking for /usr/bin/ld option to reload object files... -r
> checking how to recognise dependent libraries... pass_all
> checking for ar... ar
> checking for strip... strip
> checking for ranlib... ranlib
> checking command to parse /usr/bin/nm -B output from gcc object... ok
> checking how to run the C preprocessor... gcc -E
> 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 whether we are using the GNU C++ compiler... (cached) yes
> checking whether g++ accepts -g... (cached) yes
> checking dependency style of g++... (cached) gcc3
> checking how to run the C++ preprocessor... g++ -E
> checking whether we are using the GNU Fortran 77 compiler... (cached) yes
> checking whether g77 accepts -g... (cached) yes
> checking whether we are using the GNU Fortran compiler... (cached) yes
> checking whether f95 accepts -g... (cached) 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 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... no
> 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... 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 g77 option to produce PIC... -fPIC
> checking if g77 PIC flag -fPIC works... yes
> checking if g77 static flag -static works... no
> checking if g77 supports -c -o file.o... yes
> checking if g77 supports -c -o file.o... (cached) yes
> checking whether the g77 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 if libtool supports shared libraries... yes
> checking whether to build shared libraries... no
> checking whether to build static libraries... yes
> checking for f95 option to produce PIC... -fPIC
> checking if f95 PIC flag -fPIC works... yes
> checking if f95 static flag -static works... no
> checking if f95 supports -c -o file.o... yes
> checking if f95 supports -c -o file.o... (cached) yes
> checking whether the f95 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
> configure: finding other utilities
> checking for a BSD-compatible install... /usr/bin/install -c
> configure: trying to set fortran flags for this platform
> configure: trying to set flags for this platform
> checking if _HPUX_SOURCE should be set... no
> checking if Solaris -Xa option is needed... CFLAGS=-g -O2
> configure: trying to set fortran 90 flags for this platform
> checking if we need to add to FFLAGS for ifort compiler... FFLAGS=-g -O2
> checking if we need to set _LARGE_FILES despite results of previous tests...
_LARGE_FILES=
> checking for special C compiler options needed for large files... no
> checking for _FILE_OFFSET_BITS value needed for large files... no
> configure: displaying some results
> checking CPPFLAGS... -I/users/lptl/wong/apps/include
> checking CC CFLAGS... gcc -g -O2
> checking type gcc... gcc is /usr/lib64/ccache/gcc
> checking CXX... g++
> checking CXXFLAGS... -g -O2
> checking type g++... g++ is /usr/lib64/ccache/g++
> checking FC... f95
> checking FFLAGS... -g -O2
> checking type f95... f95 is /usr/bin/f95
> checking F90... f95
> checking F90FLAGS...
> checking type f95... f95 is /usr/bin/f95
> checking AR... ar
> checking ARFLAGS...
> checking type ar... ar is /usr/bin/ar
> checking NM... /usr/bin/nm -B
> checking NMFLAGS...
> checking for /usr/bin/nm... /usr/bin/nm -B
> checking nm flags...
> checking for C-equivalent to Fortran routine "SUB"... sub_
> checking for Fortran "byte"... yes
> checking for Fortran "integer*2"... yes
> checking if Fortran "byte" is C "signed char"... yes
> checking if Fortran "byte" is C "short"... no
> checking if Fortran "byte" is C "int"... no
> checking if Fortran "byte" is C "long"... no
> checking if Fortran "integer*2" is C "short"... yes
> checking if Fortran "integer*2" is C "int"... no
> checking if Fortran "integer*2" is C "long"... no
> checking if Fortran "integer" is C "int"... yes
> checking if Fortran "real" is C "float"... yes
> checking if Fortran "doubleprecision" is C "double"... yes
> checking for Fortran-equivalent to netCDF "byte"... byte
> checking for Fortran-equivalent to netCDF "short"... integer*2
> checking if Fortran 90 compiler capitalizes .mod filenames... no
> configure: checking types, headers, and functions
> checking for stdlib.h... (cached) yes
> checking for sys/types.h... (cached) yes
> checking for strlcat... no
> checking for strerror... yes
> checking for working alloca.h... yes
> checking for alloca... yes
> checking for struct stat.st_blksize... yes
> checking for IEEE floating point format... yes
> checking for size_t... yes
> checking for off_t... yes
> checking for ssize_t... yes
> checking for ptrdiff_t... yes
> checking for uchar... no
> checking whether char is unsigned... no
> checking whether byte ordering is bigendian... no
> checking for short... yes
> checking size of short... 2
> checking for int... yes
> checking size of int... 4
> checking for long... yes
> checking size of long... 8
> checking for float... yes
> checking size of float... 4
> checking for double... yes
> checking size of double... 8
> checking for off_t... (cached) yes
> checking size of off_t... 8
> checking for size_t... (cached) yes
> checking size of size_t... 8
> checking for manual-page index command...
