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lawmurray / LibBi

Bayesian state-space modelling on high-performance hardware, including multicore, GPUs and distributed clusters.
http://www.libbi.org
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libbi with cuda #46

Closed seabbs closed 5 years ago

seabbs commented 5 years ago

Hi,

First off thanks for making (and maintaining) a great tool.

I am having some trouble getting Libbi to work with CUDA in a Dockerfile and wanted to check if it was me or Libbi causing the issue.

I am installing CUDA 9.2 on top of the rocker/tidyverse docker image (https://github.com/seabbs/tidyverse-gpu/blob/master/Dockerfile) then installing Libbi on top of this (https://github.com/seabbs/ModelTBBCGEngland/blob/master/Dockerfile).

Using thrust everything is working perfectly but with cuda enabled I get an error when using make after compiling the model. 

Parsing... 
Processing arguments... 
Transforming model... 
Generating Doxyfile... 
Generating C++ code... 
Generating GNU autotools build system... 
make -j 4  sample_gpu 
Building... 
depbase=`echo src/sample_gpu.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'` && \ 
srcbase=`echo src/sample_gpu.o | sed 's|/[^/]*$||'` && \ 
perl nvcc_wrapper.pl /usr/local/cuda/bin/nvcc -ccbin=g++ -M -w -arch sm_30 -Xcompiler="-fopenmp -O3 -g3 -funroll-loops  " -Isrc  -I/usr/local/cuda/include -DENABLE_SINGLE -DENABLE_CUDA -DCUDA_FAST_MATH=1  -DENABLE_GPU_CACHE   -DENABLE_OPENMP    -DPACKAGE_NAME=\"LibBi\" -DPACKAGE_TARNAME=\"libbi\" -DPACKAGE_VERSION=\"1.4.4\" -DPACKAGE_STRING=\"LibBi\ 1.4.4\" -DPACKAGE_BUGREPORT=\"bug-report@libbi.org\" -DPACKAGE_URL=\"http://www.libbi.org\" -DHAVE_OMP_H=1 -DTHRUST_DEVICE_SYSTEM=THRUST_DEVICE_SYSTEM_CUDA -DTHRUST_HOST_SYSTEM=THRUST_HOST_SYSTEM_OMP -DHAVE_LIBM=1 -DHAVE_LIBGFORTRAN=1 -DHAVE_LIBQRUPDATE=1 -DHAVE_LIBGSL=1 -DHAVE_LIBNETCDF=1 -DHAVE_LIBCUDART=1 -DHAVE_LIBCURAND=1 -DHAVE_LIBCUBLAS=1 -DNDEBUG=1 -DHAVE_NETCDF_H=1 -DHAVE_CBLAS_H=1 -DHAVE_GSL_GSL_CBLAS_H=1 -DHAVE_BOOST_MPL_IF_HPP=1 -DHAVE_BOOST_RANDOM_BINOMIAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_BERNOULLI_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_GAMMA_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_MERSENNE_TWISTER_HPP=1 -DHAVE_BOOST_RANDOM_NORMAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_POISSON_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_INT_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_REAL_HPP=1 -DHAVE_BOOST_RANDOM_VARIATE_GENERATOR_HPP=1 -DHAVE_BOOST_TYPEOF_TYPEOF_HPP=1 -DHAVE_THRUST_ADJACENT_DIFFERENCE_H=1 -DHAVE_THRUST_BINARY_SEARCH_H=1 -DHAVE_THRUST_COPY_H=1 -DHAVE_THRUST_DEVICE_PTR_H=1 -DHAVE_THRUST_DISTANCE_H=1 -DHAVE_THRUST_EXTREMA_H=1 -DHAVE_THRUST_FILL_H=1 -DHAVE_THRUST_FOR_EACH_H=1 -DHAVE_THRUST_FUNCTIONAL_H=1 -DHAVE_THRUST_GATHER_H=1 -DHAVE_THRUST_INNER_PRODUCT_H=1 -DHAVE_THRUST_ITERATOR_COUNTING_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DETAIL_NORMAL_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DISCARD_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_PERMUTATION_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_TRANSFORM_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_ZIP_ITERATOR_H=1 -DHAVE_THRUST_LOGICAL_H=1 -DHAVE_THRUST_REDUCE_H=1 -DHAVE_THRUST_SCAN_H=1 -DHAVE_THRUST_SEQUENCE_H=1 -DHAVE_THRUST_SORT_H=1 -DHAVE_THRUST_TRANSFORM_H=1 -DHAVE_THRUST_TRANSFORM_REDUCE_H=1 -DHAVE_THRUST_TRANSFORM_SCAN_H=1 -DHAVE_THRUST_TUPLE_H=1 -DHAVE_GSL_GSL_MULTIMIN_H=1 -DHAVE_CUBLAS_V2_H=1 -DHAVE_CURAND_H=1 -DENABLE_DIAGNOSTICS=no -DBOOST_NOINLINE -odir $srcbase -o $depbase.Tpo src/sample_gpu.cu && \ 
perl nvcc_wrapper.pl /usr/local/cuda/bin/nvcc -ccbin=g++ -c -w -arch sm_30 -Xcompiler="-fopenmp -O3 -g3 -funroll-loops  " -Isrc  -I/usr/local/cuda/include -DENABLE_SINGLE -DENABLE_CUDA -DCUDA_FAST_MATH=1  -DENABLE_GPU_CACHE   -DENABLE_OPENMP    -DPACKAGE_NAME=\"LibBi\" -DPACKAGE_TARNAME=\"libbi\" -DPACKAGE_VERSION=\"1.4.4\" -DPACKAGE_STRING=\"LibBi\ 1.4.4\" -DPACKAGE_BUGREPORT=\"bug-report@libbi.org\" -DPACKAGE_URL=\"http://www.libbi.org\" -DHAVE_OMP_H=1 -DTHRUST_DEVICE_SYSTEM=THRUST_DEVICE_SYSTEM_CUDA -DTHRUST_HOST_SYSTEM=THRUST_HOST_SYSTEM_OMP -DHAVE_LIBM=1 -DHAVE_LIBGFORTRAN=1 -DHAVE_LIBQRUPDATE=1 -DHAVE_LIBGSL=1 -DHAVE_LIBNETCDF=1 -DHAVE_LIBCUDART=1 -DHAVE_LIBCURAND=1 -DHAVE_LIBCUBLAS=1 -DNDEBUG=1 -DHAVE_NETCDF_H=1 -DHAVE_CBLAS_H=1 -DHAVE_GSL_GSL_CBLAS_H=1 -DHAVE_BOOST_MPL_IF_HPP=1 -DHAVE_BOOST_RANDOM_BINOMIAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_BERNOULLI_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_GAMMA_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_MERSENNE_TWISTER_HPP=1 -DHAVE_BOOST_RANDOM_NORMAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_POISSON_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_INT_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_REAL_HPP=1 -DHAVE_BOOST_RANDOM_VARIATE_GENERATOR_HPP=1 -DHAVE_BOOST_TYPEOF_TYPEOF_HPP=1 -DHAVE_THRUST_ADJACENT_DIFFERENCE_H=1 -DHAVE_THRUST_BINARY_SEARCH_H=1 -DHAVE_THRUST_COPY_H=1 -DHAVE_THRUST_DEVICE_PTR_H=1 -DHAVE_THRUST_DISTANCE_H=1 -DHAVE_THRUST_EXTREMA_H=1 -DHAVE_THRUST_FILL_H=1 -DHAVE_THRUST_FOR_EACH_H=1 -DHAVE_THRUST_FUNCTIONAL_H=1 -DHAVE_THRUST_GATHER_H=1 -DHAVE_THRUST_INNER_PRODUCT_H=1 -DHAVE_THRUST_ITERATOR_COUNTING_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DETAIL_NORMAL_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DISCARD_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_PERMUTATION_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_TRANSFORM_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_ZIP_ITERATOR_H=1 -DHAVE_THRUST_LOGICAL_H=1 -DHAVE_THRUST_REDUCE_H=1 -DHAVE_THRUST_SCAN_H=1 -DHAVE_THRUST_SEQUENCE_H=1 -DHAVE_THRUST_SORT_H=1 -DHAVE_THRUST_TRANSFORM_H=1 -DHAVE_THRUST_TRANSFORM_REDUCE_H=1 -DHAVE_THRUST_TRANSFORM_SCAN_H=1 -DHAVE_THRUST_TUPLE_H=1 -DHAVE_GSL_GSL_MULTIMIN_H=1 -DHAVE_CUBLAS_V2_H=1 -DHAVE_CURAND_H=1 -DENABLE_DIAGNOSTICS=no -DBOOST_NOINLINE -o src/sample_gpu.o src/sample_gpu.cu && \ 
cat $depbase.Tpo > $depbase.Po && \ 
rm -f $depbase.Tpo 
depbase=`echo src/bi/netcdf/OptimiserNetCDFBuffer.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\ 
g++ -DPACKAGE_NAME=\"LibBi\" -DPACKAGE_TARNAME=\"libbi\" -DPACKAGE_VERSION=\"1.4.4\" -DPACKAGE_STRING=\"LibBi\ 1.4.4\" -DPACKAGE_BUGREPORT=\"bug-report@libbi.org\" -DPACKAGE_URL=\"http://www.libbi.org\" -DHAVE_OMP_H=1 -DTHRUST_DEVICE_SYSTEM=THRUST_DEVICE_SYSTEM_CUDA -DTHRUST_HOST_SYSTEM=THRUST_HOST_SYSTEM_OMP -DHAVE_LIBM=1 -DHAVE_LIBGFORTRAN=1 -DHAVE_LIBQRUPDATE=1 -DHAVE_LIBGSL=1 -DHAVE_LIBNETCDF=1 -DHAVE_LIBCUDART=1 -DHAVE_LIBCURAND=1 -DHAVE_LIBCUBLAS=1 -DNDEBUG=1 -DHAVE_NETCDF_H=1 -DHAVE_CBLAS_H=1 -DHAVE_GSL_GSL_CBLAS_H=1 -DHAVE_BOOST_MPL_IF_HPP=1 -DHAVE_BOOST_RANDOM_BINOMIAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_BERNOULLI_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_GAMMA_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_MERSENNE_TWISTER_HPP=1 -DHAVE_BOOST_RANDOM_NORMAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_POISSON_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_INT_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_REAL_HPP=1 -DHAVE_BOOST_RANDOM_VARIATE_GENERATOR_HPP=1 -DHAVE_BOOST_TYPEOF_TYPEOF_HPP=1 -DHAVE_THRUST_ADJACENT_DIFFERENCE_H=1 -DHAVE_THRUST_BINARY_SEARCH_H=1 -DHAVE_THRUST_COPY_H=1 -DHAVE_THRUST_DEVICE_PTR_H=1 -DHAVE_THRUST_DISTANCE_H=1 -DHAVE_THRUST_EXTREMA_H=1 -DHAVE_THRUST_FILL_H=1 -DHAVE_THRUST_FOR_EACH_H=1 -DHAVE_THRUST_FUNCTIONAL_H=1 -DHAVE_THRUST_GATHER_H=1 -DHAVE_THRUST_INNER_PRODUCT_H=1 -DHAVE_THRUST_ITERATOR_COUNTING_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DETAIL_NORMAL_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DISCARD_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_PERMUTATION_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_TRANSFORM_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_ZIP_ITERATOR_H=1 -DHAVE_THRUST_LOGICAL_H=1 -DHAVE_THRUST_REDUCE_H=1 -DHAVE_THRUST_SCAN_H=1 -DHAVE_THRUST_SEQUENCE_H=1 -DHAVE_THRUST_SORT_H=1 -DHAVE_THRUST_TRANSFORM_H=1 -DHAVE_THRUST_TRANSFORM_REDUCE_H=1 -DHAVE_THRUST_TRANSFORM_SCAN_H=1 -DHAVE_THRUST_TUPLE_H=1 -DHAVE_GSL_GSL_MULTIMIN_H=1 -DHAVE_CUBLAS_V2_H=1 -DHAVE_CURAND_H=1 -DENABLE_DIAGNOSTICS=no -I.  -Isrc  -I/usr/local/cuda/include -DENABLE_SINGLE -DENABLE_CUDA -DCUDA_FAST_MATH=1  -DENABLE_GPU_CACHE   -DENABLE_OPENMP    -fopenmp -O3 -g3 -funroll-loops   -MT src/bi/netcdf/OptimiserNetCDFBuffer.o -MD -MP -MF $depbase.Tpo -c -o src/bi/netcdf/OptimiserNetCDFBuffer.o src/bi/netcdf/OptimiserNetCDFBuffer.cpp &&\ 
