Run prokka in tests

BCCDC-PHL · May 15, 2024 · 6be0d3f · 6be0d3f
1 parent bf05f40
commit 6be0d3f
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/.github/scripts/run_pipeline.sh b/.github/scripts/run_pipeline.sh
@@ -10,5 +10,6 @@ nextflow run main.nf \
 	 --cache ${HOME}/.conda/envs \
 	 --fastq_input .github/data/fastq \
 	 --outdir .github/data/test_output \
+	 --prokka \
 	 -with-report .github/data/test_output/nextflow_report.html \
  	 -with-trace .github/data/test_output/nextflow_trace.tsv