[INFO] cloning repository https://github.com/avalind/ossler
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/avalind/ossler" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Favalind%2Fossler", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Favalind%2Fossler'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 1800a6afdb9015433a8a92073db81faa9525e667
[INFO] building avalind/ossler against try#58b1b3c5342a414c161338871f8004258ccef2a7 for pr-149937
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Favalind%2Fossler" "/workspace/builds/worker-7-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-7-tc2/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/avalind/ossler
[INFO] finished tweaking git repo https://github.com/avalind/ossler
[INFO] tweaked toml for git repo https://github.com/avalind/ossler written to /workspace/builds/worker-7-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/avalind/ossler on toolchain 58b1b3c5342a414c161338871f8004258ccef2a7
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+58b1b3c5342a414c161338871f8004258ccef2a7" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/avalind/ossler 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" "+58b1b3c5342a414c161338871f8004258ccef2a7" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
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[INFO] [stderr]    Compiling rust-htslib v0.38.2
[INFO] [stderr]    Compiling ossler v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `std::collections::HashMap`
[INFO] [stdout]  --> src/main.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 2 | use std::collections::HashMap;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `*` and `TypeDescriptor as TD`
[INFO] [stdout]  --> src/main.rs:6:19
[INFO] [stdout]   |
[INFO] [stdout] 6 | use hdf5::types::{TypeDescriptor as TD, *};
[INFO] [stdout]   |                   ^^^^^^^^^^^^^^^^^^^^  ^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `Datatype`, `File`, and `H5Type`
[INFO] [stdout]  --> src/main.rs:7:12
[INFO] [stdout]   |
[INFO] [stdout] 7 | use hdf5::{File, H5Type, Datatype};
[INFO] [stdout]   |            ^^^^  ^^^^^^  ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `ndarray::Array1`
[INFO] [stdout]  --> src/main.rs:8:5
[INFO] [stdout]   |
[INFO] [stdout] 8 | use ndarray::Array1;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `csv::ReaderBuilder`
[INFO] [stdout]  --> src/main.rs:9:5
[INFO] [stdout]   |
[INFO] [stdout] 9 | use csv::ReaderBuilder;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::collections::HashMap`
[INFO] [stdout]  --> src/record/snp.rs:1:5
[INFO] [stdout]   |
[INFO] [stdout] 1 | use std::collections::HashMap;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `ndarray::Array1`
[INFO] [stdout]  --> src/record/snp.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 2 | use ndarray::Array1;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `File`
[INFO] [stdout]  --> src/record/oschp.rs:2:12
[INFO] [stdout]   |
[INFO] [stdout] 2 | use hdf5::{File, H5Type};
[INFO] [stdout]   |            ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `hdf5::types::VarLenAscii`
[INFO] [stdout]  --> src/record/oschp.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use hdf5::types::VarLenAscii;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `serde::Deserialize`
[INFO] [stdout]  --> src/record/manifest.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use serde::Deserialize;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `segments`
[INFO] [stdout]   --> src/main.rs:27:9
[INFO] [stdout]    |
[INFO] [stdout] 27 |     let segments = record::oschp::CopyNumberSegment::from_oschp_file(&handle)?;
[INFO] [stdout]    |         ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_segments`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `loh`
[INFO] [stdout]   --> src/main.rs:28:9
[INFO] [stdout]    |
[INFO] [stdout] 28 |     let loh = record::oschp::LOHSegment::from_oschp_file(&handle)?;   
[INFO] [stdout]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_loh`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `tab`
[INFO] [stdout]   --> src/main.rs:30:9
[INFO] [stdout]    |
[INFO] [stdout] 30 |     let tab = transform::utils::build_chrom_table(&chroms);
[INFO] [stdout]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_tab`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: multiple fields are never read
[INFO] [stdout]   --> src/record/snp.rs:6:5
[INFO] [stdout]    |
[INFO] [stdout]  5 | pub struct Marker {
[INFO] [stdout]    |            ------ fields in this struct
[INFO] [stdout]  6 |     chrom: u8,
[INFO] [stdout]    |     ^^^^^
[INFO] [stdout]  7 |     position: u32,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout]  8 |     lrr: f32,
[INFO] [stdout]    |     ^^^
[INFO] [stdout]  9 |     weighted_lrr: f32,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 10 |     allelic_diff: f32,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 11 |     baf: f32,
[INFO] [stdout]    |     ^^^
[INFO] [stdout] 12 |     call: u8,
[INFO] [stdout]    |     ^^^^
[INFO] [stdout] 13 |     conf: f32,
[INFO] [stdout]    |     ^^^^
[INFO] [stdout] 14 |     a_signal: f32,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 15 |     b_signal: f32,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 16 |     probe_name: String,
[INFO] [stdout]    |     ^^^^^^^^^^
[INFO] [stdout] 17 |     a_allele: u8,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 18 |     b_allele: u8,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `Marker` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis
[INFO] [stdout]    = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `new` and `to_vcf_record` are never used
[INFO] [stdout]   --> src/record/snp.rs:22:12
[INFO] [stdout]    |
[INFO] [stdout] 21 | impl Marker {
[INFO] [stdout]    | ----------- associated items in this implementation
[INFO] [stdout] 22 |     pub fn new() -> Marker {
[INFO] [stdout]    |            ^^^
[INFO] [stdout] ...
