Changes

* BAM write utility could add a PG field with default settings (user could specify alternate settings) when it writes a file.

* BAM write utility could add a PG field with default settings (user could specify alternate settings) when it writes a file.

* Future methods to add:

* Future methods to add:

** SamFile::setReadSection(const std::string& refName) - take in the reference name by string since that is what most people will know.

** <S>SamFile::setReadSection(const std::string& refName) - take in the reference name by string since that is what most people will know.</s>

*** "" would indicate the ones not associated with a reference.

*** <S>"" would indicate the ones not associated with a reference.</s>