Bundle support for FeatureInputs, references; add CreateBundle tool. #4610

Job	Run time
check if the environment has privileges	1s
Validate script WDLs using womtools	1m 7s
build and push gatk docker to artifacts	1m 59s
Validate generated WDLs using womtools	1m 32s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	3m 43s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	3m 33s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	3m 29s
WDL test RUN_M2_WDL on cromwell	3m 36s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	3m 37s
Java 17.0.6+10 build and test cloud	1m 43s
Java 17.0.6+10 build and test integration	1m 28s
Java 17.0.6+10 build and test unit	1m 30s
Java ${{ matrix.Java }} test on docker ${{ matrix.testType }}	0s
	27m 18s

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