warning: struct update has no effect, all the fields in the struct have already been specified
  --> src/main.rs:97:5
   |
97 |         ..Default::default()
   |           ^^^^^^^^^^^^^^^^^^
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_update
   = note: `#[warn(clippy::needless_update)]` on by default

warning: writing `&Vec` instead of `&[_]` involves a new object where a slice will do
   --> src/map.rs:188:10
    |
188 |     aln: &Vec<char>,
    |          ^^^^^^^^^^ help: change this to: `&[char]`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#ptr_arg

warning: unneeded `return` statement
   --> src/map.rs:210:5
    |
210 |     return encodings;
    |     ^^^^^^^^^^^^^^^^
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
help: remove `return`
    |
210 -     return encodings;
210 +     encodings
    |

warning: this expression creates a reference which is immediately dereferenced by the compiler
   --> src/map.rs:181:13
    |
181 |     run_to_aln(&runs, ms[i], threshold, k, &mut aln, &mut i);
    |                ^^^^^ help: change this to: `runs`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrow
    = note: `#[warn(clippy::needless_borrow)]` on by default

warning: the loop variable `i` is used to index `ms`
   --> src/map.rs:180:18
    |
180 |     for mut i in 3..(len - 1) {
    |                  ^^^^^^^^^^^^
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_range_loop
    = note: `#[warn(clippy::needless_range_loop)]` on by default
help: consider using an iterator and enumerate()
    |
180 |     for (i, <item>) in ms.iter().enumerate().take((len - 1)).skip(3) {
    |         ~~~~~~~~~~~    ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

warning: writing `&Vec` instead of `&[_]` involves a new object where a slice will do
   --> src/map.rs:169:9
    |
169 |     ms: &Vec<usize>,
    |         ^^^^^^^^^^^ help: change this to: `&[usize]`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#ptr_arg

warning: unneeded `return` statement
   --> src/map.rs:184:5
    |
184 |     return aln;
    |     ^^^^^^^^^^
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
help: remove `return`
    |
184 -     return aln;
184 +     aln
    |

warning: writing `&Vec` instead of `&[_]` involves a new object where a slice will do
   --> src/map.rs:148:9
    |
148 |     ms: &Vec<usize>,
    |         ^^^^^^^^^^^ help: change this to: `&[usize]`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#ptr_arg

warning: unneeded `return` statement
   --> src/map.rs:164:5
    |
164 |     return runs;
    |     ^^^^^^^^^^^
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
help: remove `return`
    |
164 -     return runs;
164 +     runs
    |

warning: using `clone` on type `usize` which implements the `Copy` trait
   --> src/map.rs:131:28
    |
131 |     let mut next_gap: usize = pos.clone();
    |                               ^^^^^^^^^^^ help: try dereferencing it: `*pos`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#clone_on_copy
    = note: `#[warn(clippy::clone_on_copy)]` on by default

warning: this `if` has identical blocks
   --> src/map.rs:123:39
    |
123 |       } else if curr > threshold as i64 {
    |  _______________________________________^
124 | |     res[*pos] = 'M';
125 | |     } else if curr == next - 1 && curr > 0 {
    | |_____^
    |
note: same as this
   --> src/map.rs:125:44
    |
125 |       } else if curr == next - 1 && curr > 0 {
    |  ____________________________________________^
126 | |     res[*pos] = 'M';
127 | |     } else if curr == 0 && next == 1 && prev > 0 {
    | |_____^
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#if_same_then_else

warning: this `if` has identical blocks
   --> src/map.rs:121:51
    |
121 |       } else if next == 1 && curr == curr_ms as i64 {
    |  ___________________________________________________^
122 | |     res[*pos] = 'M';
123 | |     } else if curr > threshold as i64 {
    | |_____^
    |
note: same as this
   --> src/map.rs:123:39
    |
123 |       } else if curr > threshold as i64 {
    |  _______________________________________^
124 | |     res[*pos] = 'M';
125 | |     } else if curr == next - 1 && curr > 0 {
    | |_____^
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#if_same_then_else

warning: writing `&mut Vec` instead of `&mut [_]` involves a new object where a slice will do
   --> src/map.rs:109:10
    |
109 |     res: &mut Vec<char>,
    |          ^^^^^^^^^^^^^^ help: change this to: `&mut [char]`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#ptr_arg

