fix clippy

allow single-character variable names

Author: TianyiShi2001

src/alignment/pairwise/banded.rs

@@ -80,6 +80,7 @@
 //! // aligner.custom_with_prehash(x, y, &y_kmers_hash) is also supported
 //! ```
 
+#![allow(clippy::many_single_char_names)]
 use crate::alignment::{Alignment, AlignmentOperation};
 use crate::utils::TextSlice;
 use std::cmp::{max, min, Ordering};

src/alignment/pairwise/mod.rs

@@ -132,6 +132,7 @@
 //! );
 //! ```
 
+#![allow(clippy::many_single_char_names)]
 use std::cmp::max;
 use std::i32;
 use std::iter::repeat;

src/alignment/poa.rs

@@ -317,6 +317,7 @@ impl<F: MatchFunc> Poa<F> {
     ///
     /// # Arguments
     /// * `query` - the query TextSlice to align against the internal graph member
+    #[allow(clippy::many_single_char_names)]
     pub fn global(&self, query: TextSlice) -> Traceback {
         assert!(self.graph.node_count() != 0);
 

src/data_structures/fmindex.rs

@@ -373,6 +373,7 @@ impl<DBWT: Borrow<BWT>, DLess: Borrow<Less>, DOcc: Borrow<Occ>> FMDIndex<DBWT, D
     }
 
     /// Backward extension of given interval with given character.
+    #[allow(clippy::many_single_char_names)]
     pub fn backward_ext(&self, interval: &BiInterval, a: u8) -> BiInterval {
         let mut s = 0;
         let mut o = 0;

src/data_structures/rank_select.rs

@@ -243,6 +243,7 @@ impl Ord for SuperblockRank {
 }
 
 /// Create `n` superblocks of size `s` from a given bitvector.
+#[allow(clippy::many_single_char_names)]
 fn superblocks(t: bool, n: usize, s: usize, bits: &BitVec<u8>) -> Vec<SuperblockRank> {
     let mut superblocks = Vec::with_capacity(n / s + 1);
     let mut rank: u64 = 0;