Hi,
I used CallPeaks on a Seurat object with a space in its project name and got the following output at the end:
Error in read.table(file = "/tmp/RtmprDo0xT/Colitis CD4_peaks.narrowPeak", : duplicate 'row.names' are not allowed In addition: Warning message: In read.table(file = "/tmp/RtmprDo0xT/Colitis CD4_peaks.narrowPeak", : header and 'col.names' are of different lengths
It seems my problem stems from the call to read.table that reads in the MACS2 narrowPeak output (peaks.R, lines 350 and 362); there's no delimiter specified, so the space creates a new column. The solution is easy enough (replace the space with an underscore), but it caused a headache for a brief while and I wonder if adding sep = "\t" as an argument in the function call wouldn't avert the same problem for someone else.
Thanks!
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