collect nextflow log

BCCDC-PHL · Jun 6, 2024 · ea26a15 · ea26a15
1 parent dc0b341
commit ea26a15
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/.github/scripts/run_pipeline.sh b/.github/scripts/run_pipeline.sh
@@ -23,4 +23,5 @@ nextflow run main.nf \
 	 --cache ${HOME}/.conda/envs \
 	 --fastq_input .github/data/fastq \
 	 --db .github/data/fluviewer_db/FluViewer_db_v_0_1_8.fa \
-	 --outdir .github/data/test_output
+	 --outdir .github/data/test_output \
+	 -with-log artifacts/nextflow.log