Make M2 haplotype and clustered events filters smarter about germline events #3954

Job	Run time
check if the environment has privileges	1s
Validate generated WDLs using womtools	13m 16s
build and push gatk docker to artifacts	21m 33s
Validate script WDLs using womtools	1m 10s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	26m 8s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	30m 43s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	25m 14s
WDL test RUN_M2_WDL on cromwell	18m 58s
WDL test RUN_CNN_WDL on cromwell	17m 14s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	14m 5s
Java 17.0.6+10 build and test cloud	15m 0s
Java 17.0.6+10 build and test integration	31m 53s
Java 17.0.6+10 build and test unit	19m 52s
Java 17.0.6+10 test on docker integration	37m 32s
Java 17.0.6+10 test on docker unit	22m 56s
Java 17.0.6+10 test on docker variantcalling	32m 17s
Java 17.0.6+10 test on docker conda	34m 16s
	6h 2m 8s

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