> checking binary distribution directory... /home/ftp/pub/binary/dummy_system
> configure: generating header files and makefiles
> configure: creating ./config.status
> config.status: creating Makefile
> config.status: creating man/Makefile
> config.status: creating fortran/Makefile
> config.status: creating libsrc/Makefile
> config.status: creating nctest/Makefile
> config.status: creating nc_test/Makefile
> config.status: creating ncdump/Makefile
> config.status: creating ncgen/Makefile
> config.status: creating nf_test/Makefile
> config.status: creating cxx/Makefile
> config.status: creating f90/Makefile
> config.status: creating examples/Makefile
> config.status: creating examples/C/Makefile
> config.status: creating examples/CDL/Makefile
> config.status: creating examples/CXX/Makefile
> config.status: creating examples/F90/Makefile
> config.status: creating examples/F77/Makefile
> config.status: creating config.h
> config.status: config.h is unchanged
> config.status: creating fortran/nfconfig1.inc
> config.status: executing depfiles commands
> config.status: executing libtool commands
> Making check in f90
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/f90'
> /bin/sh ../libtool --mode=compile f95 -I../libsrc -I.  -g -O2 -c -o
typeSizes.lo typeSizes.f90
> libtool: compile:  f95 -I../libsrc -I. -g -O2 -c typeSizes.f90 -o typeSizes.o
> /bin/sh ../libtool --mode=compile f95 -I../libsrc -I.  -g -O2 -c -o netcdf.lo
netcdf.f90
> libtool: compile:  f95 -I../libsrc -I. -g -O2 -c netcdf.f90 -o netcdf.o
> /bin/sh ../libtool --mode=link f95 -I../libsrc -I.  -g -O2
-L/users/lptl/wong/apps/lib -L/users/lptl/wong/fftw/lib -o libnetcdff90.la
typeSizes.lo  netcdf.lo
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: ar cru .libs/libnetcdff90.a  typeSizes.o netcdf.o
> libtool: link: ranlib .libs/libnetcdff90.a
> libtool: link: creating libnetcdff90.la
> libtool: link: ( cd ".libs" && rm -f "libnetcdff90.la" && ln -s
"../libnetcdff90.la" "libnetcdff90.la" )
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/f90'
> Making check in fortran
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/fortran'
> depbase=`echo fort-attio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-attio.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-attio.lo fort-attio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-attio.lo -MD -MP -MF
.deps/fort-attio.Tpo -c fort-attio.c -o fort-attio.o
> depbase=`echo fort-control.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-control.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-control.lo
fort-control.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-control.lo -MD -MP -MF
.deps/fort-control.Tpo -c fort-control.c -o fort-control.o
> depbase=`echo fort-dim.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-dim.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-dim.lo fort-dim.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-dim.lo -MD -MP -MF
.deps/fort-dim.Tpo -c fort-dim.c -o fort-dim.o
> depbase=`echo fort-genatt.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-genatt.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-genatt.lo fort-genatt.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-genatt.lo -MD -MP -MF
.deps/fort-genatt.Tpo -c fort-genatt.c -o fort-genatt.o
> depbase=`echo fort-geninq.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-geninq.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-geninq.lo fort-geninq.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-geninq.lo -MD -MP -MF
.deps/fort-geninq.Tpo -c fort-geninq.c -o fort-geninq.o
> depbase=`echo fort-genvar.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-genvar.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-genvar.lo fort-genvar.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-genvar.lo -MD -MP -MF
