Struct lt_fm_index::fmindex_on::FmIndexOn

pub struct FmIndexOn {
    pub kmer_lookup_table: Option<(usize, Vec<u64>)>,
    // some fields omitted
}

Lt-Fm-index data structure

Fields

kmer_lookup_table: Option<(usize, Vec<u64>)>

Implementations

impl FmIndexOn

pub fn write_index_to<W>(&self, writer: W) -> Result<(), String> where
    W: Write, 

Write [FmIndex] to writer

pub fn write_index_to_file(&self, file_path: &str) -> Result<(), String>

Write [FmIndex] to file

pub fn read_index_from<R>(reader: R) -> Result<Self, String> where
    R: Read, 

Read [FmIndex] from reader

pub fn read_index_from_file(file_path: &str) -> Result<Self, String>

Read [FmIndex] from file

impl FmIndexOn

pub fn new(config: &FmIndexConfig, text: Vec<u8>) -> Self

Create new fm-index with configuration

pub fn get_ca_and_klt(
    config: &FmIndexConfig,
    text: &mut Vec<u8>
) -> ([u64; 5], Option<(usize, Vec<u64>)>)

Trait Implementations

impl Debug for FmIndexOn

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.

impl<'de> Deserialize<'de> for FmIndexOn

fn deserialize<__D>(__deserializer: __D) -> Result<Self, __D::Error> where
    __D: Deserializer<'de>, 

Deserialize this value from the given Serde deserializer.

impl FmIndex for FmIndexOn

fn count(&self, pattern: &[u8]) -> u64

Count the number of pattern in the text

fn locate_wo_klt(&self, pattern: &[u8]) -> Vec<u64>

Locate index of the pattern in the text (not use k-mer lookup table)

fn locate_w_klt(&self, pattern: &[u8]) -> Vec<u64>

Locate index of the pattern in the text with k-mer lookup table

impl PartialEq<FmIndexOn> for FmIndexOn

fn eq(&self, other: &FmIndexOn) -> bool

This method tests for self and other values to be equal, and is used by ==.

fn ne(&self, other: &FmIndexOn) -> bool

This method tests for !=.

impl Serialize for FmIndexOn

fn serialize<__S>(&self, __serializer: __S) -> Result<__S::Ok, __S::Error> where
    __S: Serializer, 

Serialize this value into the given Serde serializer.

impl StructuralPartialEq for FmIndexOn