APPS-1318 Update undeclared output of StdLib func (#374)

(feat) build.sbt - updated dependency
(feat) run_tests.py - added integration test

build.sbt

@@ -137,7 +137,7 @@ lazy val dependencies =
     val dxFileAccessProtocolsVersion = "0.5.5-SNAPSHOT"
     val dxYamlVersion = "0.1.1"
     val cwlScalaVersion = "0.8.4"
-    val wdlToolsVersion = "0.17.11"
+    val wdlToolsVersion = "0.17.12-SNAPSHOT"
     val typesafeVersion = "1.4.1"
     val sprayVersion = "1.3.6"
     val scalatestVersion = "3.2.9"

scripts/run_tests.py

@@ -90,6 +90,7 @@
 
 wdl_v1_list = [
     # calling native dx applets/apps
+    "apps_1318_nested",
     "call_native_v1",
     "call_native_app",
     "cast",

test/wdl_1_0/apps_1318_nested.wdl

@@ -0,0 +1,44 @@
+version 1.0
+workflow apps_1318_nested {
+  input {
+    Array[Int] foo = [1, 2, 3]
+    Array[Int] bar = [100, 200, 300]
+  }
+
+  # Artifically construct an array of optional integers
+  if (true) {
+    String i1 = "Hello"
+  }
+  if (false) {
+    String i2 = "Cruel"
+  }
+  if (true) {
+    String i3 = "World!"
+  }
+
+  Array[String?] lol = [i1, i2, i3]
+
+  scatter (nested_pair in zip(zip(foo, lol), bar)) {
+    call apps_1318_task1 {
+      input: foo_t1 = nested_pair.left.left, bar_t1 = nested_pair.right, lol_t1 = nested_pair.left.right
+    }
+  }
+
+  output {
+    Array[Int] blah = apps_1318_task1.out
+  }
+}
+
+task apps_1318_task1 {
+  input {
+    Int foo_t1
+    Int bar_t1
+    String? lol_t1
+  }
+  command <<<
+    echo ~{foo_t1}~{bar_t1}~{lol_t1}"_blah"
+  >>>
+  output {
+    Int out = 2
+  }
+}