.deps/fort-genvar.Tpo -c fort-genvar.c -o fort-genvar.o
> depbase=`echo fort-lib.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-lib.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-lib.lo fort-lib.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-lib.lo -MD -MP -MF
.deps/fort-lib.Tpo -c fort-lib.c -o fort-lib.o
> depbase=`echo fort-misc.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-misc.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-misc.lo fort-misc.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-misc.lo -MD -MP -MF
.deps/fort-misc.Tpo -c fort-misc.c -o fort-misc.o
> depbase=`echo fort-v2compat.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-v2compat.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-v2compat.lo
fort-v2compat.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-v2compat.lo -MD -MP -MF
.deps/fort-v2compat.Tpo -c fort-v2compat.c -o fort-v2compat.o
> depbase=`echo fort-vario.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-vario.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-vario.lo fort-vario.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-vario.lo -MD -MP -MF
.deps/fort-vario.Tpo -c fort-vario.c -o fort-vario.o
> depbase=`echo fort-var1io.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-var1io.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-var1io.lo fort-var1io.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-var1io.lo -MD -MP -MF
.deps/fort-var1io.Tpo -c fort-var1io.c -o fort-var1io.o
> depbase=`echo fort-varaio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-varaio.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-varaio.lo fort-varaio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-varaio.lo -MD -MP -MF
.deps/fort-varaio.Tpo -c fort-varaio.c -o fort-varaio.o
> depbase=`echo fort-varmio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-varmio.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-varmio.lo fort-varmio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-varmio.lo -MD -MP -MF
.deps/fort-varmio.Tpo -c fort-varmio.c -o fort-varmio.o
> depbase=`echo fort-varsio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I.    -I../libsrc  -I/users/lptl/wong/apps/include  -g -O2 -MT
fort-varsio.lo -MD -MP -MF "$depbase.Tpo" -c -o fort-varsio.lo fort-varsio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I. -I../libsrc
-I/users/lptl/wong/apps/include -g -O2 -MT fort-varsio.lo -MD -MP -MF
.deps/fort-varsio.Tpo -c fort-varsio.c -o fort-varsio.o
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2
-L/users/lptl/wong/apps/lib -L/users/lptl/wong/fftw/lib -o libnetcdff.la
fort-attio.lo fort-control.lo fort-dim.lo fort-genatt.lo fort-geninq.lo
fort-genvar.lo fort-lib.lo fort-misc.lo fort-v2compat.lo fort-vario.lo
fort-var1io.lo fort-varaio.lo fort-varmio.lo fort-varsio.lo
../f90/libnetcdff90.la
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: (cd .libs/libnetcdff.lax/libnetcdff90.a && ar x
/users/lptl/wong/Desktop/netcdf-3.6.2/fortran/../f90/.libs/libnetcdff90.a)
> libtool: link: ar cru .libs/libnetcdff.a  fort-attio.o fort-control.o
fort-dim.o fort-genatt.o fort-geninq.o fort-genvar.o fort-lib.o fort-misc.o
fort-v2compat.o fort-vario.o fort-var1io.o fort-varaio.o fort-varmio.o
fort-varsio.o  .libs/libnetcdff.lax/libnetcdff90.a/netcdf.o
.libs/libnetcdff.lax/libnetcdff90.a/typeSizes.o
> libtool: link: ranlib .libs/libnetcdff.a
> libtool: link: rm -fr .libs/libnetcdff.lax
> libtool: link: creating libnetcdff.la
> libtool: link: ( cd ".libs" && rm -f "libnetcdff.la" && ln -s
"../libnetcdff.la" "libnetcdff.la" )
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/fortran'
> Making check in libsrc
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> depbase=`echo attr.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT attr.lo -MD
-MP -MF "$depbase.Tpo" -c -o attr.lo attr.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT attr.lo -MD -MP -MF .deps/attr.Tpo
