Bugs

1. check numSites==0 in all generals: derived classes.

2. check if subdirs exists in outputfiles. Otherwise subtle crash.

3. Only print the

If you have selected more than one MAF estimator we will choose in following order
   1. knownminor bfgs
   2. knownminor EM
   3. unknownminor bfgs
   4. unknownminor EM
   5. Posterior maf

4. write about single bam -i on wiki

If use has selected multple mafs estimators.

Best

Thorfinn