[INFO] [stdout] 65 |     pub fn to_vcf_record(&self) {
[INFO] [stdout]    |            ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:9:10
[INFO] [stdout]    |
[INFO] [stdout]  9 | #[derive(H5Type, Clone, Debug, Copy)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_Call`
[INFO] [stdout] 10 | #[repr(C)]
[INFO] [stdout] 11 | pub struct Call {
[INFO] [stdout]    |            ---- `Call` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: `#[warn(non_local_definitions)]` on by default
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:29:10
[INFO] [stdout]    |
[INFO] [stdout] 29 | #[derive(H5Type, Clone, Debug, Copy)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_CopyNumber`
[INFO] [stdout] 30 | #[repr(C)]
[INFO] [stdout] 31 | pub struct CopyNumber {
[INFO] [stdout]    |            ---------- `CopyNumber` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:47:10
[INFO] [stdout]    |
[INFO] [stdout] 47 | #[derive(H5Type, Clone, Debug, Copy)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_AllelicData`
[INFO] [stdout] 48 | #[repr(C)]
[INFO] [stdout] 49 | pub struct AllelicData {
[INFO] [stdout]    |            ----------- `AllelicData` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:63:10
[INFO] [stdout]    |
[INFO] [stdout] 63 | #[derive(H5Type, Clone, Debug)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_CopyNumberSegment`
[INFO] [stdout] 64 | #[repr(C)]
[INFO] [stdout] 65 | pub struct CopyNumberSegment {
[INFO] [stdout]    |            ----------------- `CopyNumberSegment` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:84:10
[INFO] [stdout]    |
[INFO] [stdout] 84 | #[derive(H5Type, Clone, Debug)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_LOHSegment`
[INFO] [stdout] 85 | #[repr(C)]
[INFO] [stdout] 86 | pub struct LOHSegment {
[INFO] [stdout]    |            ---------- `LOHSegment` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]    --> src/record/oschp.rs:104:10
[INFO] [stdout]     |
[INFO] [stdout] 104 | #[derive(H5Type, Clone, Debug)]
[INFO] [stdout]     |          ^-----
[INFO] [stdout]     |          |
[INFO] [stdout]     |          `H5Type` is not local
[INFO] [stdout]     |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_ChromosomeSummary`
[INFO] [stdout] 105 | #[repr(C)]
[INFO] [stdout] 106 | pub struct ChromosomeSummary {
[INFO] [stdout]     |            ----------------- `ChromosomeSummary` is not local
[INFO] [stdout]     |
[INFO] [stdout]     = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]     = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]     = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]     = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]     = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 44.12s
[INFO] running `Command { std: "docker" "inspect" "aafcdb8bca253a7cd9918731d91f91b383fd813d5b996e47b1805e427a239a85", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "aafcdb8bca253a7cd9918731d91f91b383fd813d5b996e47b1805e427a239a85", kill_on_drop: false }`
[INFO] [stdout] aafcdb8bca253a7cd9918731d91f91b383fd813d5b996e47b1805e427a239a85
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc2/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@sha256:845e597a41426bbf2703be69acdb67d10b6de511142d05cba7bbe119c898b2c7" "/opt/rustwide/cargo-home/bin/cargo" "+58b1b3c5342a414c161338871f8004258ccef2a7" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 5e3b678f5a86dcbee6f66405ff194fb886a17c87e7b649e7b30cedf9123d97dd
[INFO] running `Command { std: "docker" "start" "-a" "5e3b678f5a86dcbee6f66405ff194fb886a17c87e7b649e7b30cedf9123d97dd", kill_on_drop: false }`
[INFO] [stderr]    Compiling ossler v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `std::collections::HashMap`
[INFO] [stdout]  --> src/main.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 2 | use std::collections::HashMap;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `*` and `TypeDescriptor as TD`
[INFO] [stdout]  --> src/main.rs:6:19
[INFO] [stdout]   |
[INFO] [stdout] 6 | use hdf5::types::{TypeDescriptor as TD, *};
[INFO] [stdout]   |                   ^^^^^^^^^^^^^^^^^^^^  ^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `Datatype`, `File`, and `H5Type`
