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common-workflow-language / cwljava

Java SDK for the Common Workflow Language standards

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Workflow with imported schema is not parsable when packed

jdidion opened this issue · comments

commented

This conformance test https://github.com/common-workflow-language/cwl-v1.2/blob/main/tests/schemadef-wf.cwl when packed cannot be parsed:

java.lang.ClassCastException: java.lang.String cannot be cast to java.util.List
        at org.w3id.cwl.cwl1_2.utils.YamlUtils.listFromString(YamlUtils.java:172)
        at org.w3id.cwl.cwl1_2.utils.Loader.documentLoadByUrl(Loader.java:69)
        at org.w3id.cwl.cwl1_2.utils.Loader.loadField(Loader.java:86)
        at org.w3id.cwl.cwl1_2.utils.ArrayLoader.load(ArrayLoader.java:27)
        at org.w3id.cwl.cwl1_2.utils.ArrayLoader.load(ArrayLoader.java:6)
        at org.w3id.cwl.cwl1_2.utils.OptionalLoader.load(OptionalLoader.java:21)
        at org.w3id.cwl.cwl1_2.utils.OptionalLoader.load(OptionalLoader.java:6)
        at org.w3id.cwl.cwl1_2.utils.Loader.load(Loader.java:16)
        at org.w3id.cwl.cwl1_2.utils.IdMapLoader.load(IdMapLoader.java:51)
        at org.w3id.cwl.cwl1_2.utils.Loader.load(Loader.java:16)
        at org.w3id.cwl.cwl1_2.utils.Loader.loadField(Loader.java:99)
        at org.w3id.cwl.cwl1_2.CommandLineToolImpl.<init>(CommandLineToolImpl.java:458)
        at sun.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
        at sun.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
        at sun.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
        at java.lang.reflect.Constructor.newInstance(Constructor.java:423)
        at org.w3id.cwl.cwl1_2.utils.RecordLoader.load(RecordLoader.java:23)
        at org.w3id.cwl.cwl1_2.utils.RecordLoader.load(RecordLoader.java:6)
        at org.w3id.cwl.cwl1_2.utils.UnionLoader.load(UnionLoader.java:26)
        at org.w3id.cwl.cwl1_2.utils.UnionLoader.load(UnionLoader.java:26)
        at org.w3id.cwl.cwl1_2.utils.Loader.load(Loader.java:16)
        at org.w3id.cwl.cwl1_2.utils.Loader.loadField(Loader.java:99)
        at org.w3id.cwl.cwl1_2.utils.ArrayLoader.load(ArrayLoader.java:27)
        at org.w3id.cwl.cwl1_2.utils.ArrayLoader.load(ArrayLoader.java:6)
        at org.w3id.cwl.cwl1_2.utils.UnionLoader.load(UnionLoader.java:26)
        at org.w3id.cwl.cwl1_2.utils.Loader.load(Loader.java:16)
        at org.w3id.cwl.cwl1_2.utils.Loader.documentLoad(Loader.java:39)
        at org.w3id.cwl.cwl1_2.utils.RootLoader.loadDocument(RootLoader.java:18)
        at org.w3id.cwl.cwl1_2.utils.RootLoader.loadDocument(RootLoader.java:86)
        at org.w3id.cwl.cwl1_2.utils.RootLoader.loadDocument(RootLoader.java:45)