Update LinkedHashMap iteration in WDL template. (#170)

Author: cmnbroad

src/main/resources/org/broadinstitute/barclay/helpTemplates/wdlToolTemplate.wdl.ftl

@@ -379,11 +379,11 @@ task ${name} {
     <#if outputs?size == 0>
     File ${name}results = ${name}.${name}_results
     <#else>
-        <#list outputs as outputName, outputType>
-           <#if requiredOutputs[outputName]??>
-    ${outputType} ${name}${outputName?substring(2)} = ${name}.${name}_${outputName?substring(2)}
+        <#list outputs?keys as key>
+           <#if requiredOutputs[key]??>
+    ${outputs[key]} ${name}${key?substring(2)} = ${name}.${name}_${key?substring(2)}
            <#else>
-    ${outputType}? ${name}${outputName?substring(2)} = ${name}.${name}_${outputName?substring(2)}
+    ${outputs[key]}? ${name}${key?substring(2)} = ${name}.${name}_${key?substring(2)}
            </#if>
         </#list>
     </#if>
@@ -394,11 +394,11 @@ task ${name} {
     <#if outputs?size == 0>
     File ${name}_results = stdout()
     <#else>
-        <#list outputs as outputName, outputType>
-            <#if requiredOutputs[outputName]??>
-    ${outputType} ${name}_${outputName?substring(2)} = ${outputName?substring(2)}
+        <#list outputs?keys as key>
+            <#if requiredOutputs[key]??>
+    ${outputs[key]} ${name}_${key?substring(2)} = ${key?substring(2)}
             <#else>
-    ${outputType}? ${name}_${outputName?substring(2)} = ${outputName?substring(2)}
+    ${outputs[key]}? ${name}_${key?substring(2)} = ${key?substring(2)}
             </#if>
         </#list>
     </#if>