T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures > Member List

This is the complete list of members for T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >, including all inherited members.

add_options() override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
Aligner_algorithm typedef	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >
Alignment_engine typedef	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >
Alignment_type typedef	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >
check_filesystem_directory_exists(const std::string &output_prefix)	Module_base	inline
check_options(std::string &message) const override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
clone(const Self_ *s) const	Module_base	inline
get_module_instance_name(void) const	Module_base	inline
get_name(void) const override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
get_options(void)	T_Module_option_description< Dummy >	inlinestatic
get_output_prefix(void) const	T_Module_option_description< Dummy >	inlinevirtual
get_report_mode(void) const	Module_base	inline
is_condition_module(void) const	Module_base	inlineprotectedvirtual
is_logical_module(void) const	Module_base	inlineprotectedvirtual
is_modules_collection(void) const	Module_base	inlineprotectedvirtual
is_runnable(void) const override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
operator()(void)	Module_base	inlineprotectedvirtual
report(const std::string &prefix) override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
run(unsigned verbose, std::ostream &out) override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
Sequence_length_type typedef	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >
set_module_instance_name(const std::string &module_instance_name)	Module_base	inline
set_report_mode(std::ios_base::openmode report_mode)	Module_base	inline
set_report_mode(std::ios_base::openmode &report_mode)	Module_base	inline
statistics(std::ostream &out) override	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >	inlinevirtual
Structure_unit typedef	T_Alignment_structures_module< ModuleTraits, AlignmentEngineStructures >