We found a serious bug in DISCOVAR de novo, revision 50862, resulting in data corruption in some cases. We will correct this bug as soon as possible. In the meantime we are rolling back to revision 50693. And needless to say, we are beefing up our release testing.
The latest release (50893) of DISCOVAR de novo now supports BAM files directly, and no longer requires
SAMtools to be installed. This change has the added benefit of halving the time required to import data from a BAM, potentially saving hours on a human sized genome. Note that the original variant calling version of DISCOVAR still requires
SAMtools in order to work.