Add support for breakend replacement alleles in SVCluster #2756

Job	Run time
check if the environment has privileges	1s
build and push gatk docker to artifacts	28m 7s
Validate script WDLs using womtools	2m 7s
Validate generated WDLs using womtools	13m 52s
WDL test RUN_CNV_GERMLINE_COHORT_WDL on cromwell	36m 16s
WDL test RUN_CNV_GERMLINE_CASE_WDL on cromwell	52m 31s
WDL test RUN_CNV_SOMATIC_WDL on cromwell	43m 10s
WDL test RUN_M2_WDL on cromwell	31m 36s
WDL test RUN_CNN_WDL on cromwell	25m 57s
WDL test RUN_VCF_SITE_LEVEL_FILTERING_WDL on cromwell	24m 23s
Java 17.0.6+10 build and test cloud	31m 27s
Java 17.0.6+10 build and test integration	42m 9s
Java 17.0.6+10 build and test unit	28m 59s
Java 17.0.6+10 test on docker integration	55m 29s
Java 17.0.6+10 test on docker unit	38m 33s
Java 17.0.6+10 test on docker variantcalling	43m 24s
Java 17.0.6+10 test on docker conda	47m 1s
	9h 5m 2s

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