VS-1466 restructure export vcf for copy reasons #4606

Job	Run time
Validate script WDLs using womtools	49s
check if the environment has privileges	1s
Validate generated WDLs using womtools	13m 38s
build and push gatk docker to artifacts	22m 25s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	29m 58s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	30m 40s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	30m 26s
WDL test RUN_M2_WDL on cromwell	23m 3s
WDL test RUN_CNN_WDL on cromwell	21m 39s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	18m 34s
Java 17.0.6+10 build and test cloud	16m 17s
Java 17.0.6+10 build and test integration	33m 35s
Java 17.0.6+10 build and test unit	20m 39s
Java 17.0.6+10 test on docker integration	39m 16s
Java 17.0.6+10 test on docker unit	22m 59s
Java 17.0.6+10 test on docker variantcalling	33m 37s
Java 17.0.6+10 test on docker conda	40m 53s
	6h 38m 29s

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