fix stdin shortcut tests

Author: mr-c

v1.1.0-dev1/conformance_test_v1.1.0-dev1.yaml

@@ -173,6 +173,17 @@
   tool: v1.1.0-dev1/wc-tool.cwl
   doc: Test command execution in with stdin and stdout redirection
 
+- job: v1.1.0-dev1/wc-job.json
+  output:
+    output:
+      class: File
+      checksum: sha1$631bfbac524e2d04cdcc5ec33ade827fc10b06ae
+      location: output
+      size: 15
+  tool: v1.1.0-dev1/wc-tool-shortcut.cwl
+  doc: Test command execution in with stdin and stdout redirection using stdin shortcut
+
+
 - job: v1.1.0-dev1/parseInt-job.json
   output: {output: 42}
   tool: v1.1.0-dev1/parseInt-tool.cwl

v1.1.0-dev1/v1.1.0-dev1/cat4b-tool.cwl

@@ -0,0 +1,16 @@
+#!/usr/bin/env cwl-runner
+class: CommandLineTool
+cwlVersion: v1.1.0-dev1
+doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
+hints:
+  DockerRequirement:
+    dockerPull: debian:wheezy
+inputs:
+  file1: stdin
+outputs:
+  output_txt:
+    type: File
+    outputBinding:
+      glob: output.txt
+baseCommand: cat
+stdout: output.txt

v1.1.0-dev1/v1.1.0-dev1/wc-tool-shortcut.cwl

@@ -0,0 +1,16 @@
+#!/usr/bin/env cwl-runner
+
+class: CommandLineTool
+cwlVersion: v1.1.0-dev1
+
+inputs:
+  file1: stdin
+
+outputs:
+  output:
+    type: File
+    outputBinding: { glob: output }
+
+baseCommand: [wc]
+
+stdout: output