-c attr.c -o attr.o
> depbase=`echo ncx.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT ncx.lo -MD -MP
-MF "$depbase.Tpo" -c -o ncx.lo ncx.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT ncx.lo -MD -MP -MF .deps/ncx.Tpo -c
ncx.c -o ncx.o
> depbase=`echo putget.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT putget.lo -MD
-MP -MF "$depbase.Tpo" -c -o putget.lo putget.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT putget.lo -MD -MP -MF
.deps/putget.Tpo -c putget.c -o putget.o
> depbase=`echo dim.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT dim.lo -MD -MP
-MF "$depbase.Tpo" -c -o dim.lo dim.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT dim.lo -MD -MP -MF .deps/dim.Tpo -c
dim.c -o dim.o
> depbase=`echo error.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT error.lo -MD
-MP -MF "$depbase.Tpo" -c -o error.lo error.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT error.lo -MD -MP -MF .deps/error.Tpo
-c error.c -o error.o
> depbase=`echo libvers.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT libvers.lo -MD
-MP -MF "$depbase.Tpo" -c -o libvers.lo libvers.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT libvers.lo -MD -MP -MF
.deps/libvers.Tpo -c libvers.c -o libvers.o
> depbase=`echo nc.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT nc.lo -MD -MP
-MF "$depbase.Tpo" -c -o nc.lo nc.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT nc.lo -MD -MP -MF .deps/nc.Tpo -c
nc.c -o nc.o
> depbase=`echo string.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT string.lo -MD
-MP -MF "$depbase.Tpo" -c -o string.lo string.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT string.lo -MD -MP -MF
.deps/string.Tpo -c string.c -o string.o
> depbase=`echo v1hpg.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT v1hpg.lo -MD
-MP -MF "$depbase.Tpo" -c -o v1hpg.lo v1hpg.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT v1hpg.lo -MD -MP -MF .deps/v1hpg.Tpo
-c v1hpg.c -o v1hpg.o
> depbase=`echo var.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT var.lo -MD -MP
-MF "$depbase.Tpo" -c -o var.lo var.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT var.lo -MD -MP -MF .deps/var.Tpo -c
var.c -o var.o
> depbase=`echo posixio.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT posixio.lo -MD
-MP -MF "$depbase.Tpo" -c -o posixio.lo posixio.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT posixio.lo -MD -MP -MF
.deps/posixio.Tpo -c posixio.c -o posixio.o
> depbase=`echo v2i.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`; \
> if /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.
-I.. -I../fortran    -I/users/lptl/wong/apps/include  -g -O2 -MT v2i.lo -MD -MP
-MF "$depbase.Tpo" -c -o v2i.lo v2i.c; \
> then mv -f "$depbase.Tpo" "$depbase.Plo"; else rm -f "$depbase.Tpo"; exit 1;
fi
> libtool: compile:  gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include -g -O2 -MT v2i.lo -MD -MP -MF .deps/v2i.Tpo -c
v2i.c -o v2i.o
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2
-L/users/lptl/wong/apps/lib -L/users/lptl/wong/fftw/lib -o libnetcdf2.la
v2i.lo
> libtool: link: ar cru .libs/libnetcdf2.a  v2i.o
> libtool: link: ranlib .libs/libnetcdf2.a
> libtool: link: creating libnetcdf2.la
> libtool: link: ( cd ".libs" && rm -f "libnetcdf2.la" && ln -s
"../libnetcdf2.la" "libnetcdf2.la" )
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2
-L/users/lptl/wong/apps/lib -L/users/lptl/wong/fftw/lib -o libnetcdf.la -rpath
/users/lptl/wong/apps/lib  -version-info 4:0:0 -no-undefined  attr.lo ncx.lo
putget.lo dim.lo error.lo libvers.lo nc.lo string.lo v1hpg.lo var.lo
posixio.lo libnetcdf2.la ../fortran/libnetcdff.la
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: (cd .libs/libnetcdf.lax/libnetcdf2.a && ar x
