Merge pull request #487 from broadinstitute/dp-dnax

dnanexus build fixes pt 3
broadinstitute · Sep 9, 2023 · 5a7d6d5 · 5a7d6d5
2 parents 2aefa3a + b3f05f8
commit 5a7d6d5
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Showing 3 changed files with 5 additions and 1 deletion.
diff --git a/pipes/WDL/workflows/terra_table_to_tsv.wdl b/pipes/WDL/workflows/terra_table_to_tsv.wdl
@@ -1,5 +1,7 @@
 version 1.0
 
+#DX_SKIP_WORKFLOW
+
 import "../tasks/tasks_terra.wdl" as terra
 
 workflow terra_table_to_tsv {

diff --git a/pipes/WDL/workflows/terra_update_assemblies.wdl b/pipes/WDL/workflows/terra_update_assemblies.wdl
@@ -1,5 +1,7 @@
 version 1.0
 
+#DX_SKIP_WORKFLOW
+
 import "../tasks/tasks_terra.wdl" as terra
 
 workflow update_data_tables {

diff --git a/pipes/dnax/dx-launcher/dx-yml-build b/pipes/dnax/dx-launcher/dx-yml-build
@@ -14,7 +14,7 @@ app_basename=os.path.splitext(os.path.basename(app_yaml_path))[0]
 output_json_filename=app_basename+'.json'
 
 with open(app_yaml_path) as infile:
-    data = yaml.load(infile)
+    data = yaml.safe_load(infile)
     data["00COMMENT"] = "This {}.json has been generated from {} automatically using dx-yml-build".format(app_basename,app_yaml_path)
     with open(output_json_filename, 'w') as outfile:
         json.dump(data, outfile, sort_keys=True, indent=2)