Re: [gmx-users] gromacs-2020 build gcc/nvcc error

2020-01-29 Thread Ryan Woltz
Dear Szilárd, Thank you for your quick response. You are correct, after issuing sudo apt-get install gcc-9 g++-9 CMake was run with: CMAKE_PREFIX_PATH=/usr/:/usr/local/cuda/ cmake ../ -DGMX_BUILD_OWN_FFTW=ON -DREGRESSIONTEST_DOWNLOAD=ON -DGMX_GPU=ON -DCUDA_TOOLKIT_ROOT_DIR=/usr/local/cud

[gmx-users] Cell Membrane Potential

2020-01-29 Thread Frank Lam
Hi, I am undergraduate student wanting to learn and use GROMACS for a project on membrane proteins. Is altering membrane potential in a simulation possible using GROMACS? I do apologize if this is trivial. I tried looking at the documentation, but most of the information are currently too challeng

[gmx-users] gmx dens charge

2020-01-29 Thread anupama sharma
Dear users, I need to know for charge density calculation specially for water, should we use -center /-symm option or not and if not why? Since I tried the option (-center/-symm) for charge density calculation of water and gmx dens module was not reading frame. I used the gromacs version 5.1.4 for

[gmx-users] ERROR DURING INSTALLATION

2020-01-29 Thread Sakshi Arora
I am using Linux to install gromacs and have installed all the prerequisites and programs and packages as per my knowledge. In the build directory, after using the command - 'cmake ..' I have received the following error message. Please help me out with this. ERROR - CMake Error at CMakeLists.txt:6

Re: [gmx-users] gromacs-2020 build gcc/nvcc error

2020-01-29 Thread Szilárd Páll
Hi Ryan, The issue you linked has been worked around in the build system, so my guess is that the issue you are seeing is not related. I would recommend that you update your software stack to the latest version (both CUDA 9.1 and gcc 5 are a few years old). On Ubuntu 18.04 you should be able to g