gravatar for lhaiyan3

2 hours ago by

United States

Hi, I am using the CNVkit 0.9.7.b1 for the wgs data.
I got the following wrong message:

RuntimeError: Subprocess command failed:
$ Rscript --vanilla /tmp/tmpg0ig1rdg

b'Loading probe coverages into a data framenWarning message:nIn CNA(cbind(tbl$log2), tbl$chromosome, tbl$start, data.type = "logratio",  :n  markers with missing chrom and/or maploc removednnSegmenting the probe datanError in segment(cna, weights = tbl$weight, alpha = 1e-06) : n  length of weights should be the same as the number of probesnExecution haltedn'

Here is my script,

 cnvkit.py batch 7_JS0053CD062119.dd.bam 
-n 8_JS0053CD062319.dd.bam  9_JS0105CD081017.dd.bam 
-m wgs -f cnvkit_reference/hg19.fa 
--annotate cnvkit_reference/hg19_refFlat.txt

Can you please give me some suggestions?

Thanks,
HY

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modified 1 hour ago

by

Medhat8.6k

written
2 hours ago
by

lhaiyan330



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