The fresh reinstall did not help and i get the same error.
On Tue, Mar 3, 2020 at 1:20 PM Nicholas Moyer <nmoyer.broadinstitute.org>
wrote:
> Good Afternoon,
>
> I have tried make install in the src/pmemd and it seems to install but
> then if I try and make test it fails each one. I am currently re-installing
> from scratch as you had suggested as it still had several cuda.mpi in some
> of the folders after the clean command. Here is some info I forgot to add
> in my original email. Thank you for all the suggestions so far !
>
> OS: Ubuntu 18.04
> shell: bash
> compiler: gnu
> CUDA toolkit: 10.1.243
> amber: 18
> amber-toolkit: 19
>
>
> On Tue, Mar 3, 2020 at 10:09 AM David A Case <david.case.rutgers.edu>
> wrote:
>
>> On Tue, Mar 03, 2020, Nicholas Moyer wrote:
>>
>> >so ive been having an error with CUDA. I have been dealing with an
>> annoying
>> >CUDA issue where basically i have Amber18/ambertools19 installed and set
>> >with multiple gpu's but when i try to configure amber for single GPU
>> usage
>> >compiles but when trying to make install it gives me a huge error block
>>
>> The error involves pbsa.cuda, which may not be the program you really
>> want (most people are more eager to run pmemd.cuda). If that is the
>> case, after the configure step, do this:
>>
>> cd src/pmemd
>> make install
>>
>> That will install just pmemd.cuda, whose installation is better tested.
>> (Of course, you may still have problems, since for most people, building
>> pbsa.cuda gives no problems. If things still don't work, provide some
>> details about your OS, compiler and CUDA toolkit versions. Also, since
>> you apparently previously installed the cuda.MPI versions, and are now
>> trying to get the cuda serial codes, start from a completely fresh
>> directory tree, just in case something left over from the MPI install
>> is causing problems.)
>>
>> I'm cc-ing this to Ray Luo, in case he may have a better handle on
>> recognizing the problem.
>>
>> ...good luck...dac
>>
>>
>> >
>> >/usr/bin/ld: warning: libcublasLt.so.10, needed by
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so, not found
>> >(try using -rpath or -rpath-link)
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtShutdownCtx.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtGetProperty.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `init_gemm_select.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `runGemmShortApi.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtMatmulAlgoGetHeuristic.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `gemm_utilization.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtMatmul.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `free_gemm_select.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtCtxInit.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtMatmulAlgoInit.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `runGemmApi.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtGetCudartVersion.libcublasLt.so.10'
>> >/opt/CUDA/cuda-toolkit/targets/x86_64-linux/lib/libcublas.so: undefined
>> >reference to `cublasLtGetVersion.libcublasLt.so.10'
>> >collect2: error: ld returned 1 exit status
>> >Makefile:156: recipe for target 'pbsa.cuda' failed
>> >make[2]: *** [pbsa.cuda] Error 1
>> >make[2]: Leaving directory '/opt/amber18/AmberTools/src/pbsa'
>> >Makefile:447: recipe for target 'cuda_serial' failed
>> >make[1]: *** [cuda_serial] Error 2
>> >make[1]: Leaving directory '/opt/amber18/AmberTools/src'
>> >Makefile:7: recipe for target 'install' failed
>> >make: *** [install] Error 2
>>
>> _______________________________________________
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>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>>
>
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Received on Tue Mar 03 2020 - 10:30:03 PST
