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#ifndef TERRACES_SIMPLE_HPP
#define TERRACES_SIMPLE_HPP
#include <cstdint>
#include <iosfwd>
#include <string>
#include "bigint.hpp"
namespace terraces {
namespace simple {
/**
* Check whether the given tree is on a terrace.
* \returns true if there is at least one other tree on the terrace.
*/
bool is_on_terrace(std::istream& nwk_stream, std::istream& matrix_stream, bool force = false);
bool is_on_terrace(std::istream& nwk_stream, const std::string& matrix_string, bool force = false);
bool is_on_terrace(const std::string& nwk_string, std::istream& matrix_stream, bool force = false);
bool is_on_terrace(const std::string& nwk_string, const std::string& matrix_string,
bool force = false);
bool is_on_terrace_from_file(const std::string& nwk_filename, const std::string& matrix_filename,
bool force = false);
/**
* Count the number of trees on the terrace.
* \returns the number of trees on the terrace. If the number of trees is not representable in
* 32/64 bits, this method returns the maximum value of uint32/64_t instead.
*/
index get_terrace_size(std::istream& nwk_stream, std::istream& matrix_stream, bool force = false);
index get_terrace_size(std::istream& nwk_stream, const std::string& matrix_string,
bool force = false);
index get_terrace_size(const std::string& nwk_string, std::istream& matrix_stream,
bool force = false);
index get_terrace_size(const std::string& nwk_string, const std::string& matrix_string,
bool force = false);
index get_terrace_size_from_file(const std::string& nwk_filename,
const std::string& matrix_filename, bool force = false);
/**
* Count the number of trees on the terrace.
* \returns the number of trees on the terrace. If the number of trees is not representable in 64
* bits,
* this method returns the maximum value of uint64_t instead.
* \throws tree_count_overflow_error if the method will not terminate in any usable timeframe.
*/
big_integer get_terrace_size_bigint(std::istream& nwk_stream, std::istream& matrix_stream,
bool force = false);
big_integer get_terrace_size_bigint(std::istream& nwk_stream, const std::string& matrix_string,
bool force = false);
big_integer get_terrace_size_bigint(const std::string& nwk_string, std::istream& matrix_stream,
bool force = false);
big_integer get_terrace_size_bigint(const std::string& nwk_string, const std::string& matrix_string,
bool force = false);
big_integer get_terrace_size_bigint_from_file(const std::string& nwk_filename,
const std::string& matrix_filename,
bool force = false);
/**
* Print the multitree representation of all trees to the provided output.
*
* Note that the output may be quite large!
* \throws tree_count_overflow_error if the method will not terminate in any usable timeframe.
*/
big_integer print_terrace_compressed(std::istream& nwk_stream, std::istream& matrix_stream,
std::ostream& out, bool force = false);
big_integer print_terrace_compressed(std::istream& nwk_stream, const std::string& matrix_string,
std::ostream& out, bool force = false);
big_integer print_terrace_compressed(const std::string& nwk_string, std::istream& matrix_stream,
std::ostream& out, bool force = false);
big_integer print_terrace_compressed(const std::string& nwk_string,
const std::string& matrix_string, std::ostream& out,
bool force = false);
big_integer print_terrace_compressed_from_file(const std::string& nwk_filename,
const std::string& matrix_filename,
std::ostream& output, bool force = false);
/**
* Print all trees on the terrace to the provided output.
*
* Note that the output may be extremely large!
* \throws tree_count_overflow_error if the method will not terminate in any usable timeframe.
*/
big_integer print_terrace(std::istream& nwk_stream, std::istream& matrix_stream, std::ostream& out,
bool force = false);
big_integer print_terrace(std::istream& nwk_stream, const std::string& matrix_string,
std::ostream& out, bool force = false);
big_integer print_terrace(const std::string& nwk_string, std::istream& matrix_stream,
std::ostream& out, bool force = false);
big_integer print_terrace(const std::string& nwk_string, const std::string& matrix_string,
std::ostream& out, bool force = false);
big_integer print_terrace_from_file(const std::string& nwk_filename,
const std::string& matrix_filename, std::ostream& output,
bool force = false);
} // namespace simple
} // namespace terraces
#endif
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