61 static constexpr seqan3::detail::align_config_id
id{seqan3::detail::align_config_id::local};
70 using base_t = seqan3::detail::strong_type<bool, free_end_gaps_sequence1_leading>;
80 using base_t = seqan3::detail::strong_type<bool, free_end_gaps_sequence2_leading>;
90 using base_t = seqan3::detail::strong_type<bool, free_end_gaps_sequence1_trailing>;
100 using base_t = seqan3::detail::strong_type<bool, free_end_gaps_sequence2_trailing>;
101 using base_t::base_t;
166 static constexpr seqan3::detail::align_config_id
id{seqan3::detail::align_config_id::global};
Sets the global alignment method.
Definition: align_config_method.hpp:122
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:160
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:162
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:144
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:45
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.
Provides seqan3::detail::empty_type.
A special sub namespace for the alignment configurations.
Definition: align_config_band.hpp:25
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:68
seqan3::detail::strong_type< bool, free_end_gaps_sequence1_leading > base_t
The type of the strong type base class.
Definition: align_config_method.hpp:70
A strong type representing free_end_gaps_sequence1_trailing of the seqan3::align_cfg::method_global.
Definition: align_config_method.hpp:88
seqan3::detail::strong_type< bool, free_end_gaps_sequence1_trailing > base_t
The type of the strong type base class.
Definition: align_config_method.hpp:90
A strong type representing free_end_gaps_sequence2_leading of the seqan3::align_cfg::method_global.
Definition: align_config_method.hpp:78
seqan3::detail::strong_type< bool, free_end_gaps_sequence2_leading > base_t
The type of the strong type base class.
Definition: align_config_method.hpp:80
A strong type representing free_end_gaps_sequence2_trailing of the seqan3::align_cfg::method_global.
Definition: align_config_method.hpp:98
seqan3::detail::strong_type< bool, free_end_gaps_sequence2_trailing > base_t
The type of the strong type base class.
Definition: align_config_method.hpp:100
Adds pipe interface to configuration elements.
Definition: pipeable_config_element.hpp:32