bio-seq-algos 0.1.9

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�	�	�	�	�	�	�	_	C	A	1	} } } } } }  x.log2() * INVERSE_LOG2_Epub fn fast_ln(x: PartitionFunc) -> LogPf {#[inline]}  }    fast_ln(xs.iter().fold(0., |acc, &x| acc + (x - max).exp())) + max  } else {    fast_ln(xs.iter().fold(0., |acc, &x| acc + x.exp()))  if !max.is_finite() {pub fn logsumexp(xs: SliceOfEpsOfTerms4LogPf, max: ExpPartOfTerm4LogPf) -> LogPf {#[inline]const INVERSE_LOG2_E: LogPf = 1. / LOG2_E;pub type PosPair = (Pos, Pos);pub type Pos = usize;pub type ProbSeqPair = (Probs, Probs);}  pub base_extending_gap_penalty: SaScore,  pub base_opening_gap_penalty: SaScore,  pub ca_sm: CaScoreMat,pub struct SaScoringParams {pub type CaScoreMat = HashMap<CharPair, SaScore, Hasher>;pub type SaScore = LogProb;pub type SsPair<'a> = (SeqSlice<'a>, SeqSlice<'a>);pub type LogPpfMat = Vec<LogPartialPfs>;pub type LogPartialPfs = Vec<LogPf>;pub type LogProbMat = Vec<LogProbs>;pub type LogProbs = Vec<LogProb>;pub type ProbMat = Vec<Probs>;pub type Probs = Vec<Prob>;pub type CharPair = (Char, Char);pub type Hasher = BuildHasherDefault<FnvHasher>;pub type SliceOfEpsOfTerms4LogProb<'a> = &'a[ExpPartOfTerm4LogProb];pub type EpsOfTerms4LogProb = Vec<ExpPartOfTerm4LogProb>;pub type ExpPartOfTerm4LogProb = Prob;pub type SliceOfEpsOfTerms4LogPf<'a> = &'a[ExpPartOfTerm4LogPf];pub type EpsOfTerms4LogPf = Vec<ExpPartOfTerm4LogPf>;pub type ExpPartOfTerm4LogPf = PartitionFunc;pub type LogPf = PartitionFunc;pub type PartitionFunc = Prob;pub type LogProb = Prob;pub type Prob = f64;pub type SeqSlice<'a> = &'a[Char];pub type Seq = Vec<Char>;pub type Char = u8;pub use std::f64::NEG_INFINITY;use std::hash::BuildHasherDefault;use fnv::FnvHasher;pub use std::collections::HashMap;use std::f64::consts::LOG2_E;