Squashed 'cwltool/schemas/' changes from dd59179..8d0fe99

Peter Amstutz · Peter Amstutz · commit 655f9d8fed71 · 2016-07-07T14:37:47.000-04:00
8d0fe99 Merge pull request #254 from common-workflow-language/real-1.0 25a5565 Rename v1.0.dev4 to v1.0 f7617cc Add v1.0 as real valid version. 185953c Merge pull request #253 from common-workflow-language/spec-cleanup f9f2209 Simplify CommandLineTool d0e774b simplify Process a34a36e Merge pull request #252 from common-workflow-language/description2doc git-subtree-dir: cwltool/schemas git-subtree-split: 8d0fe99
diff --git a/v1.0/CommandLineTool.yml b/v1.0/CommandLineTool.yml
diff --git a/v1.0/Process.yml b/v1.0/Process.yml
diff --git a/v1.0/v1.0/binding-test.cwl b/v1.0/v1.0/binding-test.cwl
@@ -1,7 +1,7 @@
 #!/usr/bin/env cwl-runner
 
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
   - id: reference
diff --git a/v1.0/v1.0/bwa-mem-tool.cwl b/v1.0/v1.0/bwa-mem-tool.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 class: CommandLineTool
 
diff --git a/v1.0/v1.0/cat1-testcli.cwl b/v1.0/v1.0/cat1-testcli.cwl
@@ -1,7 +1,7 @@
 #!/usr/bin/env cwl-runner
 {
     "class": "CommandLineTool",
-    "cwlVersion": "v1.0.dev4",
+    "cwlVersion": "v1.0",
     "doc": "Print the contents of a file to stdout using 'cat' running in a docker container.",
     "inputs": [
         {
diff --git a/v1.0/v1.0/cat1-tool.cwl b/v1.0/v1.0/cat1-tool.cwl
@@ -1,5 +1,5 @@
 #!/usr/bin/env cwl-runner
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 class: CommandLineTool
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
diff --git a/v1.0/v1.0/cat2-tool.cwl b/v1.0/v1.0/cat2-tool.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/cat3-tool-mediumcut.cwl b/v1.0/v1.0/cat3-tool-mediumcut.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/cat3-tool-shortcut.cwl b/v1.0/v1.0/cat3-tool-shortcut.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/cat3-tool.cwl b/v1.0/v1.0/cat3-tool.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/cat4-tool.cwl b/v1.0/v1.0/cat4-tool.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/cat5-tool.cwl b/v1.0/v1.0/cat5-tool.cwl
@@ -1,5 +1,5 @@
 #!/usr/bin/env cwl-runner
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 class: CommandLineTool
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
diff --git a/v1.0/v1.0/conflict-wf.cwl b/v1.0/v1.0/conflict-wf.cwl
@@ -1,4 +1,4 @@
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 $graph:
 - id: echo
   class: CommandLineTool
diff --git a/v1.0/v1.0/count-lines1-wf.cwl b/v1.0/v1.0/count-lines1-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
   file1:
diff --git a/v1.0/v1.0/count-lines2-wf.cwl b/v1.0/v1.0/count-lines2-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 requirements:
   InlineJavascriptRequirement: {}
 
diff --git a/v1.0/v1.0/count-lines3-wf.cwl b/v1.0/v1.0/count-lines3-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     file1:
diff --git a/v1.0/v1.0/count-lines4-wf.cwl b/v1.0/v1.0/count-lines4-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     file1:
diff --git a/v1.0/v1.0/count-lines5-wf.cwl b/v1.0/v1.0/count-lines5-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     file1:
diff --git a/v1.0/v1.0/count-lines6-wf.cwl b/v1.0/v1.0/count-lines6-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     file1: File[]
diff --git a/v1.0/v1.0/count-lines7-wf.cwl b/v1.0/v1.0/count-lines7-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 requirements:
   - class: MultipleInputFeatureRequirement
diff --git a/v1.0/v1.0/count-lines8-wf.cwl b/v1.0/v1.0/count-lines8-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     file1: File
diff --git a/v1.0/v1.0/count-lines9-wf.cwl b/v1.0/v1.0/count-lines9-wf.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs: []
 
diff --git a/v1.0/v1.0/dir.cwl b/v1.0/v1.0/dir.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 requirements:
   - class: ShellCommandRequirement
 inputs:
diff --git a/v1.0/v1.0/dir2.cwl b/v1.0/v1.0/dir2.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 hints:
   DockerRequirement:
     dockerPull: debian:8
diff --git a/v1.0/v1.0/dir3.cwl b/v1.0/v1.0/dir3.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 baseCommand: [tar, xvf]
 inputs:
   inf:
diff --git a/v1.0/v1.0/dir4.cwl b/v1.0/v1.0/dir4.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 requirements:
   - class: ShellCommandRequirement
 inputs:
diff --git a/v1.0/v1.0/dir5.cwl b/v1.0/v1.0/dir5.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 requirements:
   - class: ShellCommandRequirement
   - class: InitialWorkDirRequirement
diff --git a/v1.0/v1.0/echo-tool.cwl b/v1.0/v1.0/echo-tool.cwl
@@ -1,7 +1,7 @@
 #!/usr/bin/env cwl-runner
 
