HICCUPS on CPU

Andrea Perreault

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Jun 21, 2018, 7:16:23 PM6/21/18

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Hello!

I'm attempting to run HICCUPS on a single computer. Below is my line of code:

$ java -jar juicer_tools hiccups <path_to_hic_file> <path_to_output>

I get the following output:

Reading file: <hic file>
HiC file version: 8
No valid configurations specified, using default settings
Default settings for 5kb, 10kb, and 25kb being used
Running HiCCUPS for resolution 5000
GPU/CUDA Installation Not Detected
Exiting HiCCUPS

Why am I getting the GPU/CUDA error if I am only running on a CPU? How can I get around this?

Thanks!

-Andrea

Moshe Olshansky

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Jun 21, 2018, 9:25:54 PM6/21/18

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Hi Andrea,

As far as I know HICCUPS requires GPU (hardware). There are many laptops and desktops which have it but not all. My laptop and our server do not have it so I use somebody else's server to run it. So you can not run it on a computer lacking GPU.

I think that it would be good to be able to run HICCUPS without GPU (if you do not mind the time it may take) but this is something the developers need to decide whether they want to add it or not.