Provides some utility functions for the alignment configurations.
Sets the global alignment method.
Definition align_config_method.hpp:119
method_global()=default
Defaulted.
bool free_end_gaps_sequence1_trailing
If set to true, trailing gaps in sequence1 are not penalised when computing the optimal alignment.
Definition align_config_method.hpp:157
method_global & operator=(method_global const &)=default
Defaulted.
bool free_end_gaps_sequence2_trailing
If set to true, trailing gaps in sequence2 are not penalised when computing the optimal alignment.
Definition align_config_method.hpp:159
method_global(method_global const &)=default
Defaulted.
constexpr method_global(seqan3::align_cfg::free_end_gaps_sequence1_leading free_sequence1_leading, seqan3::align_cfg::free_end_gaps_sequence2_leading free_sequence2_leading, seqan3::align_cfg::free_end_gaps_sequence1_trailing free_sequence1_trailing, seqan3::align_cfg::free_end_gaps_sequence2_trailing free_sequence2_trailing) noexcept
Construct method_global with a specific free end gap configuration.
Definition align_config_method.hpp:141
method_global & operator=(method_global &&)=default
Defaulted.
~method_global()=default
Defaulted.
method_global(method_global &&)=default
Defaulted.
Sets the local alignment method.
Definition align_config_method.hpp:42
method_local(method_local const &)=default
Defaulted.
~method_local()=default
Defaulted.
method_local()=default
Defaulted.
method_local(method_local &&)=default
Defaulted.
method_local & operator=(method_local const &)=default
Defaulted.
method_local & operator=(method_local &&)=default
Defaulted.
CRTP base class to declare a strong typedef for a regular type to avoid ambiguous parameter settings ...
Definition strong_type.hpp:174
constexpr value_t & get() &noexcept
Returns the underlying value.
Definition strong_type.hpp:201
Provides seqan3::detail::empty_type.
align_config_id
An internal enum to check for a consistent configuration object.
Definition alignment/configuration/detail.hpp:21
@ global
ID for the global alignment option.
@ local
ID for the local alignment option.
A special sub namespace for the alignment configurations.
Definition align_config_band.hpp:22
Provides seqan3::pipeable_config_element.
Provides basic data structure for strong types.
A strong type representing free_end_gaps_sequence1_leading of the seqan3::align_cfg::method_global.
Definition align_config_method.hpp:65
A strong type representing free_end_gaps_sequence1_trailing of the seqan3::align_cfg::method_global.
Definition align_config_method.hpp:85
A strong type representing free_end_gaps_sequence2_leading of the seqan3::align_cfg::method_global.
Definition align_config_method.hpp:75
A strong type representing free_end_gaps_sequence2_trailing of the seqan3::align_cfg::method_global.
Definition align_config_method.hpp:95
Adds pipe interface to configuration elements.
Definition pipeable_config_element.hpp:29