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aboyle / F-seq

A Feature Density Estimator for High-Throughput Sequence Tags
http://fureylab.web.unc.edu/software/fseq/
GNU General Public License v3.0
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Exception in thread "main" java.lang.ArithmeticException: / by zero #10

Closed brianpenghe closed 8 years ago

brianpenghe commented 8 years ago

I ran into this error message multiple times. The message is:

Exception in thread "main" java.lang.ArithmeticException: / by zero at edu.duke.igsp.gkde.KDEChromosome.run(KDEChromosome.java:325) at edu.duke.igsp.gkde.Main.main(Main.java:272)

Any ideas?

am33567 commented 8 years ago

Hi, I got the same error message, did you figure out what was the problem?

Thanks!

brianpenghe commented 8 years ago

YES . It turned out that Fseq is not good at handling mini chromosomes, which explain why it has more errors for hg38 data. What you could do is to remove the mini chromosomes in your fasta genome file, then build index, map and peakcall.

aboyle commented 8 years ago

These errors are from the estimation of fragment length which we thought was fixed but apparently not. An easy work-around is to provide a fragment length either based on what you cut from your gel or from the estimates from a larger chromosome.