Issue #60 new
Chicago program runs successfully on the GM_rep1.chinput,GM_rep2.chinput and GM_rep3.chinput.
But while running GM12878 datasets, it is showing the following error.
Filtering out 79 other ends with top 0.01% number of trans-interactions
Error in if (cj == upper) next : missing value where TRUE/FALSE needed
Calls: chicagoPipeline -> normaliseOtherEnds -> .addTLB -> cut2
In addition: Warning message:
In (1:g) * nnm : NAs produced by integer overflow
Would you please guide me on how to resolve the issue or what parameter I need to change?
I am attaching the settings file for your reference.
Thank you for your time.
Same errors also happened on my computer running Chicago.
Waiting for help
Adding the following command: cd <- modifySettings(cd, settings=list(tlb.minProxOEPerBin=50000, tlb.minProxB2BPerBin=2500)) could solve this issue.
This error was also mentioned in the release note for chicago v1.15 (as shown in the file ‘NEW’).
However, the following command still installed v1.13 by default. (at least on my computer)
Hope this helps.