Error in FUN(X[[i]], ...) : subscript out of bounds
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Entering edit mode
sv380 • 0
@sv380-7804
Last seen 6.3 years ago
United Kingdom

I am trying to run a Bioconductor package GOTHiC to detect significant interactions between distant loci.

The command is

paired = pairReads(fileName1, fileName2, sampleName="test",DUPLICATETHRESHOLD = 1, fileType="BAM")

I get the following error

Error in FUN(X[[i]], ...) : subscript out of bounds

When I do traceback, I get

5: lapply(X = X, FUN = FUN, ...)
4: sapply(strsplit(id1, "\\-"), "[[", 2)
3: sapply(strsplit(id1, "\\-"), "[[", 2)
2: .onlyPairing(fileName1, fileName2, sampleName, fileType)
1: pairReads(fileName1, fileName2, sampleName = "test", DUPLICATETHRESHOLD = 1,
       fileType = "BAM")

Any suggestions?

bioconductor gothic R • 2.9k views
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Entering edit mode
Vicky_Tche • 0
@vicky_tche-8215
Last seen 6.3 years ago
France

I'm having the same error, any solution?

Thanks!

 

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