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uni-halle / gerbil

A fast and memory-efficient k-mer counter with GPU-support
MIT License
34 stars 14 forks source link

About Cuda Version #24

Open sabah150170 opened 1 year ago

sabah150170 commented 1 year ago

Hi,

I try to run gerbil via this command, " ./gerbil -k 18 -l 1 -g SRR097732_1.fastq /tmp output "

But I got an error like this, "Error while searching for GPU's: CUDA driver version is insufficient for CUDA runtime version Disabling GPU support. unable to create output-file"

I check CUDA version "nvcc --version nvcc: NVIDIA (R) Cuda compiler driver Copyright (c) 2005-2018 NVIDIA Corporation Built on Sat_Aug_25_21:08:01_CDT_2018 Cuda compilation tools, release 10.0, V10.0.130"

This looks up to date. Could you please help me how I can solve this.

srechner commented 1 year ago

Which NVIDIA driver version do you use? You may test that with the command nvidia-smi.

sabah150170 commented 1 year ago

Hi, I changed the cuda and boost version that I used so I fixed the issue. But I have a different problem now. I am sharing the screen shot about the new problem,

gerbil2

Could you please help me how I can solve this.

srechner commented 1 year ago

There seem to be 2 errors.

  1. Gerbil is trying to write a temporary file to the root directory. Specify /tmp/ as tempory directory (with / at the end).
  2. Gerbil still cannot find any GPU. Please give me the output of nvidia-smi.
sabah150170 commented 1 year ago

Actually, I need to run the gerbil application in two different systems. In the first one, I am getting above error and the output of the command you asked like this,

gerbil3

And in the second system, I got an error during the make and the error is this,

make_gerbil

output of cmake is this,

cmake_gerbil

Thanks you.

srechner commented 1 year ago

As the output of nvidia-smi says, it seems that you don't have an NVIDIA driver installed. You need to install one.

In the second system , the cmake log seems fine but the make process fails due to missing dependencies of your boost library. I would suggest removing all boost libraries and rebuild boost from the souce code.