[INFO] cloning repository https://github.com/leonkaushikdeka/wasmscanq
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/leonkaushikdeka/wasmscanq" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fleonkaushikdeka%2Fwasmscanq", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fleonkaushikdeka%2Fwasmscanq'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 26c31e905a9e0ed25db9e04a6d23bcb8ce94c548
[INFO] checking leonkaushikdeka/wasmscanq against try#d0ab665d12770dbaae620b539ee4319b83445f45 for pr-133502-24
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fleonkaushikdeka%2Fwasmscanq" "/workspace/builds/worker-2-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-2-tc2/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/leonkaushikdeka/wasmscanq
[INFO] finished tweaking git repo https://github.com/leonkaushikdeka/wasmscanq
[INFO] tweaked toml for git repo https://github.com/leonkaushikdeka/wasmscanq written to /workspace/builds/worker-2-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/leonkaushikdeka/wasmscanq on toolchain d0ab665d12770dbaae620b539ee4319b83445f45
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+d0ab665d12770dbaae620b539ee4319b83445f45" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/leonkaushikdeka/wasmscanq 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" "+d0ab665d12770dbaae620b539ee4319b83445f45" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc2/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2-tc2/target:/opt/rustwide/target:rw,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" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:3d5ced03c013a94a2f102a4510f48a6e9184255caf5fd8244f58017bde7f5210" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940
[INFO] running `Command { std: "docker" "start" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940" "/opt/rustwide/cargo-home/bin/cargo" "+d0ab665d12770dbaae620b539ee4319b83445f45" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-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" "-w" "/opt/rustwide/workdir" "--user" "0:0" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940" "/opt/rustwide/cargo-home/bin/cargo" "+d0ab665d12770dbaae620b539ee4319b83445f45" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr]    Compiling wasm-bindgen-shared v0.2.108
[INFO] [stderr]    Compiling bumpalo v3.19.1
[INFO] [stderr]     Checking unicode-ident v1.0.22
[INFO] [stderr]     Checking simd-adler32 v0.3.8
[INFO] [stderr]    Compiling rustix v1.1.3
[INFO] [stderr]     Checking linux-raw-sys v0.11.0
[INFO] [stderr]    Compiling wasm-bindgen v0.2.108
[INFO] [stderr]     Checking bitflags v2.10.0
[INFO] [stderr]    Compiling syn v2.0.114
[INFO] [stderr]     Checking nom v7.1.3
[INFO] [stderr]     Checking memmap2 v0.9.9
[INFO] [stderr]     Checking getrandom v0.2.17
[INFO] [stderr]     Checking wait-timeout v0.2.1
[INFO] [stderr]     Checking bit-vec v0.8.0
[INFO] [stderr]     Checking quick-error v1.2.3
[INFO] [stderr]     Checking rand v0.9.2
[INFO] [stderr]     Checking rand_xorshift v0.4.0
[INFO] [stderr]     Checking rand_chacha v0.9.0
[INFO] [stderr]     Checking unarray v0.1.4
[INFO] [stderr]     Checking rand_core v0.6.4
[INFO] [stderr]     Checking miniz_oxide v0.8.9
[INFO] [stderr]     Checking rand_chacha v0.3.1
[INFO] [stderr]     Checking bit-set v0.8.0
[INFO] [stderr]     Checking rand v0.8.5
[INFO] [stderr]     Checking flate2 v1.1.8
[INFO] [stderr]     Checking tempfile v3.24.0
[INFO] [stderr]     Checking rusty-fork v0.3.1
[INFO] [stderr]     Checking proptest v1.9.0
[INFO] [stderr]    Compiling wasm-bindgen-macro-support v0.2.108
[INFO] [stderr]    Compiling thiserror-impl v2.0.18
[INFO] [stderr]    Compiling serde_derive v1.0.228
[INFO] [stderr]     Checking thiserror v2.0.18
[INFO] [stderr]     Checking chromatiq-core v0.1.0 (/opt/rustwide/workdir/crates/chromatiq-core)
[INFO] [stdout] warning: unused variable: `bin`
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:270:9
[INFO] [stdout]     |
[INFO] [stdout] 270 |     let bin = bin_mq_nl >> 16;
[INFO] [stdout]     |         ^^^ help: if this is intentional, prefix it with an underscore: `_bin`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `col`
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:156:25
[INFO] [stdout]     |
[INFO] [stdout] 156 |             if let Some(col) = &column {
[INFO] [stdout]     |                         ^^^ help: if this is intentional, prefix it with an underscore: `_col`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:256:13
[INFO] [stdout]     |
[INFO] [stdout] 256 |         let mut read_offset = 0;
[INFO] [stdout]     |             ----^^^^^^^^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `read_offset`
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:256:13
[INFO] [stdout]     |
[INFO] [stdout] 256 |         let mut read_offset = 0;
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_read_offset`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `id`
