From dd0a50f3a09071200a10cc6d6b04499ebe8317b8 Mon Sep 17 00:00:00 2001 From: kevinlibuit Date: Thu, 18 Mar 2021 02:03:44 +0000 Subject: [PATCH] remove commented out sections --- workflows/wf_sarscov2_nextstrain_modified.wdl | 12 +----------- 1 file changed, 1 insertion(+), 11 deletions(-) diff --git a/workflows/wf_sarscov2_nextstrain_modified.wdl b/workflows/wf_sarscov2_nextstrain_modified.wdl index d5f19dfc..216f8272 100644 --- a/workflows/wf_sarscov2_nextstrain_modified.wdl +++ b/workflows/wf_sarscov2_nextstrain_modified.wdl @@ -16,7 +16,6 @@ workflow sarscov2_nextstrain { Array[File]+ sample_metadata_tsvs String build_name -# File builds_yaml Array[String]? ancestral_traits_to_infer @@ -94,14 +93,6 @@ workflow sarscov2_nextstrain { } - #### subsample sequences with nextstrain yaml file -# call nextstrain.nextstrain_build_subsample as subsample { -# input: -# alignment_msa_fasta = mafft.aligned_sequences, -# sample_metadata_tsv = derived_cols.derived_metadata, -# build_name = build_name, -# builds_yaml = builds_yaml -# } call nextstrain.fasta_to_ids { input: sequences_fasta = mafft.aligned_sequences @@ -186,8 +177,7 @@ workflow sarscov2_nextstrain { File metadata_merged = derived_cols.derived_metadata File keep_list = fasta_to_ids.ids_txt File mafft_alignment = mafft.aligned_sequences -# Int sequences_kept = subsample.sequences_out -# Map[String, Int] counts_by_group = subsample.counts_by_group + File ml_tree = draft_augur_tree.aligned_tree File time_tree = refine_augur_tree.tree_refined