Added read-end quality trimming to SamToFastq.
Added read-end quality trimming to SamToFastq.

nh13/picard,nh13/picard,nh13/picard,alecw/picard,alecw/picard,broadinstitute/picard,broadinstitute/picard,broadinstitute/picard,broadinstitute/picard,alecw/picard,broadinstitute/picard,annkupi/picard,annkupi/picard,nh13/picard,annkupi/picard,alecw/picard,annkupi/picard