diff --git a/tasks/phylogenetic_inference/augur/task_augur_tree.wdl b/tasks/phylogenetic_inference/augur/task_augur_tree.wdl index af50fb9f9..22bd469e7 100644 --- a/tasks/phylogenetic_inference/augur/task_augur_tree.wdl +++ b/tasks/phylogenetic_inference/augur/task_augur_tree.wdl @@ -47,7 +47,7 @@ task augur_tree { output { File aligned_tree = "~{build_name}_~{method}.nwk" String augur_version = read_string("VERSION") - String? iqtree_model_used = read_string("FINAL_MODEL.txt") + String iqtree_model_used = read_string("FINAL_MODEL.txt") } runtime { docker: docker diff --git a/workflows/phylogenetics/wf_augur.wdl b/workflows/phylogenetics/wf_augur.wdl index e77c20fb5..3a6b64ba9 100644 --- a/workflows/phylogenetics/wf_augur.wdl +++ b/workflows/phylogenetics/wf_augur.wdl @@ -203,7 +203,7 @@ workflow augur { File? auspice_input_json = augur_export.auspice_json File? time_tree = augur_refine.refined_tree File distance_tree = augur_tree.aligned_tree - String? iqtree_model_used = augur_tree.iqtree_model_used + String iqtree_model_used = augur_tree.iqtree_model_used File aligned_fastas = select_first([augur_align.aligned_fasta, alignment_fasta]) File combined_assemblies = filter_sequences_by_length.filtered_fasta File? metadata_merged = tsv_join.out_tsv