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No hic output #163

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Donbbit opened this issue Feb 7, 2023 · 0 comments
Open

No hic output #163

Donbbit opened this issue Feb 7, 2023 · 0 comments

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@Donbbit
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Donbbit commented Feb 7, 2023

Hi,
When I finished Juicer alignment and got merged_nodups.txt to run 3d-dna pipeline, I got the following issues:
gawk: scaffold/merge-scores.awk:42: fatal: division by zero attempted
java.lang.NumberFormatException: For input string: "100M"
at java.base/java.lang.NumberFormatException.forInputString(NumberFormatException.java:65)
at java.base/java.lang.Integer.parseInt(Integer.java:652)
at java.base/java.lang.Integer.parseInt(Integer.java:770)
at juicebox.tools.utils.original.AsciiPairIterator.advance(AsciiPairIterator.java:148)
at juicebox.tools.utils.original.AsciiPairIterator.next(AsciiPairIterator.java:194)
at juicebox.tools.utils.original.Preprocessor.computeWholeGenomeMatrix(Preprocessor.java:493)
at juicebox.tools.utils.original.Preprocessor.writeBody(Preprocessor.java:371)
at juicebox.tools.utils.original.Preprocessor.preprocess(Preprocessor.java:283)
at juicebox.tools.clt.old.PreProcessing.run(PreProcessing.java:108)
at juicebox.tools.HiCTools.main(HiCTools.java:86)
My command is:
./run-asm-pipeline.sh -m haploid -s 0 -c 25 -j 10 -S init- genome.nextpolish.fasta merged_nodups.txt 50G

Can anyone help with this?

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