Hi Chen,
did u add the bugfixes correctly. ? if yes it looks like a problem with c
compiler. what version of gcc is used?
On Wed, Oct 31, 2012 at 5:22 PM, chenkai_szpku <chenkai_szpku.foxmail.com>wrote:
>
>
>
> Dear All,
>
> I install the Amber12 and AmberTools12 as follows
>
> Machine OS: CentOS release 5.4 (Final)
>
> $: cd /share/apps
>
> $: tar xvfj AmberTools12.tar.bz2
>
> $: tar xvfj Amber12.tar.bz2
>
> $: export AMBERHOME=/share/apps/amber12;
>
> $: yum install gcc flex tcsh zlib-devel bzip2-devel libXt-devel \
>
> libXt-devel libXext-devel libXdmcp-devel
>
> $: cd $AMBERHOME
>
> $: ./configure intel
>
> $: make install;
>
> $: make test; # All test PASSED
>
> $: ./configure -mpi intel;
>
> $: make install;
>
> # Error I encounter
>
> a - AmberNetcdf.o
> ranlib /share/apps/amber12/lib/libsff.a
> mpicc -o /share/apps/amber12/bin/hcp_getpdb hcp_getpdb.c
> make[2]: Leaving directory `/share/apps/amber12/AmberTools/src/sff'
> (cd nab && make install )
> make[2]: Entering directory `/share/apps/amber12/AmberTools/src/nab'
> mpicc -DCC='"mpicc"' -DCPP='"ucpp -l"' -DFLIBS='"-lsff_mpi -lpbsa
> -larpack -L/share/apps/amber12/lib -lnetcdf -Wl,--start-group
> /opt/intel/mkl/10.2.5.035/lib/em64t/libmkl_intel_lp64.a
> /opt/intel/mkl/10.2.5.035/lib/em64t/libmkl_sequential.a
> /opt/intel/mkl/
> 10.2.5.035/lib/em64t/libmkl_core.a-Wl,--end-group-lpthread
> -L/opt/intel/Compiler/11.1/072/lib/intel64/ -lifport -lifcore -lsvml "'
> \
> -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ
> -DMPI -I/opt/intel/mkl/10.2.5.035/include \
> -shared-intel -o /share/apps/amber12/bin/mpinab nab.c
> icc: error #10236: File not found: '"'
> nab.c(165): error: missing closing quote
> amberhome, CPP, cppstring, amberhome,
> ^
>
> nab.c(272): error: missing closing quote
> sprintf( word, " %s ", FLIBS );
> ^
>
> compilation aborted for nab.c (code 2)
> make[2]: *** [/share/apps/amber12/bin/mpinab] Error 1
> make[2]: Leaving directory `/share/apps/amber12/AmberTools/src/nab'
> make[1]: *** [nabonly] Error 2
> make[1]: Leaving directory `/share/apps/amber12/AmberTools/src'
> make: [nabonly] Error 2 (ignored)
>
>
>
> Could anyone tell me how to solve this proble?
>
> Thank you very much!
>
>
>
>
>
>
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>
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Received on Fri Nov 02 2012 - 10:30:03 PDT
