lower mincov to 6

BCCDC-PHL · Feb 22, 2024 · 4b9a5de · 4b9a5de
1 parent 354d012
commit 4b9a5de
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/.github/scripts/run_pipeline.sh b/.github/scripts/run_pipeline.sh
@@ -9,6 +9,7 @@ nextflow run main.nf \
 	 --cache ${HOME}/.conda/envs \
 	 --fastq_input .github/data/fastq \
 	 --ref .github/data/assemblies/NC_000962.3.fa \
+	 --mincov 6 \
 	 --outdir .github/data/test_output \
 	 -with-report .github/data/test_output/nextflow_report.html \
  	 -with-trace .github/data/test_output/nextflow_trace.tsv