[INFO] cloning repository https://github.com/koisland/rs-cdr-finder
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/koisland/rs-cdr-finder" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fkoisland%2Frs-cdr-finder", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fkoisland%2Frs-cdr-finder'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 95fbc0c1a85af60357a04651755c009f485c4705
[INFO] checking koisland/rs-cdr-finder against master#642c19bfc3a5c1de985bf5d0cc8207ac9d22708a for pr-148577
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fkoisland%2Frs-cdr-finder" "/workspace/builds/worker-7-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-7-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/koisland/rs-cdr-finder
[INFO] finished tweaking git repo https://github.com/koisland/rs-cdr-finder
[INFO] tweaked toml for git repo https://github.com/koisland/rs-cdr-finder written to /workspace/builds/worker-7-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/koisland/rs-cdr-finder on toolchain 642c19bfc3a5c1de985bf5d0cc8207ac9d22708a
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+642c19bfc3a5c1de985bf5d0cc8207ac9d22708a" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/koisland/rs-cdr-finder 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" "+642c19bfc3a5c1de985bf5d0cc8207ac9d22708a" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating git repository `https://github.com/nanoporetech/modkit.git`
[INFO] [stderr]     Updating git repository `https://github.com/logsdon-lab/rs-moddotplot.git`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
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[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+642c19bfc3a5c1de985bf5d0cc8207ac9d22708a" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] b28cfc6ebc8233e765c26c267822fe166d087751493d518aa248ba7f4e4c8d1a
[INFO] running `Command { std: "docker" "start" "-a" "b28cfc6ebc8233e765c26c267822fe166d087751493d518aa248ba7f4e4c8d1a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "b28cfc6ebc8233e765c26c267822fe166d087751493d518aa248ba7f4e4c8d1a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "b28cfc6ebc8233e765c26c267822fe166d087751493d518aa248ba7f4e4c8d1a", kill_on_drop: false }`
[INFO] [stdout] b28cfc6ebc8233e765c26c267822fe166d087751493d518aa248ba7f4e4c8d1a
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7-tc1/source:/opt/rustwide/workdir:ro,Z" "-v" "/var/lib/crater-agent-workspace/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/var/lib/crater-agent-workspace/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:4848fb76d95f26979359cc7e45710b1dbc8f3acb7aeedee7c460d7702230f228" "/opt/rustwide/cargo-home/bin/cargo" "+642c19bfc3a5c1de985bf5d0cc8207ac9d22708a" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 4bd6880674300ddeb66b16fce688f4e10bb13cdb7d4d35afa44263c5b59f9946
[INFO] running `Command { std: "docker" "start" "-a" "4bd6880674300ddeb66b16fce688f4e10bb13cdb7d4d35afa44263c5b59f9946", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.177
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[INFO] [stderr]     Checking attohttpc v0.25.0
[INFO] [stderr]     Checking modkit-logging v0.4.5 (https://github.com/nanoporetech/modkit.git?tag=v0.5.0#5120ef76)
[INFO] [stderr]     Checking bigtools v0.5.6
[INFO] [stderr]     Checking statrs v0.16.1
[INFO] [stderr]     Checking bio v1.6.0
[INFO] [stderr]     Checking rust-htslib v0.46.0
[INFO] [stderr]     Checking mod_kit v0.5.0 (https://github.com/nanoporetech/modkit.git?tag=v0.5.0#5120ef76)
[INFO] [stderr]     Checking rs-cdr-finder v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `hmm::find_peaks`
[INFO] [stdout]  --> src/main.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 |     hmm::find_peaks,
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unnecessary parentheses around closure body
[INFO] [stdout]   --> src/hmm.rs:60:28
[INFO] [stdout]    |
[INFO] [stdout] 60 |                 .map(|win| (win[win.len() - 1].val.avg - win[0].val.avg))
[INFO] [stdout]    |                            ^                                           ^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] help: remove these parentheses
[INFO] [stdout]    |
[INFO] [stdout] 60 -                 .map(|win| (win[win.len() - 1].val.avg - win[0].val.avg))
[INFO] [stdout] 60 +                 .map(|win| win[win.len() - 1].val.avg - win[0].val.avg )
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `hmm::find_peaks`
[INFO] [stdout]  --> src/main.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 |     hmm::find_peaks,
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unnecessary parentheses around closure body
[INFO] [stdout]   --> src/hmm.rs:60:28
[INFO] [stdout]    |
[INFO] [stdout] 60 |                 .map(|win| (win[win.len() - 1].val.avg - win[0].val.avg))
[INFO] [stdout]    |                            ^                                           ^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_parens)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] help: remove these parentheses
[INFO] [stdout]    |
[INFO] [stdout] 60 -                 .map(|win| (win[win.len() - 1].val.avg - win[0].val.avg))
[INFO] [stdout] 60 +                 .map(|win| win[win.len() - 1].val.avg - win[0].val.avg )
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `bins`
[INFO] [stdout]   --> src/hmm.rs:47:24
[INFO] [stdout]    |
[INFO] [stdout] 47 | fn convert_to_emission(bins: &[Interval<u64, AvgCpGInfo>]) {}
[INFO] [stdout]    |                        ^^^^ help: if this is intentional, prefix it with an underscore: `_bins`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `emissions`
[INFO] [stdout]   --> src/hmm.rs:74:17
[INFO] [stdout]    |
