Provides some utility functions for the alignment configurations.
Sets the global alignment method.
Definition: align_config_method.hpp:107
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:145
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:147
method_global(method_global const &)=default
Defaulted.
method_global & operator=(method_global &&)=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:129
~method_global()=default
Defaulted.
method_global & operator=(method_global const &)=default
Defaulted.
method_global(method_global &&)=default
Defaulted.
Sets the local alignment method.
Definition: align_config_method.hpp:43
method_local & operator=(method_local &&)=default
Defaulted.
method_local(method_local const &)=default
Defaulted.
~method_local()=default
Defaulted.
method_local & operator=(method_local const &)=default
Defaulted.
method_local()=default
Defaulted.
method_local(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:182
constexpr value_t & get() &noexcept
Returns the underlying value.
Definition: strong_type.hpp:209
Provides seqan3::detail::empty_type.
align_config_id
An internal enum to check for a consistent configuration object.
Definition: detail.hpp:24
@ 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:23
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:66
A strong type representing free_end_gaps_sequence1_trailing of the seqan3::align_cfg::method_global.
Definition: align_config_method.hpp:86
A strong type representing free_end_gaps_sequence2_leading of the seqan3::align_cfg::method_global.
Definition: align_config_method.hpp:76
A strong type representing free_end_gaps_sequence2_trailing of the seqan3::align_cfg::method_global.
Definition: align_config_method.hpp:96