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 inputs:
   in:
     type: Any
diff --git a/v1.0/v1.0/egrep-stderr-mediumcut.cwl b/v1.0/v1.0/egrep-stderr-mediumcut.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Test of capturing stderr output in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/egrep-stderr-shortcut.cwl b/v1.0/v1.0/egrep-stderr-shortcut.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Test of capturing stderr output in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/egrep-stderr.cwl b/v1.0/v1.0/egrep-stderr.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Test of capturing stderr output in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/env-tool1.cwl b/v1.0/v1.0/env-tool1.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 inputs:
   in: string
 outputs:
diff --git a/v1.0/v1.0/env-tool2.cwl b/v1.0/v1.0/env-tool2.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 inputs:
   in: string
 outputs:
diff --git a/v1.0/v1.0/env-wf1.cwl b/v1.0/v1.0/env-wf1.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     in: string
diff --git a/v1.0/v1.0/env-wf2.cwl b/v1.0/v1.0/env-wf2.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: Workflow
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
     in: string
diff --git a/v1.0/v1.0/formattest.cwl b/v1.0/v1.0/formattest.cwl
@@ -1,6 +1,6 @@
 $namespaces:
   edam: "http://edamontology.org/"
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 class: CommandLineTool
 doc: "Reverse each line using the `rev` command"
 inputs:
diff --git a/v1.0/v1.0/formattest2.cwl b/v1.0/v1.0/formattest2.cwl
@@ -3,7 +3,7 @@ $namespaces:
 $schemas:
   - EDAM.owl
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Reverse each line using the `rev` command"
 
 inputs:
diff --git a/v1.0/v1.0/formattest3.cwl b/v1.0/v1.0/formattest3.cwl
@@ -5,7 +5,7 @@ $schemas:
   - EDAM.owl
   - gx_edam.ttl
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Reverse each line using the `rev` command"
 
 inputs:
diff --git a/v1.0/v1.0/glob-expr-list.cwl b/v1.0/v1.0/glob-expr-list.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
   ids:
diff --git a/v1.0/v1.0/metadata.cwl b/v1.0/v1.0/metadata.cwl
@@ -6,7 +6,7 @@ $schemas:
   - foaf.rdf
   - dcterms.rdf
 
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 class: CommandLineTool
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 
diff --git a/v1.0/v1.0/null-expression1-tool.cwl b/v1.0/v1.0/null-expression1-tool.cwl
@@ -3,7 +3,7 @@
 class: ExpressionTool
 requirements:
   - class: InlineJavascriptRequirement
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
   i1:
diff --git a/v1.0/v1.0/null-expression2-tool.cwl b/v1.0/v1.0/null-expression2-tool.cwl
@@ -3,7 +3,7 @@
 class: ExpressionTool
 requirements:
   - class: InlineJavascriptRequirement
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
   i1: Any
diff --git a/v1.0/v1.0/optional-output.cwl b/v1.0/v1.0/optional-output.cwl
@@ -1,6 +1,6 @@
 #!/usr/bin/env cwl-runner
 class: CommandLineTool
-cwlVersion: "v1.0.dev4"
+cwlVersion: "v1.0"
 doc: "Print the contents of a file to stdout using 'cat' running in a docker container."
 hints:
   DockerRequirement:
diff --git a/v1.0/v1.0/params.cwl b/v1.0/v1.0/params.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 inputs:
   bar:
     type: Any
diff --git a/v1.0/v1.0/params2.cwl b/v1.0/v1.0/params2.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 requirements:
   - class: InlineJavascriptRequirement
 
diff --git a/v1.0/v1.0/parseInt-tool.cwl b/v1.0/v1.0/parseInt-tool.cwl
@@ -3,7 +3,7 @@
 class: ExpressionTool
 requirements:
   - class: InlineJavascriptRequirement
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 inputs:
   file1:
diff --git a/v1.0/v1.0/record-output.cwl b/v1.0/v1.0/record-output.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 requirements:
   - class: ShellCommandRequirement
 inputs:
diff --git a/v1.0/v1.0/rename.cwl b/v1.0/v1.0/rename.cwl
@@ -1,5 +1,5 @@
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 baseCommand: "true"
 requirements:
   InitialWorkDirRequirement:
diff --git a/v1.0/v1.0/revsort.cwl b/v1.0/v1.0/revsort.cwl
@@ -3,7 +3,7 @@
 #
 class: Workflow
 doc: "Reverse the lines in a document, then sort those lines."
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 
 # Requirements & hints specify prerequisites and extensions to the workflow.
 # In this example, DockerRequirement specifies a default Docker container
diff --git a/v1.0/v1.0/revtool.cwl b/v1.0/v1.0/revtool.cwl
@@ -2,7 +2,7 @@
 # Simplest example command line program wrapper for the Unix tool "rev".
 #
 class: CommandLineTool
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 doc: "Reverse each line using the `rev` command"
 
