Add LoSoTo.Plot

.gitlab-ci.yml

@@ -46,6 +46,11 @@ losoto_abs:
   allow_failure: true
   script:
     - cwl-runner --no-container steps/LoSoTo.Abs.cwl test_jobs/losoto_abs.json
+losoto_plot:
+  stage: test_steps
+  allow_failure: true
+  script:
+    - cwl-runner --no-container steps/LoSoTo.Plot.cwl test_jobs/losoto_plot.json
 
 parset_selector:
   stage: test_steps

steps/LoSoTo.Plot.cwl

@@ -14,11 +14,13 @@ requirements:
      - |
         function get_config() {
         var par = ['soltab = ' + inputs.soltab]
+        if (inputs.ncpu !== null) par.push('ncpu='+inputs.ncpu);
         par.push('[plot]')
         par.push('operation = PLOT')
         for(var field_name in inputs){
-            if(field_name === 'input_file' ||
-               field_name === 'soltab') continue;
+            if(field_name === 'input_h5parm' ||
+               field_name === 'soltab' ||
+               field_name === 'ncpu') continue;
             if(inputs[field_name] === null ||
                inputs[field_name] === 'null') continue;
             par.push(field_name+'='+inputs[field_name])
@@ -29,12 +31,15 @@ requirements:
     listing:
       - entryname: 'parset.config'
         entry: $(get_config().join('\n'))
+      - entryname: $(inputs.input_h5parm.basename)
+        entry: $(inputs.input_h5parm)
+        writable: true
 
 
 baseCommand: "losoto"
 
 arguments:
-  - $(inputs.input_file)
+  - $(inputs.input_h5parm.basename)
   - parset.config
 
 hints:
@@ -42,7 +47,7 @@ hints:
     dockerPull: lofareosc/prefactor-ci:master
 
 inputs:
-  - id: input_file
+  - id: input_h5parm
     type: File
   - id: soltab
     type: string[]
@@ -69,7 +74,6 @@ inputs:
       - e.g. ‘pol’ to plot XX-YY.
   - id: NColFig
     type: int?
-    type: string
     doc: |
       Number of columns in a multi-table image. By default is automatically
       chosen.
@@ -132,4 +136,6 @@ inputs:
 
 outputs:
   - id: output_plots
-    type: Any[]
+    type: File[]
+    outputBinding:
+      glob: "$(inputs.prefix)*.png"

test_jobs/losoto_plot.json

+{
+  "input_h5parm": {"class": "File", "path": "/data/example.h5"},
+  "soltab":  ["sol000/phase000"],
+  "axesInPlot": ["time"],
+  "ncpu": 1
+}