Add step apply cal

Former-commit-id: 968a5ccd

steps/applycal.cwl

+class: CommandLineTool
+cwlVersion: v1.0
+$namespaces:
+  sbg: 'https://www.sevenbridges.com/'
+id: applycal
+baseCommand:
+  - DPPP
+arguments:
+  - steps=[applycal]
+inputs:
+  - id: msin
+    type: Directory
+    inputBinding:
+      position: 0
+      prefix: msin=
+      separate: false
+    doc: Input Measurement Set
+  - default: DATA
+    id: msin_datacolumn
+    type: string
+    inputBinding:
+      position: 0
+      prefix: msin.datacolumn=
+      separate: false
+    doc: Input data Column
+  - id: parmdb
+    type: File
+    doc: Path of parmdb in which the parameters are stored. This can also be an H5Parm file, in that case the filename has to end in '.h5'
+    inputBinding:
+      prefix: applycal.parmdb
+  - id: correction
+    default: gain
+    type:
+      type: enum
+      symbols:
+        - gain
+        - tec
+        - clock
+        - rotationangle
+        - rotation
+        - scalarphase
+        - scalaramplitude
+        - rotationmeasure
+        - fulljones
+    doc: | 
+        Type of correction to perform. When using H5Parm, this is for now the name of the soltab; the type will be deduced from the metadata in that soltab, except for full Jones, in which case correction should be 'fulljones'.
+    inputBinding:
+        prefix: applycal.correction=
+  
+outputs:
+  - id: msout
+    doc: Output Measurement Set
+    type: Directory
+    outputBinding:
+        glob: $(inputs.msin.basename)
+      
+requirements:
+  - class: InitialWorkDirRequirement
+    listing:
+        - entry: $(inputs.msin)
+          writable: true
+  - class: InlineJavascriptRequirement
+hints:
+  - class: DockerRequirement
+    dockerPull: lofareosc/lofar-pipeline-ci:latest