From f60c480bdfcffd86d397f665c9481564e07d301e Mon Sep 17 00:00:00 2001
From: Michal Babinski <mbabinski@lanl.gov>
Date: Sat, 27 Jul 2024 10:03:32 -0700
Subject: [PATCH] Fix multiple map_file

This was failing linting.
---
 mbin_nmdc.wdl | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/mbin_nmdc.wdl b/mbin_nmdc.wdl
index 3670fe0..d88950c 100755
--- a/mbin_nmdc.wdl
+++ b/mbin_nmdc.wdl
@@ -61,7 +61,7 @@ workflow nmdc_mags {
                 gtdbtk_env = gtdbtk_db,
                 checkm_env = checkm_db,
                 eukcc2_env = eukcc2_db,
-                map_file = stage.map_file,
+                map_file = stage.map_tsv,
                 mbin_container = container
     }
     call package {
@@ -303,7 +303,7 @@ task stage {
         File product_names = "products.tsv"
         File gene_phylogeny = "gene_phylogeny.tsv"
         File lineage_tsv = "lineage.tsv"
-        File? map_file = map_out
+        File? map_tsv = map_out
         String start = read_string("start.txt")
    }
    runtime {