Merge pull request #8 from lifebit-ai/add-vcftools-multiqc

Prevent multiqc error for vcf qual
lifebit-ai · Feb 14, 2019 · 990bfc4 · 990bfc4
2 parents b481e0d + dda784c
commit 990bfc4
Showing 1 changed file with 2 additions and 0 deletions.
diff --git a/main.nf b/main.nf
@@ -395,6 +395,8 @@ process vcftools{
   vcftools --vcf $vcf --TsTv-summary
   vcftools --vcf $vcf --TsTv-by-count
   vcftools --vcf $vcf --TsTv-by-qual
+  # remove rows containing 'inf' which breaks multiqc report
+  sed -i '/inf/d' out.TsTv.qual
   """
 }