Added the -d option to limit maximum depth for indels.
Added the -d option to limit maximum depth for indels.

kdmurray91/samtools,lh3/samtools-legacy,Kontakter/samtools,peterjc/samtools,dondelelcaro/samtools,dondelelcaro/samtools,kdmurray91/samtools,lh3/samtools-legacy,mcshane/samtools,mcshane/samtools,Kontakter/samtools,dondelelcaro/samtools,peterjc/samtools,dondelelcaro/samtools,lh3/samtools-legacy,lh3/samtools-legacy,dondelelcaro/samtools,Kontakter/samtools,Kontakter/samtools,lh3/samtools-legacy,kdmurray91/samtools,mcshane/samtools,mcshane/samtools,peterjc/samtools,kdmurray91/samtools,mcshane/samtools,mcshane/samtools,kdmurray91/samtools,peterjc/samtools,peterjc/samtools,Kontakter/samtools