error when engaging -h mode

[christacaggiano]

When I run germline2 with the haploid mode, I get an instance of 'std::bad_alloc', suggesting that maybe the memory isn't allocated right for this mode. It seems to work fine without this mode on.

Happy to help test changes

For reference, I am running the following:

     ./germline2/g2  -h -m 0.9 $file".haps.gz" $file".sample" \
     "/germline2/chr"$i".map" \
     $qc_dir"/germline2/chr"$i".match" 

[sashagusev]

Hi Christa, were you able to get the example working (just making sure this isn't a kernel issue)? Also can you try unzipping the haps file and inputting it as $file".haps"?