Merge branch 'test_suite' into 'master'

Prepare delay calibration for test data

See merge request !81

steps/aoflagger.cwl

@@ -60,8 +60,8 @@ inputs:
         prefix: aoflagger.memorymax=
         separate: false
         shellQuote: false
-        valueFrom: "$((self/1000 > 30) ? self/1000 : 30)"
-      doc: The amount of maximum amount of memory to use in GB. 
+        valueFrom: "$(self/1000)"
+      doc: The maximum amount of memory to use in GB. 
 
 arguments:
     - steps=[aoflagger]

steps/facet_selfcal.cwl

@@ -39,7 +39,8 @@ outputs:
     - id: h5parm
       type: File
       outputBinding:
-        glob: merged_addCS_selfcalcycle009_linear*.h5
+        glob: [merged*.h5, merged_addCS*.h5]
+        outputEval: $(self[self.length - 1])
       doc: |
         The calibration solution files generated
         by lofar_facet_selfcal in HDF5 format.

tests/test_globbing.sh

+#!/bin/sh
+
+TEST1=$(mktemp prefix_affix_test_XXX)
+TEST2=$(mktemp prefix_test_XXX)
+
+OUTDIR=$(mktemp -d)
+
+CWLFILE=$(mktemp)
+cat <<- EOF > ${CWLFILE}
+cwlVersion: v1.2
+class: CommandLineTool
+baseCommand: echo
+arguments: ["globbing test"]
+
+inputs:
+  files:
+    type: File[]
+
+outputs:
+  output:
+    type: File
+    outputBinding:
+      glob: ["*", "*_affix*"]
+      outputEval: |
+        \$(self[self.length - 1])
+
+requirements:
+  InlineJavascriptRequirement: {}
+  InitialWorkDirRequirement:
+    listing:
+      - entry: \$(inputs.files)
+        writable: true
+EOF
+
+GREEN='\033[32m'
+RED='\e[31m'
+CLEAR='\033[0m'
+
+cwltool --outdir $OUTDIR $CWLFILE --files $TEST1 --files $TEST2 > /dev/null 2>&1
+printf "Glob\t\t"
+if [ -f $OUTDIR/$(basename $TEST1) ]; then
+  printf "${GREEN}passed${CLEAR}\n"
+else
+  printf "${RED}failed${CLEAR}\n"
+fi
+rm -rf $OUTDIR