Question: Annovar coding_change error
0
gravatar for er.doug.ragnar
2.2 years ago by
er.doug.ragnar20 wrote:

Hi I'm trying to use Annovar coding_change program but I keep getting syntax error, any idea why?

perl coding_change.pl S01.exonic_variant_function humandb/hg19_refGene.txt humandb/hg19_refGeneMrna.fa humandb/hg19_MT_ensGene.txt humandb/hg19_MT_ensGeneMrna.fa -out S01
Syntax error
coding_change annovar • 497 views
ADD COMMENTlink modified 2.2 years ago by Kevin Blighe59k • written 2.2 years ago by er.doug.ragnar20
2
gravatar for Kevin Blighe
2.2 years ago by
Kevin Blighe59k
Kevin Blighe59k wrote:

You're supplying too many parameters. You cannot have both of the following pairs of parameters:

  • humandb/hg19_refGene.txt && humandb/hg19_refGeneMrna.fa
  • humandb/hg19_MT_ensGene.txt && humandb/hg19_MT_ensGeneMrna.fa

You can only supply 1 pair of these per go.

Kevin

ADD COMMENTlink modified 2.2 years ago • written 2.2 years ago by Kevin Blighe59k
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