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:282:9
[INFO] [stdout]     |
[INFO] [stdout] 282 |     let id = fields[2].to_string();
[INFO] [stdout]     |         ^^ help: if this is intentional, prefix it with an underscore: `_id`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: irrefutable `if let` pattern
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:367:12
[INFO] [stdout]     |
[INFO] [stdout] 367 |         if let Ok(ad_str) = fields[3].parse::<String>() {
[INFO] [stdout]     |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this pattern will always match, so the `if let` is useless
[INFO] [stdout]     = help: consider replacing the `if let` with a `let`
[INFO] [stdout]     = note: `#[warn(irrefutable_let_patterns)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: struct `ReferenceSequence` is never constructed
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:392:12
[INFO] [stdout]     |
[INFO] [stdout] 392 | pub struct ReferenceSequence {
[INFO] [stdout]     |            ^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: struct `HighResCoverage` is never constructed
[INFO] [stdout]    --> crates/chromatiq-core/src/coverage.rs:237:12
[INFO] [stdout]     |
[INFO] [stdout] 237 | pub struct HighResCoverage {
[INFO] [stdout]     |            ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `new`, `add_read`, and `get_coverage` are never used
[INFO] [stdout]    --> crates/chromatiq-core/src/coverage.rs:248:12
[INFO] [stdout]     |
[INFO] [stdout] 246 | impl HighResCoverage {
[INFO] [stdout]     | -------------------- associated items in this implementation
[INFO] [stdout] 247 |     /// Create a new high-resolution coverage tracker
[INFO] [stdout] 248 |     pub fn new(ref_id: i32, ref_name: String, start: i32, end: i32) -> Self {
[INFO] [stdout]     |            ^^^
[INFO] [stdout] ...
[INFO] [stdout] 260 |     pub fn add_read(&mut self, read: &BamRecord) {
[INFO] [stdout]     |            ^^^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 279 |     pub fn get_coverage(&self, pos: i32) -> u32 {
[INFO] [stdout]     |            ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: field `path` is never read
[INFO] [stdout]   --> crates/chromatiq-core/src/indexed_bam.rs:52:5
[INFO] [stdout]    |
[INFO] [stdout] 49 | pub struct IndexedBamReader {
[INFO] [stdout]    |            ---------------- field in this struct
[INFO] [stdout] ...
[INFO] [stdout] 52 |     path: String,
[INFO] [stdout]    |     ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: fields `ref_name`, `chunk_offsets`, `current_chunk`, `chunk_file_pos`, and `last_alignment_start` are never read
[INFO] [stdout]    --> crates/chromatiq-core/src/indexed_bam.rs:264:5
[INFO] [stdout]     |
[INFO] [stdout] 261 | pub struct RegionIterator<'a> {
[INFO] [stdout]     |            -------------- fields in this struct
[INFO] [stdout] ...
[INFO] [stdout] 264 |     ref_name: String,
[INFO] [stdout]     |     ^^^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 267 |     chunk_offsets: Vec<(i64, i64)>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^
[INFO] [stdout] 268 |     current_chunk: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^
[INFO] [stdout] 269 |     chunk_file_pos: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^
[INFO] [stdout] 270 |     last_alignment_start: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: enum `Strand` is never used
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:252:10
[INFO] [stdout]     |
[INFO] [stdout] 252 | pub enum Strand {
[INFO] [stdout]     |          ^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `symbol` and `from_char` are never used
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:261:12
[INFO] [stdout]     |
[INFO] [stdout] 259 | impl Strand {
[INFO] [stdout]     | ----------- associated items in this implementation
[INFO] [stdout] 260 |     /// Get the symbol for this strand
[INFO] [stdout] 261 |     pub fn symbol(&self) -> char {
[INFO] [stdout]     |            ^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 269 |     pub fn from_char(c: char) -> Option<Self> {
[INFO] [stdout]     |            ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: struct `Position` is never constructed
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:280:12
[INFO] [stdout]     |
[INFO] [stdout] 280 | pub struct Position {
[INFO] [stdout]     |            ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `new`, `forward`, `reverse`, and `one_based` are never used
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:291:12
[INFO] [stdout]     |
[INFO] [stdout] 289 | impl Position {
[INFO] [stdout]     | ------------- associated items in this implementation
[INFO] [stdout] 290 |     /// Create a new position
[INFO] [stdout] 291 |     pub fn new(reference: String, position: i32, strand: Strand) -> Self {
[INFO] [stdout]     |            ^^^
[INFO] [stdout] ...
[INFO] [stdout] 300 |     pub fn forward(reference: String, position: i32) -> Self {
[INFO] [stdout]     |            ^^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 305 |     pub fn reverse(reference: String, position: i32) -> Self {
[INFO] [stdout]     |            ^^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 310 |     pub fn one_based(&self) -> i32 {
[INFO] [stdout]     |            ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:21:5
[INFO] [stdout]    |
[INFO] [stdout] 21 |     pub fn is_paired(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout] note: the lint level is defined here
[INFO] [stdout]   --> crates/chromatiq-core/src/lib.rs:16:9
[INFO] [stdout]    |
[INFO] [stdout] 16 | #![warn(missing_docs)]
[INFO] [stdout]    |         ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 |     pub fn is_proper_pair(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:27:5
[INFO] [stdout]    |
[INFO] [stdout] 27 |     pub fn is_unmapped(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:30:5
[INFO] [stdout]    |
[INFO] [stdout] 30 |     pub fn is_mate_unmapped(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:33:5
[INFO] [stdout]    |
[INFO] [stdout] 33 |     pub fn is_reverse(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:36:5
[INFO] [stdout]    |
[INFO] [stdout] 36 |     pub fn is_mate_reverse(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:39:5
[INFO] [stdout]    |
[INFO] [stdout] 39 |     pub fn is_first(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:42:5
[INFO] [stdout]    |
[INFO] [stdout] 42 |     pub fn is_second(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:45:5
[INFO] [stdout]    |
[INFO] [stdout] 45 |     pub fn is_secondary(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:48:5
[INFO] [stdout]    |
[INFO] [stdout] 48 |     pub fn is_duplicate(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:51:5
[INFO] [stdout]    |
[INFO] [stdout] 51 |     pub fn is_supplementary(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:59:5
[INFO] [stdout]    |
[INFO] [stdout] 59 |     Match,
[INFO] [stdout]    |     ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:60:5
[INFO] [stdout]    |
[INFO] [stdout] 60 |     SeqMatch,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:61:5
[INFO] [stdout]    |
[INFO] [stdout] 61 |     SeqMismatch,
[INFO] [stdout]    |     ^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:62:5
[INFO] [stdout]    |
[INFO] [stdout] 62 |     Deletion,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:63:5
[INFO] [stdout]    |
[INFO] [stdout] 63 |     Skipped,
[INFO] [stdout]    |     ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:64:5
[INFO] [stdout]    |
[INFO] [stdout] 64 |     SoftClip,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:65:5
[INFO] [stdout]    |
[INFO] [stdout] 65 |     HardClip,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:66:5
[INFO] [stdout]    |
[INFO] [stdout] 66 |     Padding,
[INFO] [stdout]    |     ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:67:5
[INFO] [stdout]    |
[INFO] [stdout] 67 |     Insertion,
[INFO] [stdout]    |     ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:89:1
[INFO] [stdout]    |
[INFO] [stdout] 89 | pub struct CigarOperation {
[INFO] [stdout]    | ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:90:5
[INFO] [stdout]    |
[INFO] [stdout] 90 |     pub op: CigarOp,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:91:5
[INFO] [stdout]    |
[INFO] [stdout] 91 |     pub length: u32,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:95:1
[INFO] [stdout]    |
[INFO] [stdout] 95 | pub struct BamRecord {
[INFO] [stdout]    | ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:96:5
[INFO] [stdout]    |
[INFO] [stdout] 96 |     pub ref_id: i32,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:97:5
[INFO] [stdout]    |
[INFO] [stdout] 97 |     pub pos: i32,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:98:5
[INFO] [stdout]    |
[INFO] [stdout] 98 |     pub name: String,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:99:5
[INFO] [stdout]    |
[INFO] [stdout] 99 |     pub mapq: u8,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:100:5
[INFO] [stdout]     |
[INFO] [stdout] 100 |     pub flags: ReadFlags,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:101:5
[INFO] [stdout]     |
[INFO] [stdout] 101 |     pub cigar: Vec<CigarOperation>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:102:5
[INFO] [stdout]     |
[INFO] [stdout] 102 |     pub mate_ref_id: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:103:5
[INFO] [stdout]     |
[INFO] [stdout] 103 |     pub mate_pos: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:104:5
[INFO] [stdout]     |
[INFO] [stdout] 104 |     pub tlen: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:105:5
[INFO] [stdout]     |
[INFO] [stdout] 105 |     pub sequence: Vec<u8>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:106:5
[INFO] [stdout]     |
[INFO] [stdout] 106 |     pub quality: Vec<u8>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:107:5
[INFO] [stdout]     |
[INFO] [stdout] 107 |     pub aux_data: Vec<AuxField>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:111:5
[INFO] [stdout]     |
[INFO] [stdout] 111 |     pub fn end_pos(&self) -> i32 {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:128:5
[INFO] [stdout]     |
[INFO] [stdout] 128 |     pub fn overlaps(&self, pos: i32) -> bool {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:131:5
[INFO] [stdout]     |
[INFO] [stdout] 131 |     pub fn seq_len(&self) -> usize {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:164:1
[INFO] [stdout]     |
[INFO] [stdout] 164 | pub struct ReferenceInfo {
[INFO] [stdout]     | ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:165:5
[INFO] [stdout]     |
[INFO] [stdout] 165 |     pub name: String,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:166:5
[INFO] [stdout]     |
[INFO] [stdout] 166 |     pub length: u32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:169:1
[INFO] [stdout]     |
[INFO] [stdout] 169 | pub struct BamReader {
[INFO] [stdout]     | ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:171:5
[INFO] [stdout]     |
[INFO] [stdout] 171 |     pub header: BamHeader,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for an associated function
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:177:5
[INFO] [stdout]     |
[INFO] [stdout] 177 |     pub fn new(path: &std::path::Path) -> CoreResult<Self> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:233:5
[INFO] [stdout]     |
[INFO] [stdout] 233 |     pub fn next_record(&mut self) -> Option<CoreResult<BamRecord>> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:245:5
[INFO] [stdout]     |
[INFO] [stdout] 245 |     pub fn get_reference(&self, ref_id: i32) -> Option<&ReferenceInfo> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:253:5
[INFO] [stdout]     |
[INFO] [stdout] 253 |     pub fn reference_names(&self) -> Vec<&str> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: hiding a lifetime that's elided elsewhere is confusing
[INFO] [stdout]   --> crates/chromatiq-core/src/indexed_bam.rs:83:18
[INFO] [stdout]    |
[INFO] [stdout] 83 |     pub fn fetch(&mut self, ref_name: &str, start: i32, end: i32) -> CoreResult<RegionIterator> {
[INFO] [stdout]    |                  ^^^^^^^^^ the lifetime is elided here                          ^^^^^^^^^^^^^^ the same lifetime is hidden here
[INFO] [stdout]    |
[INFO] [stdout]    = help: the same lifetime is referred to in inconsistent ways, making the signature confusing
[INFO] [stdout]    = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default
[INFO] [stdout] help: use `'_` for type paths
[INFO] [stdout]    |
[INFO] [stdout] 83 |     pub fn fetch(&mut self, ref_name: &str, start: i32, end: i32) -> CoreResult<RegionIterator<'_>> {
[INFO] [stdout]    |                                                                                               ++++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:395:5
[INFO] [stdout]     |
[INFO] [stdout] 395 |     pub position: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:396:5
[INFO] [stdout]     |
[INFO] [stdout] 396 |     pub ref_base: u8,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:397:5
[INFO] [stdout]     |
[INFO] [stdout] 397 |     pub alt_base: u8,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:398:5
[INFO] [stdout]     |
[INFO] [stdout] 398 |     pub depth: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:399:5
[INFO] [stdout]     |
[INFO] [stdout] 399 |     pub alt_depth: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:400:5
[INFO] [stdout]     |
[INFO] [stdout] 400 |     pub frequency: f32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:401:5
[INFO] [stdout]     |
[INFO] [stdout] 401 |     pub quality: f32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:65:5
[INFO] [stdout]    |
[INFO] [stdout] 65 |     pub fileformat: String,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:66:5
[INFO] [stdout]    |
[INFO] [stdout] 66 |     pub source: String,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:67:5
[INFO] [stdout]    |
[INFO] [stdout] 67 |     pub references: Vec<VcfReference>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:68:5
[INFO] [stdout]    |
[INFO] [stdout] 68 |     pub contigs: Vec<VcfContig>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:69:5
[INFO] [stdout]    |
[INFO] [stdout] 69 |     pub samples: Vec<String>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:70:5
[INFO] [stdout]    |
[INFO] [stdout] 70 |     pub filters: Vec<VcfFilter>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:71:5
[INFO] [stdout]    |
[INFO] [stdout] 71 |     pub infos: Vec<VcfInfoDef>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:72:5
[INFO] [stdout]    |
[INFO] [stdout] 72 |     pub formats: Vec<VcfFormatDef>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:458:5
[INFO] [stdout]     |
[INFO] [stdout] 458 |     pub total_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:459:5
[INFO] [stdout]     |
[INFO] [stdout] 459 |     pub snvs: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:460:5
[INFO] [stdout]     |
[INFO] [stdout] 460 |     pub insertions: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:461:5
[INFO] [stdout]     |
[INFO] [stdout] 461 |     pub deletions: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:462:5
[INFO] [stdout]     |
[INFO] [stdout] 462 |     pub mnps: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:463:5
[INFO] [stdout]     |
[INFO] [stdout] 463 |     pub passed_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:464:5
[INFO] [stdout]     |
[INFO] [stdout] 464 |     pub failed_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:465:5
[INFO] [stdout]     |
[INFO] [stdout] 465 |     pub high_quality_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:466:5
[INFO] [stdout]     |
[INFO] [stdout] 466 |     pub mean_quality: f32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `bin`
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:270:9
[INFO] [stdout]     |
[INFO] [stdout] 270 |     let bin = bin_mq_nl >> 16;
[INFO] [stdout]     |         ^^^ help: if this is intentional, prefix it with an underscore: `_bin`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `col`
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:156:25
[INFO] [stdout]     |
[INFO] [stdout] 156 |             if let Some(col) = &column {
[INFO] [stdout]     |                         ^^^ help: if this is intentional, prefix it with an underscore: `_col`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:256:13
[INFO] [stdout]     |
[INFO] [stdout] 256 |         let mut read_offset = 0;
[INFO] [stdout]     |             ----^^^^^^^^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `read_offset`
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:256:13
[INFO] [stdout]     |
[INFO] [stdout] 256 |         let mut read_offset = 0;
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_read_offset`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `id`
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:282:9
[INFO] [stdout]     |
[INFO] [stdout] 282 |     let id = fields[2].to_string();
[INFO] [stdout]     |         ^^ help: if this is intentional, prefix it with an underscore: `_id`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: irrefutable `if let` pattern
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:367:12
[INFO] [stdout]     |
[INFO] [stdout] 367 |         if let Ok(ad_str) = fields[3].parse::<String>() {
[INFO] [stdout]     |            ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this pattern will always match, so the `if let` is useless
[INFO] [stdout]     = help: consider replacing the `if let` with a `let`
[INFO] [stdout]     = note: `#[warn(irrefutable_let_patterns)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: struct `ReferenceSequence` is never constructed
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:392:12
[INFO] [stdout]     |
[INFO] [stdout] 392 | pub struct ReferenceSequence {
[INFO] [stdout]     |            ^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: struct `HighResCoverage` is never constructed
[INFO] [stdout]    --> crates/chromatiq-core/src/coverage.rs:237:12
[INFO] [stdout]     |
[INFO] [stdout] 237 | pub struct HighResCoverage {
[INFO] [stdout]     |            ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `new`, `add_read`, and `get_coverage` are never used
[INFO] [stdout]    --> crates/chromatiq-core/src/coverage.rs:248:12
[INFO] [stdout]     |
[INFO] [stdout] 246 | impl HighResCoverage {
[INFO] [stdout]     | -------------------- associated items in this implementation
[INFO] [stdout] 247 |     /// Create a new high-resolution coverage tracker
[INFO] [stdout] 248 |     pub fn new(ref_id: i32, ref_name: String, start: i32, end: i32) -> Self {
[INFO] [stdout]     |            ^^^
[INFO] [stdout] ...
[INFO] [stdout] 260 |     pub fn add_read(&mut self, read: &BamRecord) {
[INFO] [stdout]     |            ^^^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 279 |     pub fn get_coverage(&self, pos: i32) -> u32 {
[INFO] [stdout]     |            ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: field `path` is never read
[INFO] [stdout]   --> crates/chromatiq-core/src/indexed_bam.rs:52:5
[INFO] [stdout]    |
[INFO] [stdout] 49 | pub struct IndexedBamReader {
[INFO] [stdout]    |            ---------------- field in this struct
[INFO] [stdout] ...
[INFO] [stdout] 52 |     path: String,
[INFO] [stdout]    |     ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: fields `ref_name`, `chunk_offsets`, `current_chunk`, `chunk_file_pos`, and `last_alignment_start` are never read
[INFO] [stdout]    --> crates/chromatiq-core/src/indexed_bam.rs:264:5
[INFO] [stdout]     |
[INFO] [stdout] 261 | pub struct RegionIterator<'a> {
[INFO] [stdout]     |            -------------- fields in this struct
[INFO] [stdout] ...
[INFO] [stdout] 264 |     ref_name: String,
[INFO] [stdout]     |     ^^^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 267 |     chunk_offsets: Vec<(i64, i64)>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^
[INFO] [stdout] 268 |     current_chunk: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^
[INFO] [stdout] 269 |     chunk_file_pos: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^
[INFO] [stdout] 270 |     last_alignment_start: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variant `Reverse` is never constructed
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:256:5
[INFO] [stdout]     |
[INFO] [stdout] 252 | pub enum Strand {
[INFO] [stdout]     |          ------ variant in this enum
[INFO] [stdout] ...
[INFO] [stdout] 256 |     Reverse,
[INFO] [stdout]     |     ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `Strand` has derived impls for the traits `Clone` and `Debug`, but these are intentionally ignored during dead code analysis
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `symbol` and `from_char` are never used
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:261:12
[INFO] [stdout]     |
[INFO] [stdout] 259 | impl Strand {
[INFO] [stdout]     | ----------- associated items in this implementation
[INFO] [stdout] 260 |     /// Get the symbol for this strand
[INFO] [stdout] 261 |     pub fn symbol(&self) -> char {
[INFO] [stdout]     |            ^^^^^^
[INFO] [stdout] ...
[INFO] [stdout] 269 |     pub fn from_char(c: char) -> Option<Self> {
[INFO] [stdout]     |            ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated function `reverse` is never used
[INFO] [stdout]    --> crates/chromatiq-core/src/reference.rs:305:12
[INFO] [stdout]     |
[INFO] [stdout] 289 | impl Position {
[INFO] [stdout]     | ------------- associated function in this implementation
[INFO] [stdout] ...
[INFO] [stdout] 305 |     pub fn reverse(reference: String, position: i32) -> Self {
[INFO] [stdout]     |            ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:21:5
[INFO] [stdout]    |
[INFO] [stdout] 21 |     pub fn is_paired(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout] note: the lint level is defined here
[INFO] [stdout]   --> crates/chromatiq-core/src/lib.rs:16:9
[INFO] [stdout]    |
[INFO] [stdout] 16 | #![warn(missing_docs)]
[INFO] [stdout]    |         ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 |     pub fn is_proper_pair(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:27:5
[INFO] [stdout]    |
[INFO] [stdout] 27 |     pub fn is_unmapped(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:30:5
[INFO] [stdout]    |
[INFO] [stdout] 30 |     pub fn is_mate_unmapped(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:33:5
[INFO] [stdout]    |
[INFO] [stdout] 33 |     pub fn is_reverse(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:36:5
[INFO] [stdout]    |
[INFO] [stdout] 36 |     pub fn is_mate_reverse(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:39:5
[INFO] [stdout]    |
[INFO] [stdout] 39 |     pub fn is_first(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:42:5
[INFO] [stdout]    |
[INFO] [stdout] 42 |     pub fn is_second(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:45:5
[INFO] [stdout]    |
[INFO] [stdout] 45 |     pub fn is_secondary(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:48:5
[INFO] [stdout]    |
[INFO] [stdout] 48 |     pub fn is_duplicate(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:51:5
[INFO] [stdout]    |
[INFO] [stdout] 51 |     pub fn is_supplementary(self) -> bool {
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:59:5
[INFO] [stdout]    |
[INFO] [stdout] 59 |     Match,
[INFO] [stdout]    |     ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:60:5
[INFO] [stdout]    |
[INFO] [stdout] 60 |     SeqMatch,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:61:5
[INFO] [stdout]    |
[INFO] [stdout] 61 |     SeqMismatch,
[INFO] [stdout]    |     ^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:62:5
[INFO] [stdout]    |
[INFO] [stdout] 62 |     Deletion,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:63:5
[INFO] [stdout]    |
[INFO] [stdout] 63 |     Skipped,
[INFO] [stdout]    |     ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:64:5
[INFO] [stdout]    |
[INFO] [stdout] 64 |     SoftClip,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:65:5
[INFO] [stdout]    |
[INFO] [stdout] 65 |     HardClip,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:66:5
[INFO] [stdout]    |
[INFO] [stdout] 66 |     Padding,
[INFO] [stdout]    |     ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a variant
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:67:5
[INFO] [stdout]    |
[INFO] [stdout] 67 |     Insertion,
[INFO] [stdout]    |     ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:89:1
[INFO] [stdout]    |
[INFO] [stdout] 89 | pub struct CigarOperation {
[INFO] [stdout]    | ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:90:5
[INFO] [stdout]    |
[INFO] [stdout] 90 |     pub op: CigarOp,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:91:5
[INFO] [stdout]    |
[INFO] [stdout] 91 |     pub length: u32,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:95:1
[INFO] [stdout]    |
[INFO] [stdout] 95 | pub struct BamRecord {
[INFO] [stdout]    | ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:96:5
[INFO] [stdout]    |
[INFO] [stdout] 96 |     pub ref_id: i32,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:97:5
[INFO] [stdout]    |
[INFO] [stdout] 97 |     pub pos: i32,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:98:5
[INFO] [stdout]    |
[INFO] [stdout] 98 |     pub name: String,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/bam.rs:99:5
[INFO] [stdout]    |
[INFO] [stdout] 99 |     pub mapq: u8,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:100:5
[INFO] [stdout]     |
[INFO] [stdout] 100 |     pub flags: ReadFlags,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:101:5
[INFO] [stdout]     |
[INFO] [stdout] 101 |     pub cigar: Vec<CigarOperation>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:102:5
[INFO] [stdout]     |
[INFO] [stdout] 102 |     pub mate_ref_id: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:103:5
[INFO] [stdout]     |
[INFO] [stdout] 103 |     pub mate_pos: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:104:5
[INFO] [stdout]     |
[INFO] [stdout] 104 |     pub tlen: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:105:5
[INFO] [stdout]     |
[INFO] [stdout] 105 |     pub sequence: Vec<u8>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:106:5
[INFO] [stdout]     |
[INFO] [stdout] 106 |     pub quality: Vec<u8>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:107:5
[INFO] [stdout]     |
[INFO] [stdout] 107 |     pub aux_data: Vec<AuxField>,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:111:5
[INFO] [stdout]     |
[INFO] [stdout] 111 |     pub fn end_pos(&self) -> i32 {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:128:5
[INFO] [stdout]     |
[INFO] [stdout] 128 |     pub fn overlaps(&self, pos: i32) -> bool {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:131:5
[INFO] [stdout]     |
[INFO] [stdout] 131 |     pub fn seq_len(&self) -> usize {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:164:1
[INFO] [stdout]     |
[INFO] [stdout] 164 | pub struct ReferenceInfo {
[INFO] [stdout]     | ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:165:5
[INFO] [stdout]     |
[INFO] [stdout] 165 |     pub name: String,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:166:5
[INFO] [stdout]     |
[INFO] [stdout] 166 |     pub length: u32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:169:1
[INFO] [stdout]     |
[INFO] [stdout] 169 | pub struct BamReader {
[INFO] [stdout]     | ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:171:5
[INFO] [stdout]     |
[INFO] [stdout] 171 |     pub header: BamHeader,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for an associated function
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:177:5
[INFO] [stdout]     |
[INFO] [stdout] 177 |     pub fn new(path: &std::path::Path) -> CoreResult<Self> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:233:5
[INFO] [stdout]     |
[INFO] [stdout] 233 |     pub fn next_record(&mut self) -> Option<CoreResult<BamRecord>> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:245:5
[INFO] [stdout]     |
[INFO] [stdout] 245 |     pub fn get_reference(&self, ref_id: i32) -> Option<&ReferenceInfo> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a method
[INFO] [stdout]    --> crates/chromatiq-core/src/bam.rs:253:5
[INFO] [stdout]     |
[INFO] [stdout] 253 |     pub fn reference_names(&self) -> Vec<&str> {
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: hiding a lifetime that's elided elsewhere is confusing
[INFO] [stdout]   --> crates/chromatiq-core/src/indexed_bam.rs:83:18
[INFO] [stdout]    |
[INFO] [stdout] 83 |     pub fn fetch(&mut self, ref_name: &str, start: i32, end: i32) -> CoreResult<RegionIterator> {
[INFO] [stdout]    |                  ^^^^^^^^^ the lifetime is elided here                          ^^^^^^^^^^^^^^ the same lifetime is hidden here
[INFO] [stdout]    |
[INFO] [stdout]    = help: the same lifetime is referred to in inconsistent ways, making the signature confusing
[INFO] [stdout]    = note: `#[warn(mismatched_lifetime_syntaxes)]` on by default
[INFO] [stdout] help: use `'_` for type paths
[INFO] [stdout]    |
[INFO] [stdout] 83 |     pub fn fetch(&mut self, ref_name: &str, start: i32, end: i32) -> CoreResult<RegionIterator<'_>> {
[INFO] [stdout]    |                                                                                               ++++
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:395:5
[INFO] [stdout]     |
[INFO] [stdout] 395 |     pub position: i32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:396:5
[INFO] [stdout]     |
[INFO] [stdout] 396 |     pub ref_base: u8,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:397:5
[INFO] [stdout]     |
[INFO] [stdout] 397 |     pub alt_base: u8,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:398:5
[INFO] [stdout]     |
[INFO] [stdout] 398 |     pub depth: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:399:5
[INFO] [stdout]     |
[INFO] [stdout] 399 |     pub alt_depth: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:400:5
[INFO] [stdout]     |
[INFO] [stdout] 400 |     pub frequency: f32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/pileup.rs:401:5
[INFO] [stdout]     |
[INFO] [stdout] 401 |     pub quality: f32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:65:5
[INFO] [stdout]    |
[INFO] [stdout] 65 |     pub fileformat: String,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:66:5
[INFO] [stdout]    |
[INFO] [stdout] 66 |     pub source: String,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:67:5
[INFO] [stdout]    |
[INFO] [stdout] 67 |     pub references: Vec<VcfReference>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:68:5
[INFO] [stdout]    |
[INFO] [stdout] 68 |     pub contigs: Vec<VcfContig>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:69:5
[INFO] [stdout]    |
[INFO] [stdout] 69 |     pub samples: Vec<String>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:70:5
[INFO] [stdout]    |
[INFO] [stdout] 70 |     pub filters: Vec<VcfFilter>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:71:5
[INFO] [stdout]    |
[INFO] [stdout] 71 |     pub infos: Vec<VcfInfoDef>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]   --> crates/chromatiq-core/src/vcf.rs:72:5
[INFO] [stdout]    |
[INFO] [stdout] 72 |     pub formats: Vec<VcfFormatDef>,
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:458:5
[INFO] [stdout]     |
[INFO] [stdout] 458 |     pub total_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:459:5
[INFO] [stdout]     |
[INFO] [stdout] 459 |     pub snvs: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:460:5
[INFO] [stdout]     |
[INFO] [stdout] 460 |     pub insertions: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:461:5
[INFO] [stdout]     |
[INFO] [stdout] 461 |     pub deletions: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:462:5
[INFO] [stdout]     |
[INFO] [stdout] 462 |     pub mnps: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:463:5
[INFO] [stdout]     |
[INFO] [stdout] 463 |     pub passed_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:464:5
[INFO] [stdout]     |
[INFO] [stdout] 464 |     pub failed_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:465:5
[INFO] [stdout]     |
[INFO] [stdout] 465 |     pub high_quality_variants: usize,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: missing documentation for a struct field
[INFO] [stdout]    --> crates/chromatiq-core/src/vcf.rs:466:5
[INFO] [stdout]     |
[INFO] [stdout] 466 |     pub mean_quality: f32,
[INFO] [stdout]     |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]    Compiling wasm-bindgen-macro v0.2.108
[INFO] [stderr]     Checking serde v1.0.228
[INFO] [stderr]     Checking js-sys v0.3.85
[INFO] [stderr]     Checking console_error_panic_hook v0.1.7
[INFO] [stderr]     Checking web-sys v0.3.85
[INFO] [stderr]     Checking serde-wasm-bindgen v0.6.5
[INFO] [stderr]     Checking chromatiq-wasm v0.1.0 (/opt/rustwide/workdir/crates/chromatiq-wasm)
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 27.39s
[INFO] running `Command { std: "docker" "inspect" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940", kill_on_drop: false }`
[INFO] [stdout] cb8c6111bdca0d5433959d836d5e921ddd609ac04b77d3c494b7628e8afb5940
