Extract Cohort optimizations [VS-493] [VS-1516] #4942

Job	Run time
build and push gatk docker to artifacts	8m 31s
Validate generated WDLs using womtools	13m 11s
check if the environment has privileges	1s
Validate script WDLs using womtools	50s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	2h 52m 53s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	1h 59m 8s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	2h 10m 41s
WDL test RUN_M2_WDL on cromwell	1h 40m 44s
WDL test RUN_CNN_WDL on cromwell	3h 16m 22s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	1h 57m 40s
Java 17.0.6+10 build and test cloud	15m 51s
Java 17.0.6+10 build and test integration	33m 18s
Java 17.0.6+10 build and test unit	21m 15s
Java ${{ matrix.Java }} test on docker ${{ matrix.testType }}	0s
	15h 30m 25s

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