/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc/./.libs/libnetcdf2.a)
> libtool: link: (cd .libs/libnetcdf.lax/libnetcdff.a && ar x
/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc/../fortran/.libs/libnetcdff.a)
> libtool: link: ar cru .libs/libnetcdf.a  attr.o ncx.o putget.o dim.o error.o
libvers.o nc.o string.o v1hpg.o var.o posixio.o
.libs/libnetcdf.lax/libnetcdf2.a/v2i.o
.libs/libnetcdf.lax/libnetcdff.a/fort-dim.o
.libs/libnetcdf.lax/libnetcdff.a/fort-vario.o
.libs/libnetcdf.lax/libnetcdff.a/fort-var1io.o
.libs/libnetcdf.lax/libnetcdff.a/fort-v2compat.o
.libs/libnetcdf.lax/libnetcdff.a/fort-varmio.o
.libs/libnetcdf.lax/libnetcdff.a/fort-attio.o
.libs/libnetcdf.lax/libnetcdff.a/fort-control.o
.libs/libnetcdf.lax/libnetcdff.a/netcdf.o
.libs/libnetcdf.lax/libnetcdff.a/fort-varaio.o
.libs/libnetcdf.lax/libnetcdff.a/fort-misc.o
.libs/libnetcdf.lax/libnetcdff.a/fort-genatt.o
.libs/libnetcdf.lax/libnetcdff.a/fort-geninq.o
.libs/libnetcdf.lax/libnetcdff.a/fort-genvar.o
.libs/libnetcdf.lax/libnetcdff.a/fort-lib.o
.libs/libnetcdf.lax/libnetcdff.a/typeSizes.o
.libs/libnetcdf.lax/libnetcdff.a/fort-varsio.o
> libtool: link: ranlib .libs/libnetcdf.a
> libtool: link: rm -fr .libs/libnetcdf.lax
> libtool: link: creating libnetcdf.la
> libtool: link: ( cd ".libs" && rm -f "libnetcdf.la" && ln -s
"../libnetcdf.la" "libnetcdf.la" )
> make  t_nc
> make[2]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran
-I/users/lptl/wong/apps/include  -g -O2 -MT t_nc-t_nc.o -MD -MP -MF
".deps/t_nc-t_nc.Tpo" -c -o t_nc-t_nc.o `test -f 't_nc.c' || echo './'`t_nc.c;
\
> then mv -f ".deps/t_nc-t_nc.Tpo" ".deps/t_nc-t_nc.Po"; else rm -f
".deps/t_nc-t_nc.Tpo"; exit 1; fi
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2
-L/users/lptl/wong/apps/lib -L/users/lptl/wong/fftw/lib -o t_nc  t_nc-t_nc.o
libnetcdf.la
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: gcc -g -O2 -o t_nc t_nc-t_nc.o  -L/users/lptl/wong/apps/lib
-L/users/lptl/wong/fftw/lib ./.libs/libnetcdf.a
/users/lptl/wong/apps/lib/libgfortranbegin.a
/users/lptl/wong/apps/lib/libgfortran.so -lm -Wl,-rpath
-Wl,/users/lptl/wong/apps/lib -Wl,-rpath -Wl,/users/lptl/wong/apps/lib
> /users/lptl/wong/apps/lib/libgfortran.so: could not read symbols: File in
wrong format
> collect2: ld returned 1 exit status
> make[2]: *** [t_nc] Error 1
> make[2]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> make[1]: *** [check-am] Error 2
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> make: *** [check-recursive] Error 1
> Making install in f90
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/f90'
> make[2]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/f90'
> make[2]: Nothing to be done for `install-exec-am'.
> test -z "/users/lptl/wong/apps/share/man/man3" || mkdir -p --
"/users/lptl/wong/apps/share/man/man3"
> /usr/bin/install -c -m 644 './netcdf_f90.3'
'/users/lptl/wong/apps/share/man/man3/netcdf_f90.3'
> test -z "/users/lptl/wong/apps/include" || mkdir -p --
"/users/lptl/wong/apps/include"
> /usr/bin/install -c -m 644 'typesizes.mod'
'/users/lptl/wong/apps/include/typesizes.mod'
> /usr/bin/install -c -m 644 'netcdf.mod'
'/users/lptl/wong/apps/include/netcdf.mod'
> make[2]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/f90'
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/f90'
> Making install in fortran
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/fortran'
> make[2]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/fortran'
> test -z "/users/lptl/wong/apps/lib" || mkdir -p --
"/users/lptl/wong/apps/lib"
> test -z "/users/lptl/wong/apps/include" || mkdir -p --
"/users/lptl/wong/apps/include"
> /usr/bin/install -c -m 644 'netcdf.inc'
'/users/lptl/wong/apps/include/netcdf.inc'
> test -z "/users/lptl/wong/apps/share/man/man3" || mkdir -p --
"/users/lptl/wong/apps/share/man/man3"
> /usr/bin/install -c -m 644 './netcdf_f77.3'
'/users/lptl/wong/apps/share/man/man3/netcdf_f77.3'