 # The "inputs" array defines the structure of the input object that describes
diff --git a/v1.0/v1.0/scatter-valuefrom-wf1.cwl b/v1.0/v1.0/scatter-valuefrom-wf1.cwl
@@ -1,5 +1,5 @@
 #!/usr/bin/env cwl-runner
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 class: Workflow
 inputs:
   inp:
diff --git a/v1.0/v1.0/scatter-valuefrom-wf2.cwl b/v1.0/v1.0/scatter-valuefrom-wf2.cwl
@@ -1,5 +1,5 @@
 #!/usr/bin/env cwl-runner
-cwlVersion: v1.0.dev4
+cwlVersion: v1.0
 class: Workflow
 
 inputs:
diff --git a/v1.0/v1.0/scatter-valuefrom-wf3.cwl b/v1.0/v1.0/scatter-valuefrom-wf3.cwl
diff --git a/v1.0/v1.0/scatter-valuefrom-wf4.cwl b/v1.0/v1.0/scatter-valuefrom-wf4.cwl
diff --git a/v1.0/v1.0/scatter-valuefrom-wf5.cwl b/v1.0/v1.0/scatter-valuefrom-wf5.cwl
diff --git a/v1.0/v1.0/scatter-wf1.cwl b/v1.0/v1.0/scatter-wf1.cwl
diff --git a/v1.0/v1.0/scatter-wf2.cwl b/v1.0/v1.0/scatter-wf2.cwl
diff --git a/v1.0/v1.0/scatter-wf3.cwl b/v1.0/v1.0/scatter-wf3.cwl
diff --git a/v1.0/v1.0/scatter-wf4.cwl b/v1.0/v1.0/scatter-wf4.cwl
diff --git a/v1.0/v1.0/schemadef-tool.cwl b/v1.0/v1.0/schemadef-tool.cwl
diff --git a/v1.0/v1.0/schemadef-wf.cwl b/v1.0/v1.0/schemadef-wf.cwl
diff --git a/v1.0/v1.0/search.cwl b/v1.0/v1.0/search.cwl
diff --git a/v1.0/v1.0/shelltest.cwl b/v1.0/v1.0/shelltest.cwl
diff --git a/v1.0/v1.0/sorttool.cwl b/v1.0/v1.0/sorttool.cwl
diff --git a/v1.0/v1.0/stagefile.cwl b/v1.0/v1.0/stagefile.cwl
diff --git a/v1.0/v1.0/step-valuefrom-wf.cwl b/v1.0/v1.0/step-valuefrom-wf.cwl
diff --git a/v1.0/v1.0/step-valuefrom2-wf.cwl b/v1.0/v1.0/step-valuefrom2-wf.cwl
diff --git a/v1.0/v1.0/step-valuefrom3-wf.cwl b/v1.0/v1.0/step-valuefrom3-wf.cwl
diff --git a/v1.0/v1.0/template-tool.cwl b/v1.0/v1.0/template-tool.cwl
diff --git a/v1.0/v1.0/test-cwl-out.cwl b/v1.0/v1.0/test-cwl-out.cwl
diff --git a/v1.0/v1.0/tmap-tool.cwl b/v1.0/v1.0/tmap-tool.cwl
diff --git a/v1.0/v1.0/wc-tool.cwl b/v1.0/v1.0/wc-tool.cwl
diff --git a/v1.0/v1.0/wc2-tool.cwl b/v1.0/v1.0/wc2-tool.cwl
diff --git a/v1.0/v1.0/wc3-tool.cwl b/v1.0/v1.0/wc3-tool.cwl
diff --git a/v1.0/v1.0/wc4-tool.cwl b/v1.0/v1.0/wc4-tool.cwl

Original file line number	Diff line number	Diff line change
`@@ -1,7 +1,7 @@`
`1`	`1`	`#!/usr/bin/env cwl-runner`
`2`	`2`	`{`
`3`	`3`	`"class": "CommandLineTool",`
`4`		`- "cwlVersion": "v1.0.dev4",`
	`4`	`+ "cwlVersion": "v1.0",`
`5`	`5`	`"doc": "Print the contents of a file to stdout using 'cat' running in a docker container.",`
`6`	`6`	`"inputs": [`
`7`	`7`	`{`