13#include <seqan3/search/kmer_index/shape.hpp>
30 seqan3::shape
shape{seqan3::ungapped{20u}};
38 double threshold{std::numeric_limits<double>::quiet_NaN()};
50 std::vector<std::vector<std::string>>
bin_path{};
Definition: adjust_seed.hpp:13
Definition: search_arguments.hpp:22
uint64_t v
Definition: search_arguments.hpp:23
Definition: search_arguments.hpp:27
uint8_t threads
Definition: search_arguments.hpp:33
double fpr
Definition: search_arguments.hpp:40
raptor::pattern_size pattern_size_strong
Definition: search_arguments.hpp:42
raptor::threshold::threshold_parameters make_threshold_parameters() const noexcept
Definition: search_arguments.hpp:58
uint8_t errors
Definition: search_arguments.hpp:43
bool cache_thresholds
Definition: search_arguments.hpp:56
seqan3::shape shape
Definition: search_arguments.hpp:30
uint8_t shape_weight
Definition: search_arguments.hpp:32
std::filesystem::path query_file
Definition: search_arguments.hpp:51
double p_max
Definition: search_arguments.hpp:39
bool compressed
Definition: search_arguments.hpp:47
std::vector< std::vector< std::string > > bin_path
Definition: search_arguments.hpp:50
double threshold
Definition: search_arguments.hpp:38
std::filesystem::path index_file
Definition: search_arguments.hpp:46
bool write_time
Definition: search_arguments.hpp:53
bool is_hibf
Definition: search_arguments.hpp:55
uint8_t shape_size
Definition: search_arguments.hpp:31
std::filesystem::path out_file
Definition: search_arguments.hpp:52
uint32_t window_size
Definition: search_arguments.hpp:29
bool is_socks
Definition: search_arguments.hpp:54
double tau
Definition: search_arguments.hpp:37
uint8_t parts
Definition: search_arguments.hpp:34
Definition: threshold_parameters.hpp:18
uint32_t window_size
Definition: threshold_parameters.hpp:20