compilation with CUDA fails

[estolle]

Hi there,

I've been trying to compile racon with CUDA support and by now tried many version/branches, including the racon-gpu from Nvidia/Clarabricks.

While I could fix some cmake problem and missing dependencies, in the end I fail to successfully compile it during the make step. The non CUDA version is compiling successfully. I am running Ubuntu 20.04 with NVIDIA RTX 3090, CUDA 11.3, Python 3.8, have GenomeWork installed separately already.

This is the commands/erros I get (any ideas how to fix it?):

sudo wget https://github.com/lbcb-sci/racon/releases/download/1.4.21/racon-v1.4.21.tar.gz
sudo tar -xvf racon-v1.4.21.tar.gz
cd racon-v1.4.21
sudo mkdir build
cd build
sudo cmake -DCMAKE_BUILD_TYPE=Release -Dracon_enable_cuda=ON ..
sudo make -j 20

[ 87%] Building CXX object GenomeWorks/cudapoa/CMakeFiles/cudapoa.dir/src/cudapoa.cpp.o
[ 87%] Building CXX object GenomeWorks/cudapoa/CMakeFiles/cudapoa.dir/version.cpp.o
In file included from /opt/ont/racon/racon-v1.4.21/vendor/GenomeWorks/3rdparty/spdlog/include/spdlog/fmt/fmt.h:21,
from /opt/ont/racon/racon-v1.4.21/vendor/GenomeWorks/3rdparty/spdlog/include/spdlog/common.h:28,
from /opt/ont/racon/racon-v1.4.21/vendor/GenomeWorks/3rdparty/spdlog/include/spdlog/spdlog.h:12,
from /opt/ont/racon/racon-v1.4.21/vendor/GenomeWorks/common/base/include/claraparabricks/genomeworks/logging/logging.hpp:99,
from /opt/ont/racon/racon-v1.4.21/vendor/GenomeWorks/cudapoa/src/cudapoa.cpp:18:
/opt/ont/racon/racon-v1.4.21/vendor/GenomeWorks/3rdparty/spdlog/include/spdlog/fmt/bundled/format.h:3475:55: error: ISO C++ did not adopt string literal operator templates taking an argument pack of characters [-Werror=pedantic]
3475 | FMT_CONSTEXPR internal::udl_formatter<Char, CHARS...> operator""_format() {
| ^~~~~~~~
cc1plus: all warnings being treated as errors
make[2]: *** [GenomeWorks/cudapoa/CMakeFiles/cudapoa.dir/build.make:77: GenomeWorks/cudapoa/CMakeFiles/cudapoa.dir/src/cudapoa.cpp.o] Error 1
make[1]: *** [CMakeFiles/Makefile2:4682: GenomeWorks/cudapoa/CMakeFiles/cudapoa.dir/all] Error 2
make: *** [Makefile:152: all] Error 2

[rvaser]

Hello,
could you please open this issue at https://github.com/clara-parabricks/GenomeWorks, as it seems the error is somewhere in their module? Although it is weird as you were able to install it separately. You might get away by removing -Werror from here, but opening the issue there might be a better option.

Best regards,
Robert