Issue with Juicer Tools Preprocessing

[yeyu52]

Dear Authors,

Thank you for developing such a valuable tool. I am currently using Juicer Tools for my de novo vertebrate genome assembly. After executing the following command:
java -jar -Xmx100G juicer_tools.1.9.9_jcuda.0.8.jar pre out_JBAT.txt out_JBAT.hic.part chrom.sizes
I encountered the following output:
Not including fragment map
Start preprocess
Writing header
Writing body
java.lang.IllegalStateException: Shutdown in progress
at java.io.DeleteOnExitHook.add(DeleteOnExitHook.java:60)
at java.io.File.deleteOnExit(File.java:1090)
at juicebox.tools.utils.original.Preprocessor$MatrixZoomDataPP.incrementCount(Preprocessor.java:1572)
at juicebox.tools.utils.original.Preprocessor$MatrixPP.incrementCount(Preprocessor.java:1389)
at juicebox.tools.utils.original.Preprocessor.writeBody(Preprocessor.java:660)
at juicebox.tools.utils.original.Preprocessor.preprocess(Preprocessor.java:346)
at juicebox.tools.clt.old.PreProcessing.run(PreProcessing.java:116)
at juicebox.tools.HiCTools.main(HiCTools.java:96)
Could you please provide any guidance or solutions to resolve this issue?

Thank you for your assistance.

Best regards,

Yeyu

[c-zhou]

Hello Yeyu,

Sorry for the delayed reply. This is likely an issue with juicer_tools, and I may not be able to provide much assistance. We have noticed that different versions of juicer_tools do make difference, so I suggest trying it with another version.

Best,
Chenxi