refactor G::M::T::BioSamtools::ErrorRate
1.update ref-aling bamqc related codes and bamqc software results with new gmt bio-samtools error-rate 2. use instrument data id (per lane) for bamqc output file name
update error rate C tool to version 0.9
turn on BamQc for bwamem/sw bam, but skip samstat for bwamem/sw bam
Updated class browser cache.
Updated `genome` tab completion.
Updated `gmt` tab completion.
ClinSeq:  stop treating singular builds as arrays in workflow
SomVal: pass build_id along in Validate Large Indels
Start on SubmissionSummary command for SomaticValidation models.
Since these models do not produce md5 checksums currently,
this tool dies with an appropriate message.
Updated class browser cache.
Updated `genome` tab completion.
InstData GATK: delete result on error
make runtime dependency

This gets loaded early on so, specifically, when /gsc/bin/perl is used
which means any compile time dependencies must be satisfied by
/gsc/bin/perl; IPC::System::Simple was not.
Use parent method to set the date format

besides using common code, it will also benefit from being able
to use the retry code
updated ur submodule to 466d3eb
updated ur submodule to 7ed4a34
Use UR's RDBMS retry code instead of Genome's
Merge remote-tracking branch: upstream/master