[INFO] [stdout]  --> src/main.rs:7:12
[INFO] [stdout]   |
[INFO] [stdout] 7 | use hdf5::{File, H5Type, Datatype};
[INFO] [stdout]   |            ^^^^  ^^^^^^  ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `ndarray::Array1`
[INFO] [stdout]  --> src/main.rs:8:5
[INFO] [stdout]   |
[INFO] [stdout] 8 | use ndarray::Array1;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `csv::ReaderBuilder`
[INFO] [stdout]  --> src/main.rs:9:5
[INFO] [stdout]   |
[INFO] [stdout] 9 | use csv::ReaderBuilder;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::collections::HashMap`
[INFO] [stdout]  --> src/record/snp.rs:1:5
[INFO] [stdout]   |
[INFO] [stdout] 1 | use std::collections::HashMap;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `ndarray::Array1`
[INFO] [stdout]  --> src/record/snp.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 2 | use ndarray::Array1;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `File`
[INFO] [stdout]  --> src/record/oschp.rs:2:12
[INFO] [stdout]   |
[INFO] [stdout] 2 | use hdf5::{File, H5Type};
[INFO] [stdout]   |            ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `hdf5::types::VarLenAscii`
[INFO] [stdout]  --> src/record/oschp.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use hdf5::types::VarLenAscii;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `serde::Deserialize`
[INFO] [stdout]  --> src/record/manifest.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use serde::Deserialize;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `segments`
[INFO] [stdout]   --> src/main.rs:27:9
[INFO] [stdout]    |
[INFO] [stdout] 27 |     let segments = record::oschp::CopyNumberSegment::from_oschp_file(&handle)?;
[INFO] [stdout]    |         ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_segments`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `loh`
[INFO] [stdout]   --> src/main.rs:28:9
[INFO] [stdout]    |
[INFO] [stdout] 28 |     let loh = record::oschp::LOHSegment::from_oschp_file(&handle)?;   
[INFO] [stdout]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_loh`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `tab`
[INFO] [stdout]   --> src/main.rs:30:9
[INFO] [stdout]    |
[INFO] [stdout] 30 |     let tab = transform::utils::build_chrom_table(&chroms);
[INFO] [stdout]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_tab`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: multiple fields are never read
[INFO] [stdout]   --> src/record/snp.rs:6:5
[INFO] [stdout]    |
[INFO] [stdout]  5 | pub struct Marker {
[INFO] [stdout]    |            ------ fields in this struct
[INFO] [stdout]  6 |     chrom: u8,
[INFO] [stdout]    |     ^^^^^
[INFO] [stdout]  7 |     position: u32,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout]  8 |     lrr: f32,
[INFO] [stdout]    |     ^^^
[INFO] [stdout]  9 |     weighted_lrr: f32,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 10 |     allelic_diff: f32,
[INFO] [stdout]    |     ^^^^^^^^^^^^
[INFO] [stdout] 11 |     baf: f32,
[INFO] [stdout]    |     ^^^
[INFO] [stdout] 12 |     call: u8,
[INFO] [stdout]    |     ^^^^
[INFO] [stdout] 13 |     conf: f32,
[INFO] [stdout]    |     ^^^^
[INFO] [stdout] 14 |     a_signal: f32,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 15 |     b_signal: f32,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 16 |     probe_name: String,
[INFO] [stdout]    |     ^^^^^^^^^^
[INFO] [stdout] 17 |     a_allele: u8,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 18 |     b_allele: u8,
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `Marker` has a derived impl for the trait `Debug`, but this is intentionally ignored during dead code analysis
[INFO] [stdout]    = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: associated items `new` and `to_vcf_record` are never used
[INFO] [stdout]   --> src/record/snp.rs:22:12
[INFO] [stdout]    |
[INFO] [stdout] 21 | impl Marker {
[INFO] [stdout]    | ----------- associated items in this implementation
[INFO] [stdout] 22 |     pub fn new() -> Marker {
[INFO] [stdout]    |            ^^^
[INFO] [stdout] ...