warning: writing `&Vec` instead of `&[_]` involves a new object where a slice will do
   --> src/map.rs:105:11
    |
105 |     runs: &Vec<i64>,
    |           ^^^^^^^^^ help: change this to: `&[i64]`
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#ptr_arg
    = note: `#[warn(clippy::ptr_arg)]` on by default

warning: this `if` has identical blocks
  --> src/map.rs:93:49
   |
93 |       } else if curr > threshold && next_run == 1 {
   |  _________________________________________________^
94 | |     curr as i64
95 | |     } else if curr > threshold && next_run < curr as i64 {
   | |_____^
   |
note: same as this
  --> src/map.rs:95:58
   |
95 |       } else if curr > threshold && next_run < curr as i64 {
   |  __________________________________________________________^
96 | |     curr as i64
97 | |     } else {
   | |_____^
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#if_same_then_else

warning: this `if` has identical blocks
  --> src/map.rs:91:49
   |
91 |       } else if curr > threshold && next_run <= 0 {
   |  _________________________________________________^
92 | |     curr as i64
93 | |     } else if curr > threshold && next_run == 1 {
   | |_____^
   |
note: same as this
  --> src/map.rs:93:49
   |
93 |       } else if curr > threshold && next_run == 1 {
   |  _________________________________________________^
94 | |     curr as i64
95 | |     } else if curr > threshold && next_run < curr as i64 {
   | |_____^
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#if_same_then_else

warning: this `if` has identical blocks
  --> src/map.rs:85:42
   |
85 |       } else if curr == k && next_run == 1 {
   |  __________________________________________^
86 | |     k as i64
87 | |     } else if curr == k && next_run < 0 {
   | |_____^
   |
note: same as this
  --> src/map.rs:87:41
   |
87 |       } else if curr == k && next_run < 0 {
   |  _________________________________________^
88 | |     k as i64
89 | |     } else if curr < threshold {
   | |_____^
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#if_same_then_else

warning: this `if` has identical blocks
  --> src/map.rs:83:46
   |
83 |       let run: i64 = if curr == k && next == k {
   |  ______________________________________________^
84 | |     k as i64
85 | |     } else if curr == k && next_run == 1 {
   | |_____^
   |
note: same as this
  --> src/map.rs:85:42
   |
85 |       } else if curr == k && next_run == 1 {
   |  __________________________________________^
86 | |     k as i64
87 | |     } else if curr == k && next_run < 0 {
   | |_____^
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#if_same_then_else
   = note: `#[warn(clippy::if_same_then_else)]` on by default

warning: unneeded `return` statement
   --> src/map.rs:101:5
    |
101 |     return run;
    |     ^^^^^^^^^^
    |
    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
help: remove `return`
    |
101 -     return run;
101 +     run
    |

warning: unneeded `return` statement
  --> src/map.rs:71:6
   |
71 |         return ms;
   |         ^^^^^^^^^
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
help: remove `return`
   |
71 ~         ms
72 |     },
73 ~     }
   |

warning: use of `unwrap_or` to construct default value
  --> src/map.rs:33:36
   |
33 |     let params = params_in.clone().unwrap_or(QueryParams::default());
   |                                    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `unwrap_or_default()`
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unwrap_or_default

warning: unneeded `return` statement
  --> src/map.rs:54:5
   |
54 |     return (sbwt, lcs);
   |     ^^^^^^^^^^^^^^^^^^
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
help: remove `return`
   |
54 -     return (sbwt, lcs);
54 +     (sbwt, lcs)
   |

warning: this `impl` can be derived
  --> src/map.rs:22:1
   |
22 | / impl Default for QueryParams {
23 | |     fn default() -> QueryParams {
24 | |         QueryParams {
25 | |         index_prefix: None,
26 | |         }
27 | |     }
28 | | }
   | |_^
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#derivable_impls
   = note: `#[warn(clippy::derivable_impls)]` on by default
   = help: remove the manual implementation...
help: ...and instead derive it
   |
18 + #[derive(Default)]
19 | pub struct QueryParams {
   |

warning: use of `unwrap_or` to construct default value
  --> src/build.rs:85:36
   |
85 |     let params = params_in.clone().unwrap_or(SBWTParams::default());
   |                                    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `unwrap_or_default()`
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unwrap_or_default

warning: use of `unwrap_or` to construct default value
  --> src/build.rs:58:36
   |
58 |     let params = params_in.clone().unwrap_or(SBWTParams::default());
   |                                    ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `unwrap_or_default()`
   |
   = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#unwrap_or_default
   = note: `#[warn(clippy::unwrap_or_default)]` on by default