diff --git a/workflows/cellranger/cellranger_workflow.wdl b/workflows/cellranger/cellranger_workflow.wdl
index ba856e51..a30fef2b 100644
--- a/workflows/cellranger/cellranger_workflow.wdl
+++ b/workflows/cellranger/cellranger_workflow.wdl
@@ -435,9 +435,6 @@ task generate_count_config {
     input {
         File input_csv_file
         String output_dir
-        Array[String]? fastq_dirs
-        Array[String]? fastq_dirs_atac
-        Array[String]? fastq_dirs_arc
         String config_version
         String docker_registry
         String zones