java -jar ../../diCal2.jar --paramFile mutRec.param --vcfFile contig.0.vcf --vcfFilterPassString PASS --vcfReferenceFile output.ref --lociPerHmmStep 1000 --configFile isolation_migration_window.config --demoFile isolation_migration_window.demo --intervalType loguniform --intervalParams '8,0.01,4' --compositeLikelihood lol --metaStartFile isolation_migration_window.start --bounds '0.02,20;0.002,20;0.01,20;0.01,20;0.01,100;0.01,20' --numberIterationsEM 4 --numberIterationsMstep 3 --metaNumIterations 3 --metaKeepBest 2 --metaNumPoints 5 --seed 4711 --verbose --metaParallelEmSteps 2 --parallel 4
