Searched refs:DISABLE_TOOL_DEFAULT_ANNOTATIONS (Results 1 – 5 of 5) sorted by relevance
| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/cmdline/GATKPlugin/ |
| H A D | DefaultGATKVariantAnnotationArgumentCollection.java | 44 …ardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, shortName = StandardArgumentDefinitions.D…
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| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/cmdline/GATKPlugin/ |
| H A D | GATKAnnotationPluginDescriptorUnitTest.java | 280 … new String[]{"--"+StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS}, in artificialAnnotationsTests()
291 …new String[]{"--"+StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, "-A", "InbreedingC… in artificialAnnotationsTests()
296 …new String[]{"--"+StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, "-"+StandardArgume… in artificialAnnotationsTests()
301 …new String[]{"--"+StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, "-"+StandardArgume… in artificialAnnotationsTests()
413 …on.class.getSimpleName(), "--"+ StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS).coll… in testDisableDefaultsAndReplaceOnCommandLine()
586 … {new String[]{"--"+ StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS}, false, false}, in groupHierarchyArguments()
587 …{new String[]{"--"+ StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, "-"+StandardArgu… in groupHierarchyArguments()
588 …{new String[]{"--"+ StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, "-"+StandardArgu… in groupHierarchyArguments()
589 …{new String[]{"--"+ StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, "-"+StandardArgu… in groupHierarchyArguments()
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| /dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/cmdline/ |
| H A D | StandardArgumentDefinitions.java | 25 … public static final String DISABLE_TOOL_DEFAULT_ANNOTATIONS = "disable-tool-default-annotations"; field in StandardArgumentDefinitions
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| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/engine/ |
| H A D | GATKToolUnitTest.java | 724 String[] args = {"--"+StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS}; in testClearDefaultAnnotationsGroups()
737 String[] args = {"--"+StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS}; in testClearDefaultAnnotations()
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| /dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/annotator/ |
| H A D | VariantAnnotatorIntegrationTest.java | 80 .add(StandardArgumentDefinitions.DISABLE_TOOL_DEFAULT_ANNOTATIONS, true); in testAgainstMutect2()
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