Merge branch 'shallow_listing' into 'master'

Shallow listing

See merge request eosc/prefactor3-cwl!35

Former-commit-id: 1ba6f2fa

.gitlab-ci.yml

@@ -65,6 +65,6 @@ run_hba_full:
   script:
     - cwltool --no-container --preserve-environment LD_LIBRARY_PATH --preserve-environment PATH --preserve-environment PYTHONPATH workflows/HBA_calibrator.cwl test_jobs/HBA_calibrator.json
     - test_jobs/check_workflow_results.py results /builds/eosc/prefactor3-cwl/data/results_calibrator
-#    - rm -rf results
-#    - cwltool --no-container --preserve-environment LD_LIBRARY_PATH --preserve-environment PATH --preserve-environment PYTHONPATH workflows/HBA_target.cwl test_jobs/HBA_target.json
-#    - test_jobs/check_workflow_results.py results /builds/eosc/prefactor3-cwl/data/results_target
+    - rm -rf results
+    - cwltool --no-container --preserve-environment LD_LIBRARY_PATH --preserve-environment PATH --preserve-environment PYTHONPATH workflows/HBA_target.cwl test_jobs/HBA_target.json
+    - test_jobs/check_workflow_results.py results /builds/eosc/prefactor3-cwl/data/results_target

lofar-cwl/steps/AOFlagger.cwl

 #!/usr/bin/env cwl-runner
 
 class: CommandLineTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: aoflagger
 
 requirements:

lofar-cwl/steps/Ateamclipper.cwl

 class: CommandLineTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 $namespaces:
   sbg: 'https://www.sevenbridges.com/'
 id: check_ateam_separation
@@ -21,7 +21,7 @@ outputs:
     outputBinding:
       glob: $(inputs.msin.basename)
   - id: logfile
-    type: 'File[]'
+    type: File[]
     outputBinding:
       glob: Ateamclipper.log
   - id: output

lofar-cwl/steps/DP3.AOFlaggerStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: aoflagger_step_generator
 
 inputs:

lofar-cwl/steps/DP3.ApplyBeamStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: applybeam_step_generator
 
 inputs:

lofar-cwl/steps/DP3.ApplyCalStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: applycal_step_generator
 
 inputs:

lofar-cwl/steps/DP3.AveragerStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: average_step_generator
 
 inputs:

lofar-cwl/steps/DP3.DemixerStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 $namespaces:
   sbg: 'https://www.sevenbridges.com/'
 id: demix_step_generator

lofar-cwl/steps/DP3.EmptyParsetGenerator.cwl

 #!/usr/bin/env cwl-runner
 
-cwlVersion: v1.0
+cwlVersion: v1.1
 class: CommandLineTool
 id: empty_parset_generator
 baseCommand: [echo, 'steps=[]']

lofar-cwl/steps/DP3.Execute.cwl

 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: dp3_execute
 label: DP3.Execute
 $namespaces:

lofar-cwl/steps/DP3.FilterStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 $namespaces:
   sbg: 'https://www.sevenbridges.com/'
 id: dp3-filter-step-generator

lofar-cwl/steps/DP3.GenericStep.cwl

 #!/usr/bin/env cwl-runner
 
-cwlVersion: v1.0
+cwlVersion: v1.1
 class: ExpressionTool
 id: generic_step
 

lofar-cwl/steps/DP3.ParsetGenerator.cwl

 #!/usr/bin/env cwl-runner
 
-cwlVersion: v1.0
+cwlVersion: v1.1
 class: CommandLineTool
 id: generic_step
 

lofar-cwl/steps/DP3.PreflaggerStepGenerator.cwl

 #!/usr/bin/env cwl-runner
 
 class: Workflow
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: preflag_step_generator
 
 inputs:

lofar-cwl/steps/DP3.Selector.cwl

 class: ExpressionTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: selector
 inputs:
   - id: select_a

lofar-cwl/steps/DPPP.cwl

 class: CommandLineTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 $namespaces:
   sbg: 'https://www.sevenbridges.com/'
 id: dppp

lofar-cwl/steps/DirSelector.cwl

 class: ExpressionTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: dirselector
 inputs:
   - id: inputs

lofar-cwl/steps/FileSelector.cwl

 class: ExpressionTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: fileselector
 inputs:
   - id: inputs

lofar-cwl/steps/H5ParmCollector.cwl

 class: CommandLineTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 $namespaces:
   sbg: 'https://www.sevenbridges.com/'
   lofar: https://git.astron.nl/eosc/ontologies/raw/master/schema/lofar.owl

lofar-cwl/steps/LoSoTo.Abs.cwl

 #!/usr/bin/env cwl-runner
 
 class: CommandLineTool
-cwlVersion: v1.0
+cwlVersion: v1.1
 id: losoto_abs
 
 $namespaces: