[INFO] cloning repository https://github.com/MJLW/shet_score_vcfs
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/MJLW/shet_score_vcfs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FMJLW%2Fshet_score_vcfs", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FMJLW%2Fshet_score_vcfs'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] a48a91d7f8ac456db0152724f73e92825ea4880e
[INFO] linting MJLW/shet_score_vcfs against nightly for clippy-nonminimal_bool-denied
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FMJLW%2Fshet_score_vcfs" "/workspace/builds/worker-4-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-4-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/MJLW/shet_score_vcfs
[INFO] finished tweaking git repo https://github.com/MJLW/shet_score_vcfs
[INFO] tweaked toml for git repo https://github.com/MJLW/shet_score_vcfs written to /workspace/builds/worker-4-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/MJLW/shet_score_vcfs on toolchain nightly
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/MJLW/shet_score_vcfs already has a lockfile, it will not be regenerated
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+nightly" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded noodles-core v0.18.0
[INFO] [stderr]   Downloaded libz-rs-sys v0.5.4
[INFO] [stderr]   Downloaded noodles v0.101.0
[INFO] [stderr]   Downloaded noodles-csi v0.51.0
[INFO] [stderr]   Downloaded noodles-bgzf v0.43.0
[INFO] [stderr]   Downloaded noodles-tabix v0.57.0
[INFO] [stderr]   Downloaded noodles-vcf v0.81.0
[INFO] [stderr]   Downloaded zlib-rs v0.5.4
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+nightly" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 3011441e758b0d14880175478f01ac4a461a17275dcab36a5d0bb31cad153354
[INFO] running `Command { std: "docker" "start" "-a" "3011441e758b0d14880175478f01ac4a461a17275dcab36a5d0bb31cad153354", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "3011441e758b0d14880175478f01ac4a461a17275dcab36a5d0bb31cad153354", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "3011441e758b0d14880175478f01ac4a461a17275dcab36a5d0bb31cad153354", kill_on_drop: false }`
[INFO] [stdout] 3011441e758b0d14880175478f01ac4a461a17275dcab36a5d0bb31cad153354
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+nightly" "clippy" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 1f83da27c9d6ffd59a20f5ee94eec021a65aad30be71eb04b3a7f0e1fb0ceebb
[INFO] running `Command { std: "docker" "start" "-a" "1f83da27c9d6ffd59a20f5ee94eec021a65aad30be71eb04b3a7f0e1fb0ceebb", kill_on_drop: false }`
[INFO] [stderr]     Checking zlib-rs v0.5.4
[INFO] [stderr]    Compiling quote v1.0.42
[INFO] [stderr]     Checking bstr v1.12.1
[INFO] [stderr]    Compiling libc v0.2.178
[INFO] [stderr]    Compiling serde_core v1.0.228
[INFO] [stderr]     Checking indexmap v2.12.1
[INFO] [stderr]     Checking bit-vec v0.8.0
[INFO] [stderr]     Checking regex-automata v0.4.13
[INFO] [stderr]    Compiling proc-macro2 v1.0.103
[INFO] [stderr]     Checking humantime v2.3.0
[INFO] [stderr]     Checking clap_lex v0.7.6
[INFO] [stderr]     Checking csv-core v0.1.13
[INFO] [stderr]     Checking glob v0.3.3
[INFO] [stderr]     Checking clap_builder v4.5.53
[INFO] [stderr]     Checking noodles-core v0.18.0
[INFO] [stderr]    Compiling syn v2.0.111
[INFO] [stderr]     Checking libz-rs-sys v0.5.4
[INFO] [stderr]     Checking flate2 v1.1.5
[INFO] [stderr]     Checking noodles-bgzf v0.43.0
[INFO] [stderr]     Checking noodles-csi v0.51.0
[INFO] [stderr]     Checking is-terminal v0.4.17
[INFO] [stderr]     Checking noodles-tabix v0.57.0
[INFO] [stderr]     Checking regex v1.12.2
[INFO] [stderr]     Checking noodles-vcf v0.81.0
[INFO] [stderr]     Checking env_logger v0.10.2
[INFO] [stderr]     Checking csv v1.4.0
[INFO] [stderr]     Checking pretty_env_logger v0.5.0
[INFO] [stderr]    Compiling clap_derive v4.5.49
[INFO] [stderr]    Compiling serde_derive v1.0.228
[INFO] [stderr]     Checking noodles v0.101.0
[INFO] [stderr]     Checking clap v4.5.53
[INFO] [stderr]     Checking serde v1.0.228
[INFO] [stderr]     Checking shet v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unneeded `return` statement
[INFO] [stdout]   --> src/main.rs:89:17
[INFO] [stdout]    |
[INFO] [stdout] 89 |                 return Ok(float_value.to_owned());
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
[INFO] [stdout]    = note: `#[warn(clippy::needless_return)]` on by default
[INFO] [stdout] help: remove `return`
[INFO] [stdout]    |
[INFO] [stdout] 89 -                 return Ok(float_value.to_owned());
[INFO] [stdout] 89 +                 Ok(float_value.to_owned())
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unneeded `return` statement
[INFO] [stdout]   --> src/main.rs:99:44
[INFO] [stdout]    |
[INFO] [stdout] 99 |             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout]    |                                            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
[INFO] [stdout] help: remove `return`
[INFO] [stdout]    |
[INFO] [stdout] 99 -             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout] 99 +             Value::String(string_value) => Ok(string_value.to_owned()),
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `to_owned` call clones the `Cow<'_, str>` itself and does not cause its contents to become owned
[INFO] [stdout]   --> src/main.rs:99:54
[INFO] [stdout]    |
[INFO] [stdout] 99 |             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout]    |                                                      ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#suspicious_to_owned
[INFO] [stdout]    = note: `#[warn(clippy::suspicious_to_owned)]` on by default
[INFO] [stdout] help: depending on intent, either make the `Cow` an `Owned` variant
[INFO] [stdout]    |
[INFO] [stdout] 99 |             Value::String(string_value) => return Ok(string_value.into_owned()),
[INFO] [stdout]    |                                                                   ++
[INFO] [stdout] help: or clone the `Cow` itself
[INFO] [stdout]    |
[INFO] [stdout] 99 -             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout] 99 +             Value::String(string_value) => return Ok(string_value.clone()),
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `match` can be collapsed into the outer `match`
[INFO] [stdout]    --> src/main.rs:110:42
[INFO] [stdout]     |
[INFO] [stdout] 110 |               Value::Array(array_value) => match array_value {
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 111 | |                 Array::Float(float_values) => Some(Box::new(float_values.iter())),
[INFO] [stdout] 112 | |                 _ => None,
[INFO] [stdout] 113 | |             },
[INFO] [stdout]     | |_____________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:110:26
[INFO] [stdout]     |
[INFO] [stdout] 110 |             Value::Array(array_value) => match array_value {
[INFO] [stdout]     |                          ^^^^^^^^^^^ replace this binding
[INFO] [stdout] 111 |                 Array::Float(float_values) => Some(Box::new(float_values.iter())),
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout]     = note: `#[warn(clippy::collapsible_match)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `match` can be collapsed into the outer `match`
[INFO] [stdout]    --> src/main.rs:124:42
[INFO] [stdout]     |
[INFO] [stdout] 124 |               Value::Array(array_value) => match array_value {
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 125 | |                 Array::String(string_values) => {
[INFO] [stdout] 126 | |                     Some(Box::new(string_values.iter().map(|s| match s {
[INFO] [stdout] 127 | |                         Ok(Some(cow)) => Ok(Some(cow.to_string())),
[INFO] [stdout] ...   |
[INFO] [stdout] 132 | |                 _ => None,
[INFO] [stdout] 133 | |             },
[INFO] [stdout]     | |_____________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:124:26
[INFO] [stdout]     |
[INFO] [stdout] 124 |             Value::Array(array_value) => match array_value {
[INFO] [stdout]     |                          ^^^^^^^^^^^ replace this binding
[INFO] [stdout] 125 |                 Array::String(string_values) => {
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function call inside of `expect`
[INFO] [stdout]    --> src/main.rs:140:11
[INFO] [stdout]     |
[INFO] [stdout] 140 |       value.expect(&format!(
[INFO] [stdout]     |  ___________^
[INFO] [stdout] 141 | |         "Missing value in INFO/{}, these are required for this program.",
[INFO] [stdout] 142 | |         tag
[INFO] [stdout] 143 | |     ))
[INFO] [stdout]     | |______^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#expect_fun_call
[INFO] [stdout]     = note: `#[warn(clippy::expect_fun_call)]` on by default
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 140 ~     value.unwrap_or_else(|| panic!("Missing value in INFO/{}, these are required for this program.",
[INFO] [stdout] 141 +         tag))
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: useless conversion to the same type: `csv::DeserializeRecordsIter<'_, std::io::BufReader<std::fs::File>, Row>`
[INFO] [stdout]    --> src/main.rs:152:26
[INFO] [stdout]     |
[INFO] [stdout] 152 |       let rows: Vec<Row> = reader
[INFO] [stdout]     |  __________________________^
[INFO] [stdout] 153 | |         .deserialize()
[INFO] [stdout] 154 | |         .into_iter()
[INFO] [stdout]     | |____________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#useless_conversion
[INFO] [stdout]     = note: `#[warn(clippy::useless_conversion)]` on by default
[INFO] [stdout] help: consider removing `.into_iter()`
[INFO] [stdout]     |
[INFO] [stdout] 152 ~     let rows: Vec<Row> = reader
[INFO] [stdout] 153 +         .deserialize()
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: useless conversion to the same type: `csv::DeserializeRecordsIter<'_, std::io::BufReader<std::fs::File>, GeneSHET>`
[INFO] [stdout]    --> src/main.rs:173:31
[INFO] [stdout]     |
[INFO] [stdout] 173 |       let rows: Vec<GeneSHET> = reader
[INFO] [stdout]     |  _______________________________^
[INFO] [stdout] 174 | |         .deserialize()
[INFO] [stdout] 175 | |         .into_iter()
[INFO] [stdout]     | |____________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#useless_conversion
[INFO] [stdout] help: consider removing `.into_iter()`
[INFO] [stdout]     |
[INFO] [stdout] 173 ~     let rows: Vec<GeneSHET> = reader
[INFO] [stdout] 174 +         .deserialize()
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unneeded `return` statement
[INFO] [stdout]    --> src/main.rs:195:5
[INFO] [stdout]     |
[INFO] [stdout] 195 | /     return match tag_value {
[INFO] [stdout] 196 | |         Some(Ok(Some(tag))) => Some(tag),
[INFO] [stdout] 197 | |         _ => None,
[INFO] [stdout] 198 | |     };
[INFO] [stdout]     | |_____^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
[INFO] [stdout] help: remove `return`
[INFO] [stdout]     |
[INFO] [stdout] 195 ~     match tag_value {
[INFO] [stdout] 196 +         Some(Ok(Some(tag))) => Some(tag),
[INFO] [stdout] 197 +         _ => None,
[INFO] [stdout] 198 ~     }
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the borrowed expression implements the required traits
[INFO] [stdout]    --> src/main.rs:224:25
[INFO] [stdout]     |
[INFO] [stdout] 224 |     writer.write_record(&["ID", "PATERNAL_HAPLOTYPE", "MATERNAL_HAPLOTYPE"])?;
[INFO] [stdout]     |                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: change this to: `["ID", "PATERNAL_HAPLOTYPE", "MATERNAL_HAPLOTYPE"]`
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrows_for_generic_args
[INFO] [stdout]     = note: `#[warn(clippy::needless_borrows_for_generic_args)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this boolean expression can be simplified
[INFO] [stdout]    --> src/main.rs:345:42
[INFO] [stdout]     |
[INFO] [stdout] 345 |               let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 346 | |                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout]     | |___________________________________________________________________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#nonminimal_bool
[INFO] [stdout]     = note: `#[warn(clippy::nonminimal_bool)]` on by default
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 345 -             let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout] 346 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 345 +             let possible_paternal_call = !(is_phased && paternal_call <= 0 || paternal_call <= 0 && maternal_call <= 0);
[INFO] [stdout]     |
[INFO] [stdout] 345 -             let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout] 346 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 345 +             let possible_paternal_call = (maternal_call > 0 || paternal_call > 0) && (paternal_call > 0 || !is_phased);
[INFO] [stdout]     |
[INFO] [stdout] 345 -             let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout] 346 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 345 +             let possible_paternal_call = paternal_call > 0 || !is_phased && maternal_call > 0;
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this boolean expression can be simplified
[INFO] [stdout]    --> src/main.rs:347:42
[INFO] [stdout]     |
[INFO] [stdout] 347 |               let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 348 | |                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout]     | |___________________________________________________________________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#nonminimal_bool
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 347 -             let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout] 348 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 347 +             let possible_maternal_call = !(is_phased && maternal_call <= 0 || maternal_call <= 0 && paternal_call <= 0);
[INFO] [stdout]     |
[INFO] [stdout] 347 -             let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout] 348 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 347 +             let possible_maternal_call = (paternal_call > 0 || maternal_call > 0) && (maternal_call > 0 || !is_phased);
[INFO] [stdout]     |
[INFO] [stdout] 347 -             let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout] 348 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 347 +             let possible_maternal_call = maternal_call > 0 || !is_phased && paternal_call > 0;
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: accessing first element with `gt
[INFO] [stdout]                          .as_ref().get(0)`
[INFO] [stdout]    --> src/main.rs:325:40
[INFO] [stdout]     |
[INFO] [stdout] 325 |               let paternal_gt: &Allele = gt
[INFO] [stdout]     |  ________________________________________^
[INFO] [stdout] 326 | |                 .as_ref()
[INFO] [stdout] 327 | |                 .get(0)
[INFO] [stdout]     | |_______________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#get_first
[INFO] [stdout]     = note: `#[warn(clippy::get_first)]` on by default
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 325 ~             let paternal_gt: &Allele = gt
[INFO] [stdout] 326 +                 .as_ref().first()
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if let` can be collapsed into the outer `if let`
[INFO] [stdout]    --> src/main.rs:411:21
[INFO] [stdout]     |
[INFO] [stdout] 411 | /                     if let Some(rescue_tuple) = rescue {
[INFO] [stdout] 412 | |                         paternal_rescued = rescue_tuple.0 > 0;
[INFO] [stdout] 413 | |                         maternal_rescued = rescue_tuple.1 > 0;
[INFO] [stdout] 414 | |                     }
[INFO] [stdout]     | |_____________________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:410:29
[INFO] [stdout]     |
[INFO] [stdout] 410 |                 if let Some(rescue) = rescues.get(i) {
[INFO] [stdout]     |                             ^^^^^^ replace this binding
[INFO] [stdout] 411 |                     if let Some(rescue_tuple) = rescue {
[INFO] [stdout]     |                            ^^^^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if` statement can be collapsed
[INFO] [stdout]    --> src/main.rs:410:17
[INFO] [stdout]     |
[INFO] [stdout] 410 | /                 if let Some(rescue) = rescues.get(i) {
[INFO] [stdout] 411 | |                     if let Some(rescue_tuple) = rescue {
[INFO] [stdout] 412 | |                         paternal_rescued = rescue_tuple.0 > 0;
[INFO] [stdout] 413 | |                         maternal_rescued = rescue_tuple.1 > 0;
[INFO] [stdout] 414 | |                     }
[INFO] [stdout] 415 | |                 }
[INFO] [stdout]     | |_________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_if
[INFO] [stdout]     = note: `#[warn(clippy::collapsible_if)]` on by default
[INFO] [stdout] help: collapse nested if block
[INFO] [stdout]     |
[INFO] [stdout] 410 ~                 if let Some(rescue) = rescues.get(i)
[INFO] [stdout] 411 ~                     && let Some(rescue_tuple) = rescue {
[INFO] [stdout] 412 |                         paternal_rescued = rescue_tuple.0 > 0;
[INFO] [stdout] 413 |                         maternal_rescued = rescue_tuple.1 > 0;
[INFO] [stdout] 414 ~                     }
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if let` can be collapsed into the outer `if let`
[INFO] [stdout]    --> src/main.rs:420:21
[INFO] [stdout]     |
[INFO] [stdout] 420 | /                     if let Some(ptv_tuple) = ptv {
[INFO] [stdout] 421 | |                         paternal_ptv = ptv_tuple.0 > 0;
[INFO] [stdout] 422 | |                         maternal_ptv = ptv_tuple.1 > 0;
[INFO] [stdout] 423 | |                     }
[INFO] [stdout]     | |_____________________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:419:29
[INFO] [stdout]     |
[INFO] [stdout] 419 |                 if let Some(ptv) = ptvs.get(i) {
[INFO] [stdout]     |                             ^^^ replace this binding
[INFO] [stdout] 420 |                     if let Some(ptv_tuple) = ptv {
[INFO] [stdout]     |                            ^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if` statement can be collapsed
[INFO] [stdout]    --> src/main.rs:419:17
[INFO] [stdout]     |
[INFO] [stdout] 419 | /                 if let Some(ptv) = ptvs.get(i) {
[INFO] [stdout] 420 | |                     if let Some(ptv_tuple) = ptv {
[INFO] [stdout] 421 | |                         paternal_ptv = ptv_tuple.0 > 0;
[INFO] [stdout] 422 | |                         maternal_ptv = ptv_tuple.1 > 0;
[INFO] [stdout] 423 | |                     }
[INFO] [stdout] 424 | |                 }
[INFO] [stdout]     | |_________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_if
[INFO] [stdout] help: collapse nested if block
[INFO] [stdout]     |
[INFO] [stdout] 419 ~                 if let Some(ptv) = ptvs.get(i)
[INFO] [stdout] 420 ~                     && let Some(ptv_tuple) = ptv {
[INFO] [stdout] 421 |                         paternal_ptv = ptv_tuple.0 > 0;
[INFO] [stdout] 422 |                         maternal_ptv = ptv_tuple.1 > 0;
[INFO] [stdout] 423 ~                     }
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: order comparisons between booleans can be simplified
[INFO] [stdout]    --> src/main.rs:445:28
[INFO] [stdout]     |
[INFO] [stdout] 445 |                         if paternal_affected > haplotypes.0 || maternal_affected > haplotypes.1 {
[INFO] [stdout]     |                            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `paternal_affected & !haplotypes.0`
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#bool_comparison
[INFO] [stdout]     = note: `#[warn(clippy::bool_comparison)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: order comparisons between booleans can be simplified
[INFO] [stdout]    --> src/main.rs:445:64
[INFO] [stdout]     |
[INFO] [stdout] 445 |                         if paternal_affected > haplotypes.0 || maternal_affected > haplotypes.1 {
[INFO] [stdout]     |                                                                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `maternal_affected & !haplotypes.1`
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#bool_comparison
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unneeded `return` statement
[INFO] [stdout]   --> src/main.rs:89:17
[INFO] [stdout]    |
[INFO] [stdout] 89 |                 return Ok(float_value.to_owned());
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
[INFO] [stdout]    = note: `#[warn(clippy::needless_return)]` on by default
[INFO] [stdout] help: remove `return`
[INFO] [stdout]    |
[INFO] [stdout] 89 -                 return Ok(float_value.to_owned());
[INFO] [stdout] 89 +                 Ok(float_value.to_owned())
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unneeded `return` statement
[INFO] [stdout]   --> src/main.rs:99:44
[INFO] [stdout]    |
[INFO] [stdout] 99 |             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout]    |                                            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
[INFO] [stdout] help: remove `return`
[INFO] [stdout]    |
[INFO] [stdout] 99 -             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout] 99 +             Value::String(string_value) => Ok(string_value.to_owned()),
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `to_owned` call clones the `Cow<'_, str>` itself and does not cause its contents to become owned
[INFO] [stdout]   --> src/main.rs:99:54
[INFO] [stdout]    |
[INFO] [stdout] 99 |             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout]    |                                                      ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#suspicious_to_owned
[INFO] [stdout]    = note: `#[warn(clippy::suspicious_to_owned)]` on by default
[INFO] [stdout] help: depending on intent, either make the `Cow` an `Owned` variant
[INFO] [stdout]    |
[INFO] [stdout] 99 |             Value::String(string_value) => return Ok(string_value.into_owned()),
[INFO] [stdout]    |                                                                   ++
[INFO] [stdout] help: or clone the `Cow` itself
[INFO] [stdout]    |
[INFO] [stdout] 99 -             Value::String(string_value) => return Ok(string_value.to_owned()),
[INFO] [stdout] 99 +             Value::String(string_value) => return Ok(string_value.clone()),
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `match` can be collapsed into the outer `match`
[INFO] [stdout]    --> src/main.rs:110:42
[INFO] [stdout]     |
[INFO] [stdout] 110 |               Value::Array(array_value) => match array_value {
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 111 | |                 Array::Float(float_values) => Some(Box::new(float_values.iter())),
[INFO] [stdout] 112 | |                 _ => None,
[INFO] [stdout] 113 | |             },
[INFO] [stdout]     | |_____________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:110:26
[INFO] [stdout]     |
[INFO] [stdout] 110 |             Value::Array(array_value) => match array_value {
[INFO] [stdout]     |                          ^^^^^^^^^^^ replace this binding
[INFO] [stdout] 111 |                 Array::Float(float_values) => Some(Box::new(float_values.iter())),
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout]     = note: `#[warn(clippy::collapsible_match)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `match` can be collapsed into the outer `match`
[INFO] [stdout]    --> src/main.rs:124:42
[INFO] [stdout]     |
[INFO] [stdout] 124 |               Value::Array(array_value) => match array_value {
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 125 | |                 Array::String(string_values) => {
[INFO] [stdout] 126 | |                     Some(Box::new(string_values.iter().map(|s| match s {
[INFO] [stdout] 127 | |                         Ok(Some(cow)) => Ok(Some(cow.to_string())),
[INFO] [stdout] ...   |
[INFO] [stdout] 132 | |                 _ => None,
[INFO] [stdout] 133 | |             },
[INFO] [stdout]     | |_____________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:124:26
[INFO] [stdout]     |
[INFO] [stdout] 124 |             Value::Array(array_value) => match array_value {
[INFO] [stdout]     |                          ^^^^^^^^^^^ replace this binding
[INFO] [stdout] 125 |                 Array::String(string_values) => {
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function call inside of `expect`
[INFO] [stdout]    --> src/main.rs:140:11
[INFO] [stdout]     |
[INFO] [stdout] 140 |       value.expect(&format!(
[INFO] [stdout]     |  ___________^
[INFO] [stdout] 141 | |         "Missing value in INFO/{}, these are required for this program.",
[INFO] [stdout] 142 | |         tag
[INFO] [stdout] 143 | |     ))
[INFO] [stdout]     | |______^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#expect_fun_call
[INFO] [stdout]     = note: `#[warn(clippy::expect_fun_call)]` on by default
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 140 ~     value.unwrap_or_else(|| panic!("Missing value in INFO/{}, these are required for this program.",
[INFO] [stdout] 141 +         tag))
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: useless conversion to the same type: `csv::DeserializeRecordsIter<'_, std::io::BufReader<std::fs::File>, Row>`
[INFO] [stdout]    --> src/main.rs:152:26
[INFO] [stdout]     |
[INFO] [stdout] 152 |       let rows: Vec<Row> = reader
[INFO] [stdout]     |  __________________________^
[INFO] [stdout] 153 | |         .deserialize()
[INFO] [stdout] 154 | |         .into_iter()
[INFO] [stdout]     | |____________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#useless_conversion
[INFO] [stdout]     = note: `#[warn(clippy::useless_conversion)]` on by default
[INFO] [stdout] help: consider removing `.into_iter()`
[INFO] [stdout]     |
[INFO] [stdout] 152 ~     let rows: Vec<Row> = reader
[INFO] [stdout] 153 +         .deserialize()
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: useless conversion to the same type: `csv::DeserializeRecordsIter<'_, std::io::BufReader<std::fs::File>, GeneSHET>`
[INFO] [stdout]    --> src/main.rs:173:31
[INFO] [stdout]     |
[INFO] [stdout] 173 |       let rows: Vec<GeneSHET> = reader
[INFO] [stdout]     |  _______________________________^
[INFO] [stdout] 174 | |         .deserialize()
[INFO] [stdout] 175 | |         .into_iter()
[INFO] [stdout]     | |____________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#useless_conversion
[INFO] [stdout] help: consider removing `.into_iter()`
[INFO] [stdout]     |
[INFO] [stdout] 173 ~     let rows: Vec<GeneSHET> = reader
[INFO] [stdout] 174 +         .deserialize()
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unneeded `return` statement
[INFO] [stdout]    --> src/main.rs:195:5
[INFO] [stdout]     |
[INFO] [stdout] 195 | /     return match tag_value {
[INFO] [stdout] 196 | |         Some(Ok(Some(tag))) => Some(tag),
[INFO] [stdout] 197 | |         _ => None,
[INFO] [stdout] 198 | |     };
[INFO] [stdout]     | |_____^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_return
[INFO] [stdout] help: remove `return`
[INFO] [stdout]     |
[INFO] [stdout] 195 ~     match tag_value {
[INFO] [stdout] 196 +         Some(Ok(Some(tag))) => Some(tag),
[INFO] [stdout] 197 +         _ => None,
[INFO] [stdout] 198 ~     }
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the borrowed expression implements the required traits
[INFO] [stdout]    --> src/main.rs:224:25
[INFO] [stdout]     |
[INFO] [stdout] 224 |     writer.write_record(&["ID", "PATERNAL_HAPLOTYPE", "MATERNAL_HAPLOTYPE"])?;
[INFO] [stdout]     |                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: change this to: `["ID", "PATERNAL_HAPLOTYPE", "MATERNAL_HAPLOTYPE"]`
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#needless_borrows_for_generic_args
[INFO] [stdout]     = note: `#[warn(clippy::needless_borrows_for_generic_args)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this boolean expression can be simplified
[INFO] [stdout]    --> src/main.rs:345:42
[INFO] [stdout]     |
[INFO] [stdout] 345 |               let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 346 | |                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout]     | |___________________________________________________________________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#nonminimal_bool
[INFO] [stdout]     = note: `#[warn(clippy::nonminimal_bool)]` on by default
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 345 -             let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout] 346 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 345 +             let possible_paternal_call = !(is_phased && paternal_call <= 0 || paternal_call <= 0 && maternal_call <= 0);
[INFO] [stdout]     |
[INFO] [stdout] 345 -             let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout] 346 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 345 +             let possible_paternal_call = (maternal_call > 0 || paternal_call > 0) && (paternal_call > 0 || !is_phased);
[INFO] [stdout]     |
[INFO] [stdout] 345 -             let possible_paternal_call = (is_phased && paternal_call > 0)
[INFO] [stdout] 346 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 345 +             let possible_paternal_call = paternal_call > 0 || !is_phased && maternal_call > 0;
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this boolean expression can be simplified
[INFO] [stdout]    --> src/main.rs:347:42
[INFO] [stdout]     |
[INFO] [stdout] 347 |               let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout]     |  __________________________________________^
[INFO] [stdout] 348 | |                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout]     | |___________________________________________________________________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#nonminimal_bool
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 347 -             let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout] 348 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 347 +             let possible_maternal_call = !(is_phased && maternal_call <= 0 || maternal_call <= 0 && paternal_call <= 0);
[INFO] [stdout]     |
[INFO] [stdout] 347 -             let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout] 348 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 347 +             let possible_maternal_call = (paternal_call > 0 || maternal_call > 0) && (maternal_call > 0 || !is_phased);
[INFO] [stdout]     |
[INFO] [stdout] 347 -             let possible_maternal_call = (is_phased && maternal_call > 0)
[INFO] [stdout] 348 -                 || (!is_phased && (maternal_call > 0 || paternal_call > 0));
[INFO] [stdout] 347 +             let possible_maternal_call = maternal_call > 0 || !is_phased && paternal_call > 0;
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: accessing first element with `gt
[INFO] [stdout]                          .as_ref().get(0)`
[INFO] [stdout]    --> src/main.rs:325:40
[INFO] [stdout]     |
[INFO] [stdout] 325 |               let paternal_gt: &Allele = gt
[INFO] [stdout]     |  ________________________________________^
[INFO] [stdout] 326 | |                 .as_ref()
[INFO] [stdout] 327 | |                 .get(0)
[INFO] [stdout]     | |_______________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#get_first
[INFO] [stdout]     = note: `#[warn(clippy::get_first)]` on by default
[INFO] [stdout] help: try
[INFO] [stdout]     |
[INFO] [stdout] 325 ~             let paternal_gt: &Allele = gt
[INFO] [stdout] 326 +                 .as_ref().first()
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if let` can be collapsed into the outer `if let`
[INFO] [stdout]    --> src/main.rs:411:21
[INFO] [stdout]     |
[INFO] [stdout] 411 | /                     if let Some(rescue_tuple) = rescue {
[INFO] [stdout] 412 | |                         paternal_rescued = rescue_tuple.0 > 0;
[INFO] [stdout] 413 | |                         maternal_rescued = rescue_tuple.1 > 0;
[INFO] [stdout] 414 | |                     }
[INFO] [stdout]     | |_____________________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:410:29
[INFO] [stdout]     |
[INFO] [stdout] 410 |                 if let Some(rescue) = rescues.get(i) {
[INFO] [stdout]     |                             ^^^^^^ replace this binding
[INFO] [stdout] 411 |                     if let Some(rescue_tuple) = rescue {
[INFO] [stdout]     |                            ^^^^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if` statement can be collapsed
[INFO] [stdout]    --> src/main.rs:410:17
[INFO] [stdout]     |
[INFO] [stdout] 410 | /                 if let Some(rescue) = rescues.get(i) {
[INFO] [stdout] 411 | |                     if let Some(rescue_tuple) = rescue {
[INFO] [stdout] 412 | |                         paternal_rescued = rescue_tuple.0 > 0;
[INFO] [stdout] 413 | |                         maternal_rescued = rescue_tuple.1 > 0;
[INFO] [stdout] 414 | |                     }
[INFO] [stdout] 415 | |                 }
[INFO] [stdout]     | |_________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_if
[INFO] [stdout]     = note: `#[warn(clippy::collapsible_if)]` on by default
[INFO] [stdout] help: collapse nested if block
[INFO] [stdout]     |
[INFO] [stdout] 410 ~                 if let Some(rescue) = rescues.get(i)
[INFO] [stdout] 411 ~                     && let Some(rescue_tuple) = rescue {
[INFO] [stdout] 412 |                         paternal_rescued = rescue_tuple.0 > 0;
[INFO] [stdout] 413 |                         maternal_rescued = rescue_tuple.1 > 0;
[INFO] [stdout] 414 ~                     }
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if let` can be collapsed into the outer `if let`
[INFO] [stdout]    --> src/main.rs:420:21
[INFO] [stdout]     |
[INFO] [stdout] 420 | /                     if let Some(ptv_tuple) = ptv {
[INFO] [stdout] 421 | |                         paternal_ptv = ptv_tuple.0 > 0;
[INFO] [stdout] 422 | |                         maternal_ptv = ptv_tuple.1 > 0;
[INFO] [stdout] 423 | |                     }
[INFO] [stdout]     | |_____________________^
[INFO] [stdout]     |
[INFO] [stdout] help: the outer pattern can be modified to include the inner pattern
[INFO] [stdout]    --> src/main.rs:419:29
[INFO] [stdout]     |
[INFO] [stdout] 419 |                 if let Some(ptv) = ptvs.get(i) {
[INFO] [stdout]     |                             ^^^ replace this binding
[INFO] [stdout] 420 |                     if let Some(ptv_tuple) = ptv {
[INFO] [stdout]     |                            ^^^^^^^^^^^^^^^ with this pattern
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_match
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: this `if` statement can be collapsed
[INFO] [stdout]    --> src/main.rs:419:17
[INFO] [stdout]     |
[INFO] [stdout] 419 | /                 if let Some(ptv) = ptvs.get(i) {
[INFO] [stdout] 420 | |                     if let Some(ptv_tuple) = ptv {
[INFO] [stdout] 421 | |                         paternal_ptv = ptv_tuple.0 > 0;
[INFO] [stdout] 422 | |                         maternal_ptv = ptv_tuple.1 > 0;
[INFO] [stdout] 423 | |                     }
[INFO] [stdout] 424 | |                 }
[INFO] [stdout]     | |_________________^
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#collapsible_if
[INFO] [stdout] help: collapse nested if block
[INFO] [stdout]     |
[INFO] [stdout] 419 ~                 if let Some(ptv) = ptvs.get(i)
[INFO] [stdout] 420 ~                     && let Some(ptv_tuple) = ptv {
[INFO] [stdout] 421 |                         paternal_ptv = ptv_tuple.0 > 0;
[INFO] [stdout] 422 |                         maternal_ptv = ptv_tuple.1 > 0;
[INFO] [stdout] 423 ~                     }
[INFO] [stdout]     |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: order comparisons between booleans can be simplified
[INFO] [stdout]    --> src/main.rs:445:28
[INFO] [stdout]     |
[INFO] [stdout] 445 |                         if paternal_affected > haplotypes.0 || maternal_affected > haplotypes.1 {
[INFO] [stdout]     |                            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `paternal_affected & !haplotypes.0`
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#bool_comparison
[INFO] [stdout]     = note: `#[warn(clippy::bool_comparison)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: order comparisons between booleans can be simplified
[INFO] [stdout]    --> src/main.rs:445:64
[INFO] [stdout]     |
[INFO] [stdout] 445 |                         if paternal_affected > haplotypes.0 || maternal_affected > haplotypes.1 {
[INFO] [stdout]     |                                                                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: try: `maternal_affected & !haplotypes.1`
[INFO] [stdout]     |
[INFO] [stdout]     = help: for further information visit https://rust-lang.github.io/rust-clippy/master/index.html#bool_comparison
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 12.85s
[INFO] running `Command { std: "docker" "inspect" "1f83da27c9d6ffd59a20f5ee94eec021a65aad30be71eb04b3a7f0e1fb0ceebb", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1f83da27c9d6ffd59a20f5ee94eec021a65aad30be71eb04b3a7f0e1fb0ceebb", kill_on_drop: false }`
[INFO] [stdout] 1f83da27c9d6ffd59a20f5ee94eec021a65aad30be71eb04b3a7f0e1fb0ceebb