Replaces 'match' streches in the alignment string with their length, and reduces their quality resolution. More...

Inheritance diagram for shore::alignment_condenser_pipe:

Public Types
enum	IDStyle { ID_PRESERVE, ID_PREFIXED, ID_PLAIN }

Public Types inherited from shore::pipe_facade< alignment_condenser_pipe, shore::alignment, shore::alignment >
typedef shore::alignment	append_type

typedef shore::alignment	current_type

Public Member Functions
	alignment_condenser_pipe (const int compact_aln=1, const int qgrid=0, const bool discard_qual_other=false, const IDStyle readid_style=ID_PRESERVE, std::map< std::string, int > *const readid_map=0)

Public Member Functions inherited from shore::pipe_facade< alignment_condenser_pipe, shore::alignment, shore::alignment >
	pipe_facade (const pipe_facade &t)
	Copy constructor: need to bind the slots to the correct object.

void	disconnect_inputs ()
	Disconnect all connected upstream pipeline elements.

void	disconnect_outputs ()
	Disconnect all connected downstream pipeline elements.

signal< const shore::alignment & > &	sigdata ()

signal< void > &	sigflush ()

slot< const shore::alignment & > &	slotdata ()

slot< void > &	slotflush ()

slot< void > &	slotfreeze ()

slot< void > &	slotthaw ()

signal< void > &	sigfreeze ()

signal< void > &	sigthaw ()

Additional Inherited Members
Protected Types inherited from shore::pipe_facade< alignment_condenser_pipe, shore::alignment, shore::alignment >
typedef pipe_facade < alignment_condenser_pipe, shore::alignment, shore::alignment, false >	facade_type

Protected Member Functions inherited from shore::pipe_facade< alignment_condenser_pipe, shore::alignment, shore::alignment >
void	emit (const shore::alignment &d)
	Called by derived classes to emit data to downstream pipeline elements. More...

Detailed Description

Replaces 'match' streches in the alignment string with their length, and reduces their quality resolution.

The documentation for this class was generated from the following file:

Public Types