> make[2]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/fortran'
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/fortran'
> Making install in libsrc
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> make[2]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> test -z "/users/lptl/wong/apps/lib" || mkdir -p --
"/users/lptl/wong/apps/lib"
> /bin/sh ../libtool --mode=install /usr/bin/install -c  'libnetcdf.la'
'/users/lptl/wong/apps/lib/libnetcdf.la'
> libtool: install: /usr/bin/install -c .libs/libnetcdf.lai
/users/lptl/wong/apps/lib/libnetcdf.la
> libtool: install: /usr/bin/install -c .libs/libnetcdf.a
/users/lptl/wong/apps/lib/libnetcdf.a
> libtool: install: chmod 644 /users/lptl/wong/apps/lib/libnetcdf.a
> libtool: install: ranlib /users/lptl/wong/apps/lib/libnetcdf.a
> libtool: finish:
PATH="/users/lptl/wong/apps/bin/python:/usr/kerberos/bin:/usr/lib64/ccache:/users/lptl/wong/apps/bin/python:/users/lptl/wong/apps/bin:/users/lptl/wong/apps/bin/Linux:/users/lptl/wong/apps/bin/python:/users/lptl/wong/apps/bin/python:/usr/lib64/qt-3.3/bin:.:/users/lptl/wong:/bin:/usr/local/bin:/usr/bin:/usr/bin/X11:/usr/X11R6/bin:/bin:/usr/local/pgi/linux86-64/7.0/bin:/usr/local/pgi/linux86/7.0/bin:/usr/local/pgi/linux86/bin:/usr/local/maple/bin:/usr/local/gopenmol/bin:/opt/intel/fce/9.1/bin:/opt/intel/cce/9.1/bin:/opt/intel/idb/9.1/bin::/users/lptl/wong/apps/usr/bin:/users/lptl/wong/apps/bin:/users/lptl/wong/apps/blender/blender*:/users/lptl/wong/apps/bin/Linux:/users2/lptl/wong/scwrl/scwrl3_lin:/users/lptl/wong/apps/i686-pc-linux-gnu:/users/lptl/wong/NAMD/NAMD_2.5_Linux-i686:/users/lptl/wong/apps/bin/python:/users/lptl/wong/bioviewer/bioviewer:/users/lptl/wong/apps/blender/blender-2.44-linux-glibc232-py24-i386-static:/users/invites/wong/.local/bin:/users/lp
 
tl/wong/.local/bin:/users/invites/wong/hex/bin:/users/lptl/wong/apps/usr/bin:/users/lptl/wong/apps/bin:/users/lptl/wong/apps/blender/blender*:/users/lptl/wong/apps/bin/Linux:/users2/lptl/wong/scwrl/scwrl3_lin:/users/lptl/wong/apps/i686-pc-linux-gnu:/users/lptl/wong/NAMD/NAMD_2.5_Linux-i686:/users/lptl/wong/apps/bin/python:/users/lptl/wong/bioviewer/bioviewer:/users/lptl/wong/apps/blender/blender-2.44-linux-glibc232-py24-i386-static:/users/lptl/wong/apps/usr/bin:/users/lptl/wong/apps/bin:/users/lptl/wong/apps/blender/blender*:/users/lptl/wong/apps/bin/Linux:/users2/lptl/wong/scwrl/scwrl3_lin:/users/lptl/wong/apps/i686-pc-linux-gnu:/users/lptl/wong/NAMD/NAMD_2.5_Linux-i686:/users/lptl/wong/apps/bin/python:/users/lptl/wong/bioviewer/bioviewer:/users/lptl/wong/apps/blender/blender-2.44-linux-glibc232-py24-i386-static:/sbin"
 ldconfig -n /users/lptl/wong/apps/lib
> ldconfig: /users/lptl/wong/apps/lib/libGLw.so.1 is not a symbolic link
>
> ldconfig: /users/lptl/wong/apps/lib/libqhull.so.5 is not a symbolic link
>
> ldconfig: /users/lptl/wong/apps/lib/libGLU.so.1 is not a symbolic link
>
> ldconfig: /users/lptl/wong/apps/lib/libswish-e.so.2 is not a symbolic link
>
> ldconfig: /users/lptl/wong/apps/lib/libexpat.so.0 is not a symbolic link
>
> ----------------------------------------------------------------------
> Libraries have been installed in:
> /users/lptl/wong/apps/lib
>
> If you ever happen to want to link against installed libraries
> in a given directory, LIBDIR, you must either use libtool, and
> specify the full pathname of the library, or use the `-LLIBDIR'
> flag during linking and do at least one of the following:
> - add LIBDIR to the `LD_LIBRARY_PATH' environment variable
> during execution
> - add LIBDIR to the `LD_RUN_PATH' environment variable
> during linking
> - use the `-Wl,-rpath -Wl,LIBDIR' linker flag
> - have your system administrator add LIBDIR to `/etc/ld.so.conf'
>
> See any operating system documentation about shared libraries for
> more information, such as the ld(1) and ld.so(8) manual pages.
