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aidenlab / juicer

A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
http://aidenlab.org
MIT License
418 stars 183 forks source link

Juicer tools - CPU #116

Closed yiming-kang closed 5 years ago

yiming-kang commented 5 years ago

Where do I find the CPU version of the Juicer tools? It seems all the downloads are for CUDA.

nchernia commented 5 years ago

It is the same jar. CUDA is additional not instead of.

yiming-kang commented 5 years ago

I'm running a compiled version: java -Xms512m -Xmx2048m -jar juicer_tools.1.7.5_linux_x64_jcuda.0.8.jar hiccups --cpu. It won't find the --cpu option:

Exception in thread "main" jargs.gnu.CmdLineParser$UnknownOptionException: Unknown option '--cpu'
    at jargs.gnu.CmdLineParser.parse(CmdLineParser.java:475)
    at jargs.gnu.CmdLineParser.parse(CmdLineParser.java:426)
    at juicebox.tools.HiCTools.main(HiCTools.java:63)
nchernia commented 5 years ago

Use a newer jar. https://github.com/aidenlab/juicer/wiki/Download

On Tue, May 28, 2019 at 2:15 PM yiming-kang notifications@github.com wrote:

I'm running a compiled version: java -Xms512m -Xmx2048m -jar juicer_tools.1.7.5_linux_x64_jcuda.0.8.jar hiccups --cpu. It won't find the --cpu option:

Exception in thread "main" jargs.gnu.CmdLineParser$UnknownOptionException: Unknown option '--cpu' at jargs.gnu.CmdLineParser.parse(CmdLineParser.java:475) at jargs.gnu.CmdLineParser.parse(CmdLineParser.java:426) at juicebox.tools.HiCTools.main(HiCTools.java:63)

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yiming-kang commented 5 years ago

Thanks! That solved the problem.