[INFO] [stdout] 74 |             let emissions: Vec<Emission> = diffs
[INFO] [stdout]    |                 ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_emissions`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `start_prob`
[INFO] [stdout]   --> src/hmm.rs:89:17
[INFO] [stdout]    |
[INFO] [stdout] 89 |             let start_prob = todo!();
[INFO] [stdout]    |                 ^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_start_prob`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `chrom`
[INFO] [stdout]   --> src/hmm.rs:92:10
[INFO] [stdout]    |
[INFO] [stdout] 92 |     for (chrom, bin_itvs) in itvs.iter() {}
[INFO] [stdout]    |          ^^^^^ help: if this is intentional, prefix it with an underscore: `_chrom`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `bin_itvs`
[INFO] [stdout]   --> src/hmm.rs:92:17
[INFO] [stdout]    |
[INFO] [stdout] 92 |     for (chrom, bin_itvs) in itvs.iter() {}
[INFO] [stdout]    |                 ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_bin_itvs`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `bins`
[INFO] [stdout]   --> src/hmm.rs:47:24
[INFO] [stdout]    |
[INFO] [stdout] 47 | fn convert_to_emission(bins: &[Interval<u64, AvgCpGInfo>]) {}
[INFO] [stdout]    |                        ^^^^ help: if this is intentional, prefix it with an underscore: `_bins`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `emissions`
[INFO] [stdout]   --> src/hmm.rs:74:17
[INFO] [stdout]    |
[INFO] [stdout] 74 |             let emissions: Vec<Emission> = diffs
[INFO] [stdout]    |                 ^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_emissions`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `start_prob`
[INFO] [stdout]   --> src/hmm.rs:89:17
[INFO] [stdout]    |
[INFO] [stdout] 89 |             let start_prob = todo!();
[INFO] [stdout]    |                 ^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_start_prob`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `chrom`
[INFO] [stdout]   --> src/hmm.rs:92:10
[INFO] [stdout]    |
[INFO] [stdout] 92 |     for (chrom, bin_itvs) in itvs.iter() {}
[INFO] [stdout]    |          ^^^^^ help: if this is intentional, prefix it with an underscore: `_chrom`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `bin_itvs`
[INFO] [stdout]   --> src/hmm.rs:92:17
[INFO] [stdout]    |
[INFO] [stdout] 92 |     for (chrom, bin_itvs) in itvs.iter() {}
[INFO] [stdout]    |                 ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_bin_itvs`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: enum `Emission` is never used
[INFO] [stdout]   --> src/hmm.rs:11:10
[INFO] [stdout]    |
[INFO] [stdout] 11 | pub enum Emission {
[INFO] [stdout]    |          ^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: enum `State` is never used
[INFO] [stdout]   --> src/hmm.rs:19:10
[INFO] [stdout]    |
[INFO] [stdout] 19 | pub enum State {
[INFO] [stdout]    |          ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `vtb_traceback` is never used
[INFO] [stdout]   --> src/hmm.rs:27:4
[INFO] [stdout]    |
[INFO] [stdout] 27 | fn vtb_traceback() {}
[INFO] [stdout]    |    ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `vtb_build` is never used
[INFO] [stdout]   --> src/hmm.rs:29:4
[INFO] [stdout]    |
[INFO] [stdout] 29 | fn vtb_build() {
[INFO] [stdout]    |    ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `convert_to_emission` is never used
[INFO] [stdout]   --> src/hmm.rs:47:4
[INFO] [stdout]    |
[INFO] [stdout] 47 | fn convert_to_emission(bins: &[Interval<u64, AvgCpGInfo>]) {}
[INFO] [stdout]    |    ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `find_peaks` is never used
[INFO] [stdout]   --> src/hmm.rs:49:8
[INFO] [stdout]    |
[INFO] [stdout] 49 | pub fn find_peaks(bed: &HashMap<String, Lapper<u64, ()>>, itvs: &ChromBinItvs) -> eyre::Result<()> {
[INFO] [stdout]    |        ^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: enum `Emission` is never used
[INFO] [stdout]   --> src/hmm.rs:11:10
[INFO] [stdout]    |
[INFO] [stdout] 11 | pub enum Emission {
[INFO] [stdout]    |          ^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(dead_code)]` (part of `#[warn(unused)]`) on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: enum `State` is never used
[INFO] [stdout]   --> src/hmm.rs:19:10
[INFO] [stdout]    |
[INFO] [stdout] 19 | pub enum State {
[INFO] [stdout]    |          ^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `vtb_traceback` is never used
[INFO] [stdout]   --> src/hmm.rs:27:4
[INFO] [stdout]    |
[INFO] [stdout] 27 | fn vtb_traceback() {}
[INFO] [stdout]    |    ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `vtb_build` is never used
[INFO] [stdout]   --> src/hmm.rs:29:4
[INFO] [stdout]    |
[INFO] [stdout] 29 | fn vtb_build() {
[INFO] [stdout]    |    ^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `convert_to_emission` is never used
[INFO] [stdout]   --> src/hmm.rs:47:4
[INFO] [stdout]    |
[INFO] [stdout] 47 | fn convert_to_emission(bins: &[Interval<u64, AvgCpGInfo>]) {}
[INFO] [stdout]    |    ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function `find_peaks` is never used
[INFO] [stdout]   --> src/hmm.rs:49:8
[INFO] [stdout]    |
[INFO] [stdout] 49 | pub fn find_peaks(bed: &HashMap<String, Lapper<u64, ()>>, itvs: &ChromBinItvs) -> eyre::Result<()> {
[INFO] [stdout]    |        ^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 3m 36s
[INFO] running `Command { std: "docker" "inspect" "4bd6880674300ddeb66b16fce688f4e10bb13cdb7d4d35afa44263c5b59f9946", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "4bd6880674300ddeb66b16fce688f4e10bb13cdb7d4d35afa44263c5b59f9946", kill_on_drop: false }`
[INFO] [stdout] 4bd6880674300ddeb66b16fce688f4e10bb13cdb7d4d35afa44263c5b59f9946
