The Frontline Support team will be offline December 17-18 due to an institute-wide retreat and offline December 22- January 1, while the institute is closed. Thank you for your patience during these next few weeks as we get to all of your questions. Happy Holidays!
HaplotypeCaller : Rod span ... isn't contained within the data shard without -nct option
I have a pb with HaplotypeCaller.
I saw that this error has been reported as linked with -nct option, but I did not use it.
Strangely enough, I think my command worked some times ago (before server restart ?)
All reference files I used are from the GATK bundle.