private void checkForGzippedVcf() {
String vcfName = finalVcf.getName();
if (vcfName.endsWith(".gz")) {
File uncomp = new File(finalVcf.getParentFile(), vcfName.substring(0, vcfName.length() - 3));
if (uncomp.exists() == false) {
deleteTempVcf = true;
if (IO.uncompress(finalVcf, uncomp) == null)
Misc.printErrAndExit("ERROR: failed to uncompress -> " + finalVcf);
}
finalVcf = uncomp;
}
}
