Error in t.test.default((values)/sigma[indLargeSeg], mu = 0) : not enough 'x' observations Calls: t.test -> t.test.default In addition: There were 50 or more warnings (use warnings() to see the first 50) Execution halted

[ruochenj]

Dear authors,

This error occurs during multiple runs of the latest version (V7.0) of ONCOCNV:

Error in t.test.default((values)/sigma[indLargeSeg], mu = 0) :
not enough 'x' observations
Calls: t.test -> t.test.default
In addition: There were 50 or more warnings (use warnings() to see the first 50)
Execution halted

I figured out that this is due to the following code in line 774:
tt <- which(predValeu==0 & ratio< -magicThreshold)

Sometimes, the output of the predictClust function (predValeu variable) involves no "0" class, but "-1", "1", and "NA". In this case, the tt will have length 0 and cause the bug I mentioned. How would you advice to redefine the tt? I want to use "tt <- which(predValeu==1 & ratio< -magicThreshold)" instead for the function to bypass this problem, but I am wondering if you have any suggestions. Would you update your package to address this bug?

Best,
Ruochen

[FrankFeng2022]

I am having the same issue. It seems like a random error, as when I run it on the same samples, sometimes the same issue occurs and sometimes it doesn't.

It would be great if @valeu could help solving this issue. Thanks!