GPU/CUDA Installation Not Detected

tarak77 commented 10 months ago

Hi, I am trying to run HICCUPS on a test insitu hic data downloaded from 4DN portal on my LSF cluster. After loading the java and cuda modules, I try to run an interactive session on GPU and get the following error

[shisodet@lilac-ln02 insitu_hic]$ bsub -R "rusage[mem=40]" -q gpuqueue -R "gpu||A100||A40" -gpu "num=1" -W 4:00 -Is bash
Job <19519945> is submitted to queue <gpuqueue>.
<<Waiting for dispatch ...>>
<<Starting on lj14>>
[shisodet@lj14 insitu_hic]$ 
[shisodet@lj14 insitu_hic]$ java -Xmx10g -jar /data/deyk/tarak/juicer_tools_1.22.01.jar hiccups --ignore-sparsity ./test/4DNFI4OUMWZ8/4DNFI4OUMWZ8.hic ./test/4DNFI4OUMWZ8/
WARN [2023-08-29T14:13:00,285]  [Globals.java:138] [main]  Development mode is enabled
Reading file: ./test/4DNFI4OUMWZ8/4DNFI4OUMWZ8.hic
No valid configurations specified, using default settings
Using 1 CPU thread(s)
Default settings for 5kb, 10kb, and 25kb being used
Running HiCCUPS for resolution 5000
Data not available for Y at 5000 resolution
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jcuda.CudaException: Failed to create a context: INVALID CUresult: 46
    at jcuda.utils.KernelLauncher.createContext(KernelLauncher.java:650)
    at jcuda.utils.KernelLauncher.initialize(KernelLauncher.java:626)
    at jcuda.utils.KernelLauncher.<init>(KernelLauncher.java:586)
    at jcuda.utils.KernelLauncher.create(KernelLauncher.java:393)
    at jcuda.utils.KernelLauncher.create(KernelLauncher.java:321)
    at jcuda.utils.KernelLauncher.compile(KernelLauncher.java:270)
    at juicebox.tools.utils.juicer.hiccups.GPUController.<init>(GPUController.java:72)
    at juicebox.tools.clt.juicer.HiCCUPS.buildGPUController(HiCCUPS.java:578)
    at juicebox.tools.clt.juicer.HiCCUPS.runCoreCodeForHiCCUPS(HiCCUPS.java:505)
    at juicebox.tools.clt.juicer.HiCCUPS.access$200(HiCCUPS.java:158)
    at juicebox.tools.clt.juicer.HiCCUPS$1.run(HiCCUPS.java:434)
    at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
    at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
    at java.lang.Thread.run(Thread.java:748)
GPU/CUDA Installation Not Detected
Exiting HiCCUPS

Any help will be great

adamcatto commented 4 months ago

Hey @tarak77 did you end up resolving this issue? Our lab is running into the same issue. nvidia-smi can find the GPU (V100) but HiCCUPS is giving the same GPU/CUDA Installation Not Detected error.

tarak77 commented 4 months ago

@adamcatto unfortunately no. I don't remember exactly now but I think I used the CPU version

aidenlab / juicer

GPU/CUDA Installation Not Detected #325