vcf-compare Error "Use of uninitialized value"
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3.7 years ago
Medhat 8.9k

I am using vcf command like this: (note: vcf file contains structure variations only )

vcf-compare -p a.vcf.gz b.vcf.gz

both files are processd as follow vcf-sort -> bgzip -> tabix

I got this error

Use of uninitialized value $out in print at /usr/local/bin/vcf-compare line 858.

plot , '-' using 1:2 axes x1y2 with lines lt 0 title "GTs total"
     ^

any idea?

vcf-tools vcf • 1.2k views
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3.2 years ago

Same problem, any solution yet...

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I was not able to fix this issue, but her is another thread maybe informative
tool to compare sv between two files

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