[INFO] [stdout] 65 |     pub fn to_vcf_record(&self) {
[INFO] [stdout]    |            ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:9:10
[INFO] [stdout]    |
[INFO] [stdout]  9 | #[derive(H5Type, Clone, Debug, Copy)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_Call`
[INFO] [stdout] 10 | #[repr(C)]
[INFO] [stdout] 11 | pub struct Call {
[INFO] [stdout]    |            ---- `Call` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: `#[warn(non_local_definitions)]` on by default
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:29:10
[INFO] [stdout]    |
[INFO] [stdout] 29 | #[derive(H5Type, Clone, Debug, Copy)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_CopyNumber`
[INFO] [stdout] 30 | #[repr(C)]
[INFO] [stdout] 31 | pub struct CopyNumber {
[INFO] [stdout]    |            ---------- `CopyNumber` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:47:10
[INFO] [stdout]    |
[INFO] [stdout] 47 | #[derive(H5Type, Clone, Debug, Copy)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_AllelicData`
[INFO] [stdout] 48 | #[repr(C)]
[INFO] [stdout] 49 | pub struct AllelicData {
[INFO] [stdout]    |            ----------- `AllelicData` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:63:10
[INFO] [stdout]    |
[INFO] [stdout] 63 | #[derive(H5Type, Clone, Debug)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_CopyNumberSegment`
[INFO] [stdout] 64 | #[repr(C)]
[INFO] [stdout] 65 | pub struct CopyNumberSegment {
[INFO] [stdout]    |            ----------------- `CopyNumberSegment` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]   --> src/record/oschp.rs:84:10
[INFO] [stdout]    |
[INFO] [stdout] 84 | #[derive(H5Type, Clone, Debug)]
[INFO] [stdout]    |          ^-----
[INFO] [stdout]    |          |
[INFO] [stdout]    |          `H5Type` is not local
[INFO] [stdout]    |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_LOHSegment`
[INFO] [stdout] 85 | #[repr(C)]
[INFO] [stdout] 86 | pub struct LOHSegment {
[INFO] [stdout]    |            ---------- `LOHSegment` is not local
[INFO] [stdout]    |
[INFO] [stdout]    = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]    = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]    = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]    = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]    = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: non-local `impl` definition, `impl` blocks should be written at the same level as their item
[INFO] [stdout]    --> src/record/oschp.rs:104:10
[INFO] [stdout]     |
[INFO] [stdout] 104 | #[derive(H5Type, Clone, Debug)]
[INFO] [stdout]     |          ^-----
[INFO] [stdout]     |          |
[INFO] [stdout]     |          `H5Type` is not local
[INFO] [stdout]     |          move the `impl` block outside of this constant `_IMPL_H5TYPE_FOR_ChromosomeSummary`
[INFO] [stdout] 105 | #[repr(C)]
[INFO] [stdout] 106 | pub struct ChromosomeSummary {
[INFO] [stdout]     |            ----------------- `ChromosomeSummary` is not local
[INFO] [stdout]     |
[INFO] [stdout]     = note: the derive macro `H5Type` defines the non-local `impl`, and may need to be changed
[INFO] [stdout]     = note: the derive macro `H5Type` may come from an old version of the `hdf5_derive` crate, try updating your dependency with `cargo update -p hdf5_derive`
[INFO] [stdout]     = note: an `impl` is never scoped, even when it is nested inside an item, as it may impact type checking outside of that item, which can be the case if neither the trait or the self type are at the same nesting level as the `impl`
[INFO] [stdout]     = note: items in an anonymous const item (`const _: () = { ... }`) are treated as in the same scope as the anonymous const's declaration for the purpose of this lint
[INFO] [stdout]     = note: this warning originates in the derive macro `H5Type` (in Nightly builds, run with -Z macro-backtrace for more info)
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `test` profile [unoptimized + debuginfo] target(s) in 0.20s
[INFO] running `Command { std: "docker" "inspect" "5e3b678f5a86dcbee6f66405ff194fb886a17c87e7b649e7b30cedf9123d97dd", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "5e3b678f5a86dcbee6f66405ff194fb886a17c87e7b649e7b30cedf9123d97dd", kill_on_drop: false }`
[INFO] [stdout] 5e3b678f5a86dcbee6f66405ff194fb886a17c87e7b649e7b30cedf9123d97dd