mv -f $depbase.Tpo $depbase.Po 
depbase=`echo src/bi/netcdf/ParticleFilterNetCDFBuffer.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\ 
g++ -DPACKAGE_NAME=\"LibBi\" -DPACKAGE_TARNAME=\"libbi\" -DPACKAGE_VERSION=\"1.4.4\" -DPACKAGE_STRING=\"LibBi\ 1.4.4\" -DPACKAGE_BUGREPORT=\"bug-report@libbi.org\" -DPACKAGE_URL=\"http://www.libbi.org\" -DHAVE_OMP_H=1 -DTHRUST_DEVICE_SYSTEM=THRUST_DEVICE_SYSTEM_CUDA -DTHRUST_HOST_SYSTEM=THRUST_HOST_SYSTEM_OMP -DHAVE_LIBM=1 -DHAVE_LIBGFORTRAN=1 -DHAVE_LIBQRUPDATE=1 -DHAVE_LIBGSL=1 -DHAVE_LIBNETCDF=1 -DHAVE_LIBCUDART=1 -DHAVE_LIBCURAND=1 -DHAVE_LIBCUBLAS=1 -DNDEBUG=1 -DHAVE_NETCDF_H=1 -DHAVE_CBLAS_H=1 -DHAVE_GSL_GSL_CBLAS_H=1 -DHAVE_BOOST_MPL_IF_HPP=1 -DHAVE_BOOST_RANDOM_BINOMIAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_BERNOULLI_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_GAMMA_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_MERSENNE_TWISTER_HPP=1 -DHAVE_BOOST_RANDOM_NORMAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_POISSON_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_INT_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_REAL_HPP=1 -DHAVE_BOOST_RANDOM_VARIATE_GENERATOR_HPP=1 -DHAVE_BOOST_TYPEOF_TYPEOF_HPP=1 -DHAVE_THRUST_ADJACENT_DIFFERENCE_H=1 -DHAVE_THRUST_BINARY_SEARCH_H=1 -DHAVE_THRUST_COPY_H=1 -DHAVE_THRUST_DEVICE_PTR_H=1 -DHAVE_THRUST_DISTANCE_H=1 -DHAVE_THRUST_EXTREMA_H=1 -DHAVE_THRUST_FILL_H=1 -DHAVE_THRUST_FOR_EACH_H=1 -DHAVE_THRUST_FUNCTIONAL_H=1 -DHAVE_THRUST_GATHER_H=1 -DHAVE_THRUST_INNER_PRODUCT_H=1 -DHAVE_THRUST_ITERATOR_COUNTING_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DETAIL_NORMAL_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DISCARD_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_PERMUTATION_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_TRANSFORM_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_ZIP_ITERATOR_H=1 -DHAVE_THRUST_LOGICAL_H=1 -DHAVE_THRUST_REDUCE_H=1 -DHAVE_THRUST_SCAN_H=1 -DHAVE_THRUST_SEQUENCE_H=1 -DHAVE_THRUST_SORT_H=1 -DHAVE_THRUST_TRANSFORM_H=1 -DHAVE_THRUST_TRANSFORM_REDUCE_H=1 -DHAVE_THRUST_TRANSFORM_SCAN_H=1 -DHAVE_THRUST_TUPLE_H=1 -DHAVE_GSL_GSL_MULTIMIN_H=1 -DHAVE_CUBLAS_V2_H=1 -DHAVE_CURAND_H=1 -DENABLE_DIAGNOSTICS=no -I.  -Isrc  -I/usr/local/cuda/include -DENABLE_SINGLE -DENABLE_CUDA -DCUDA_FAST_MATH=1  -DENABLE_GPU_CACHE   -DENABLE_OPENMP    -fopenmp -O3 -g3 -funroll-loops   -MT src/bi/netcdf/ParticleFilterNetCDFBuffer.o -MD -MP -MF $depbase.Tpo -c -o src/bi/netcdf/ParticleFilterNetCDFBuffer.o src/bi/netcdf/ParticleFilterNetCDFBuffer.cpp &&\ 
mv -f $depbase.Tpo $depbase.Po 