> ----------------------------------------------------------------------
> test -z "/users/lptl/wong/apps/include" || mkdir -p --
"/users/lptl/wong/apps/include"
> /usr/bin/install -c -m 644 'netcdf.h'
'/users/lptl/wong/apps/include/netcdf.h'
> test -z "/users/lptl/wong/apps/share/man/man3" || mkdir -p --
"/users/lptl/wong/apps/share/man/man3"
> /usr/bin/install -c -m 644 './netcdf.3'
'/users/lptl/wong/apps/share/man/man3/netcdf.3'
> make[2]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/libsrc'
> Making install in nctest
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/nctest'
> make[2]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/nctest'
> make[2]: Nothing to be done for `install-exec-am'.
> make[2]: Nothing to be done for `install-data-am'.
> make[2]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/nctest'
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/nctest'
> Making install in ncgen
> make[1]: Entering directory `/users/lptl/wong/Desktop/netcdf-3.6.2/ncgen'
> depbase=`echo main.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT main.o -MD -MP -MF
"$depbase.Tpo" -c -o main.o main.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> depbase=`echo load.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT load.o -MD -MP -MF
"$depbase.Tpo" -c -o load.o load.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> depbase=`echo ncgentab.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT ncgentab.o -MD -MP -MF
"$depbase.Tpo" -c -o ncgentab.o ncgentab.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> depbase=`echo escapes.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT escapes.o -MD -MP -MF
"$depbase.Tpo" -c -o escapes.o escapes.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> depbase=`echo getfill.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT getfill.o -MD -MP -MF
"$depbase.Tpo" -c -o getfill.o getfill.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> depbase=`echo init.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT init.o -MD -MP -MF
"$depbase.Tpo" -c -o init.o init.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> depbase=`echo genlib.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`; \
> if gcc -DHAVE_CONFIG_H -I. -I. -I.. -I../fortran  -I.. -I../libsrc
-I../libsrc -I/users/lptl/wong/apps/include  -g -O2 -MT genlib.o -MD -MP -MF
"$depbase.Tpo" -c -o genlib.o genlib.c; \
> then mv -f "$depbase.Tpo" "$depbase.Po"; else rm -f "$depbase.Tpo"; exit 1;
fi
> /bin/sh ../libtool --tag=CC --mode=link gcc  -g -O2
-L/users/lptl/wong/apps/lib -L/users/lptl/wong/fftw/lib -o ncgen  main.o load.o
ncgentab.o escapes.o getfill.o init.o genlib.o ../libsrc/libnetcdf.la
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: warning: library
`/users/lptl/wong/apps/lib/libgfortranbegin.la' was moved.
> libtool: link: warning: library `/users/lptl/wong/apps/lib/libgfortran.la'
was moved.
> libtool: link: gcc -g -O2 -o ncgen main.o load.o ncgentab.o escapes.o
getfill.o init.o genlib.o  -L/users/lptl/wong/apps/lib
-L/users/lptl/wong/fftw/lib ../libsrc/.libs/libnetcdf.a
/users/lptl/wong/apps/lib/libgfortranbegin.a
/users/lptl/wong/apps/lib/libgfortran.so -lm -Wl,-rpath
-Wl,/users/lptl/wong/apps/lib -Wl,-rpath -Wl,/users/lptl/wong/apps/lib
> /users/lptl/wong/apps/lib/libgfortran.so: could not read symbols: File in
wrong format
> collect2: ld returned 1 exit status
> make[1]: *** [ncgen] Error 1
> make[1]: Leaving directory `/users/lptl/wong/Desktop/netcdf-3.6.2/ncgen'
> make: *** [install-recursive] Error 1
>

Looks like your system is a bit confused about the locations of your library
files!

Also looks like there is a problem with
/users/lptl/wong/apps/lib/libgfortran.so, probably it is 32-bit, and everything
else is 64-bit.

Use the "file" command on this file to check it.

It's not clear to me why ncgen is including the fortran library though. I
didn't know that it did that.

If you are using the wrong type of file, you need to change your -L options to
allow the linker to find the correct file.

Thanks,

Ed

Ticket Details
===================
Ticket ID: IJK-126633
Department: Support netCDF
Priority: Normal
Status: Closed