Add test staging files into output directory for update.

Author: Peter Amstutz

draft-4/conformance_test_draft-4.yaml

@@ -771,3 +771,15 @@
   }
   tool: draft-4/dir5.cwl
   doc: Test dynamic initial work dir
+
+- job: draft-4/stagefile-job.yml
+  output: {
+    "outfile": {
+        "checksum": "sha1$2d6c5e4430c4b200227cc77d3b0025082505ee19",
+        "size": 1107,
+        "location": "whale.txt",
+        "class": "File"
+    }
+  }
+  tool: draft-4/stagefile.cwl
+  doc: Test writable staged files.

draft-4/draft-4/stagefile-job.yml

@@ -0,0 +1,3 @@
+infile:
+  class: File
+  location: whale.txt

draft-4/draft-4/stagefile.cwl

@@ -0,0 +1,17 @@
+class: CommandLineTool
+cwlVersion: draft-4.dev3
+requirements:
+  InitialWorkDirRequirement:
+    listing:
+      - entryname: $(inputs.infile.basename)
+        entry: $(inputs.infile)
+        writable: true
+inputs:
+  infile: File
+outputs:
+  outfile:
+    type: File
+    outputBinding:
+      glob: $(inputs.infile.basename)
+baseCommand: "sed"
+arguments: ["-i", "s/Ishmael/Bob/", $(inputs.infile.basename)]