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soedinglab / CCMpred

Protein Residue-Residue Contacts from Correlated Mutations predicted quickly and accurately.
http://www.ncbi.nlm.nih.gov/pubmed/25064567
GNU Affero General Public License v3.0
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Error when using make #24

Open TirtaHema opened 4 years ago

TirtaHema commented 4 years ago

I had some problem when installing CCMpred when use make command

[ 30%] Built target conjugrad [ 35%] Building CUDA object CMakeFiles/ccmpred.dir/src/evaluate_cuda_kernels.cu.o nvcc fatal : Unknown option 'fopenmp' CMakeFiles/ccmpred.dir/build.make:326: recipe for target 'CMakeFiles/ccmpred.dir/src/evaluate_cuda_kernels.cu.o' failed make[2]: [CMakeFiles/ccmpred.dir/src/evaluate_cuda_kernels.cu.o] Error 1 CMakeFiles/Makefile2:67: recipe for target 'CMakeFiles/ccmpred.dir/all' failed make[1]: [CMakeFiles/ccmpred.dir/all] Error 2 Makefile:151: recipe for target 'all' failed make: *** [all] Error 2

Hugemiler commented 4 years ago

Hello, @TirtaHema ! I had the same issue over here, and that's how I worked around it:

When I first tried to compile, I was using CUDA 10.2, gcc 7.4 and cmake 3.10.2 (the default version on ubuntu's apt repository). The first thing I tried was passing the -DWITH_OMP=OFF flag to cmake to try and see if that would solve my problem. It did not, only went from a nvcc conflict with '-fopenmp' to a conflict with '-pthreads'.

Looking more into ir I found this blog post https://peter.bloomfield.online/workaround-nvcc-pthread-issue/ which suggested changing the cmake version.

I went to https://cmake.org/download/ and downloaded cmake version 3.16, compiled it and was finally able to install CCMpred using this cmake version. So, apparently, the issue is with cmake, not with the CCMpred software.

I hope it helps. =]

DaMaoShan commented 3 years ago

Hello, @TirtaHema ! I had the same issue over here, and that's how I worked around it:

When I first tried to compile, I was using CUDA 10.2, gcc 7.4 and cmake 3.10.2 (the default version on ubuntu's apt repository). The first thing I tried was passing the -DWITH_OMP=OFF flag to cmake to try and see if that would solve my problem. It did not, only went from a nvcc conflict with '-fopenmp' to a conflict with '-pthreads'.

Looking more into ir I found this blog post https://peter.bloomfield.online/workaround-nvcc-pthread-issue/ which suggested changing the cmake version.

I went to https://cmake.org/download/ and downloaded cmake version 3.16, compiled it and was finally able to install CCMpred using this cmake version. So, apparently, the issue is with cmake, not with the CCMpred software.

I hope it helps. =]

Great! I succeed with your help!!! Thank you very much!