depbase=`echo src/bi/netcdf/MCMCNetCDFBuffer.o | sed 's|[^/]*$|.deps/&|;s|\.o$||'`;\ 
g++ -DPACKAGE_NAME=\"LibBi\" -DPACKAGE_TARNAME=\"libbi\" -DPACKAGE_VERSION=\"1.4.4\" -DPACKAGE_STRING=\"LibBi\ 1.4.4\" -DPACKAGE_BUGREPORT=\"bug-report@libbi.org\" -DPACKAGE_URL=\"http://www.libbi.org\" -DHAVE_OMP_H=1 -DTHRUST_DEVICE_SYSTEM=THRUST_DEVICE_SYSTEM_CUDA -DTHRUST_HOST_SYSTEM=THRUST_HOST_SYSTEM_OMP -DHAVE_LIBM=1 -DHAVE_LIBGFORTRAN=1 -DHAVE_LIBQRUPDATE=1 -DHAVE_LIBGSL=1 -DHAVE_LIBNETCDF=1 -DHAVE_LIBCUDART=1 -DHAVE_LIBCURAND=1 -DHAVE_LIBCUBLAS=1 -DNDEBUG=1 -DHAVE_NETCDF_H=1 -DHAVE_CBLAS_H=1 -DHAVE_GSL_GSL_CBLAS_H=1 -DHAVE_BOOST_MPL_IF_HPP=1 -DHAVE_BOOST_RANDOM_BINOMIAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_BERNOULLI_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_GAMMA_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_MERSENNE_TWISTER_HPP=1 -DHAVE_BOOST_RANDOM_NORMAL_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_POISSON_DISTRIBUTION_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_INT_HPP=1 -DHAVE_BOOST_RANDOM_UNIFORM_REAL_HPP=1 -DHAVE_BOOST_RANDOM_VARIATE_GENERATOR_HPP=1 -DHAVE_BOOST_TYPEOF_TYPEOF_HPP=1 -DHAVE_THRUST_ADJACENT_DIFFERENCE_H=1 -DHAVE_THRUST_BINARY_SEARCH_H=1 -DHAVE_THRUST_COPY_H=1 -DHAVE_THRUST_DEVICE_PTR_H=1 -DHAVE_THRUST_DISTANCE_H=1 -DHAVE_THRUST_EXTREMA_H=1 -DHAVE_THRUST_FILL_H=1 -DHAVE_THRUST_FOR_EACH_H=1 -DHAVE_THRUST_FUNCTIONAL_H=1 -DHAVE_THRUST_GATHER_H=1 -DHAVE_THRUST_INNER_PRODUCT_H=1 -DHAVE_THRUST_ITERATOR_COUNTING_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DETAIL_NORMAL_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_DISCARD_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_PERMUTATION_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_TRANSFORM_ITERATOR_H=1 -DHAVE_THRUST_ITERATOR_ZIP_ITERATOR_H=1 -DHAVE_THRUST_LOGICAL_H=1 -DHAVE_THRUST_REDUCE_H=1 -DHAVE_THRUST_SCAN_H=1 -DHAVE_THRUST_SEQUENCE_H=1 -DHAVE_THRUST_SORT_H=1 -DHAVE_THRUST_TRANSFORM_H=1 -DHAVE_THRUST_TRANSFORM_REDUCE_H=1 -DHAVE_THRUST_TRANSFORM_SCAN_H=1 -DHAVE_THRUST_TUPLE_H=1 -DHAVE_GSL_GSL_MULTIMIN_H=1 -DHAVE_CUBLAS_V2_H=1 -DHAVE_CURAND_H=1 -DENABLE_DIAGNOSTICS=no -I.  -Isrc  -I/usr/local/cuda/include -DENABLE_SINGLE -DENABLE_CUDA -DCUDA_FAST_MATH=1  -DENABLE_GPU_CACHE   -DENABLE_OPENMP    -fopenmp -O3 -g3 -funroll-loops   -MT src/bi/netcdf/MCMCNetCDFBuffer.o -MD -MP -MF $depbase.Tpo -c -o src/bi/netcdf/MCMCNetCDFBuffer.o src/bi/netcdf/MCMCNetCDFBuffer.cpp &&\ 
mv -f $depbase.Tpo $depbase.Po 
In file included from /usr/local/cuda/include/common_functions.h:50:0, 
                 from /usr/local/cuda/include/cuda_runtime.h:115, 
                 from <command-line>:0: 
/usr/local/cuda/include/crt/common_functions.h:64:24: error: token ""__CUDACC_VER__ is no longer supported.  Use __CUDACC_VER_MAJOR__, __CUDACC_VER_MINOR__, and __CUDACC_VER_BUILD__ instead."" is not valid in preprocessor expressions 
