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Trio-based CNV detection error: no snpdist defined!!! #99

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hezht3 opened this issue Jan 11, 2023 · 0 comments

hezht3 commented Jan 11, 2023

Hi,

When I was running detect_cnv.pl -trio following instructions here, I met with no snpdist defined!!! error as issue #69:

ERROR: For nextregion 13,rs2391883,kgp11320675, pos=kgp16887738 rs2391883 kgp11320675 sample1.txt sample2.txt sample3.txt: no snpdist defined!!! at ~/PennCNV-1.0.5/detect_cnv.pl line 1952

In the detect_cnv.pl script, it is

$region_snpdist->{$nextsubregion} or confess "\nERROR: For nextregion $nextsubregion, pos=@nextpos @$ref_inputfile: no snpdist defined!!!"

I wonder if there's any suggestion on resolving this. Thanks!

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