Open your Amber folder and locate 'config.h'. Under the PMEMD_CUDA_LIB =
..... add 'lstdcc++' at the end. save. make install.
we had similar issues
ayesha
Malaysia
On Thu, Mar 20, 2014 at 3:57 PM, Weinzierl, Robert O J <
r.weinzierl.imperial.ac.uk> wrote:
>
> Dear all,
>
> I tried to compile AMBER12 pmemd.cuda on my computer running on Ubuntu
> 13.10 (with CUDA 5.5.22 and Nvidia driver 331.49).
> The compilation started normally, but towards the end I got the following
> error messages:
>
> home/rojw/amber12/lib/libnetcdf.a
> /usr/bin/ld: ./cuda/cuda.a(gpu.o): undefined reference to symbol '_Znam.
> .GLIBCXX_3.4'
> /usr/lib/x86_64-linux-gnu/libstdc++.so.6: error adding symbols: DSO
> missing from command line
> collect2: error: ld returned 1 exit status
> make[3]: *** [pmemd.cuda] Error 1
> make[3]: Leaving directory `/home/rojw/amber12/src/pmemd/src'
> make[2]: *** [cuda] Error 2
> make[2]: Leaving directory `/home/rojw/amber12/src/pmemd'
> make[1]: *** [cuda] Error 2
> make[1]: Leaving directory `/home/rojw/amber12/src'
> make: *** [install] Error 2
>
> I tried adding the flag'-lstdc++' to the PMEMD_LD variable in the config.h
> file, but that did not solve the problem. Any suggestions how to fix this
> problem?
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>
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Received on Thu Mar 20 2014 - 03:30:03 PDT
