Bundle support for FeatureInputs, references; add CreateBundle tool. #4560

Job	Run time
Validate generated WDLs using womtools	1m 20s
check if the environment has privileges	1s
build and push gatk docker to artifacts	2m 9s
Validate script WDLs using womtools	1m 9s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	3m 42s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	3m 39s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	3m 21s
WDL test RUN_M2_WDL on cromwell	3m 20s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	3m 25s
Java 17.0.6+10 build and test cloud	1m 30s
Java 17.0.6+10 build and test integration	1m 41s
Java 17.0.6+10 build and test unit	1m 42s
Java ${{ matrix.Java }} test on docker ${{ matrix.testType }}	0s
	26m 59s

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