 #define __CUDACC_VER__ "__CUDACC_VER__ is no longer supported.  Use __CUDACC_VER_MAJOR__, __CUDACC_VER_MINOR__, and __CUDACC_VER_BUILD__ instead." 
                        ^ 
Makefile:1439: recipe for target 'src/sample_gpu.o' failed 
make: *** [src/sample_gpu.o] Error 1 
make: *** Waiting for unfinished jobs.... 
Error: make failed with return code 2, see /tmp/Rtmpz14g8r/Baseline21b69c15598/.Baseline/build_openmp_cuda_cudafastmath_gpucache_single_sm_30/make.log for details 
 at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 322. 
    Bi::FrontEnd::_error(Bi::FrontEnd=HASH(0x5630fcff4f48), "make failed with return code 2, see /tmp/Rtmpz14g8r/Baseline2"...) called at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 110 
    Bi::FrontEnd::__ANON__("make failed with return code 2, see /tmp/Rtmpz14g8r/Baseline2"...) called at /usr/local/share/perl/5.24.1/Bi/Builder.pm line 468 
    Bi::Builder::_make(Bi::Builder=HASH(0x5630ff604928), "sample") called at /usr/local/share/perl/5.24.1/Bi/Builder.pm line 278 
    Bi::Builder::build(Bi::Builder=HASH(0x5630ff604928), "sample") called at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 245 
    Bi::FrontEnd::client(Bi::FrontEnd=HASH(0x5630fcff4f48)) called at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 135 
    eval {...} called at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 127 
    Bi::FrontEnd::do(Bi::FrontEnd=HASH(0x5630fcff4f48)) called at /usr/local/bin/libbi line 36 
 at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 322. 
    Bi::FrontEnd::_error(Bi::FrontEnd=HASH(0x5630fcff4f48), "Error: make failed with return code 2, see /tmp/Rtmpz14g8r/Ba"...) called at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 110 
    Bi::FrontEnd::__ANON__("Error: make failed with return code 2, see /tmp/Rtmpz14g8r/Ba"...) called at /usr/local/share/perl/5.24.1/Bi/FrontEnd.pm line 138 
    Bi::FrontEnd::do(Bi::FrontEnd=HASH(0x5630fcff4f48)) called at /usr/local/bin/libbi line 36

Any help on this would be appreciated :smile:

This looks like a CUDA version issue to me but I really have very little idea!

Thanks,

Sam

sbfnk commented 5 years ago

Hi Sam, Do you still have this problem? Sorry, only just saw this. Seb.

seabbs commented 5 years ago

Hi Seb,

No problem. I ended up rolling the CUDA version back and got everything working.

Slightly forgotten what the end result was as I found that using a GPU was not optimal for what I was doing so haven't done anything with this for a while.

Happy for this to be closed or do some digging to see what worked/didn't work?

sbfnk commented 5 years ago

Will close for now - both CUDA 9.2 and 10.1 work for me so I think there may have been a deeper issue.