[INFO] cloning repository https://github.com/iarpa-felix/simsplice
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/iarpa-felix/simsplice" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fiarpa-felix%2Fsimsplice", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fiarpa-felix%2Fsimsplice'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 8c091af199126d4f3f807d1275c1dc167e0f9efe
[INFO] testing iarpa-felix/simsplice against try#8de4c7234dd9b97c9d76b58671343fdbbc9a433e+target=x86_64-unknown-linux-musl for musl_upgrade_1_2_5_with_libc_patch_0
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fiarpa-felix%2Fsimsplice" "/workspace/builds/worker-0-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-0-tc1/source'...
[INFO] [stderr] done.
[INFO] started tweaking git repo https://github.com/iarpa-felix/simsplice
[INFO] finished tweaking git repo https://github.com/iarpa-felix/simsplice
[INFO] tweaked toml for git repo https://github.com/iarpa-felix/simsplice written to /workspace/builds/worker-0-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/iarpa-felix/simsplice on toolchain 8de4c7234dd9b97c9d76b58671343fdbbc9a433e
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/iarpa-felix/simsplice 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" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
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[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 8ee6a11fff3d6cc67009137096f116d1399f9f02f5f27ae5411012d3eff0bc6d
[INFO] running `Command { std: "docker" "start" "-a" "8ee6a11fff3d6cc67009137096f116d1399f9f02f5f27ae5411012d3eff0bc6d", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "8ee6a11fff3d6cc67009137096f116d1399f9f02f5f27ae5411012d3eff0bc6d", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "8ee6a11fff3d6cc67009137096f116d1399f9f02f5f27ae5411012d3eff0bc6d", kill_on_drop: false }`
[INFO] [stdout] 8ee6a11fff3d6cc67009137096f116d1399f9f02f5f27ae5411012d3eff0bc6d
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "build" "--frozen" "--message-format=json" "--target" "x86_64-unknown-linux-musl", kill_on_drop: false }`
[INFO] [stdout] 6192313c15f8f40721ebaceb59ef8514776ee6a4c6cbd9e85b2f72115a7fa4cf
[INFO] running `Command { std: "docker" "start" "-a" "6192313c15f8f40721ebaceb59ef8514776ee6a4c6cbd9e85b2f72115a7fa4cf", kill_on_drop: false }`
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[INFO] [stderr]    Compiling maplit v1.0.2
[INFO] [stderr]    Compiling linked-hash-map v0.5.3
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[INFO] [stderr]    Compiling attohttpc v0.16.0
[INFO] [stderr]    Compiling bigtools v0.1.4
[INFO] [stderr]    Compiling rust-htslib v0.35.2
[INFO] [stderr]    Compiling simsplice v1.0.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `Regex`
[INFO] [stdout]  --> src/liftover.rs:5:13
[INFO] [stdout]   |
[INFO] [stdout] 5 | use regex::{Regex};
[INFO] [stdout]   |             ^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `slog::info`
[INFO] [stdout]  --> src/liftover.rs:9:5
[INFO] [stdout]   |
[INFO] [stdout] 9 | use slog::info;
[INFO] [stdout]   |     ^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `Regex`
[INFO] [stdout]  --> src/genvcf.rs:5:13
[INFO] [stdout]   |
[INFO] [stdout] 5 | use regex::{Regex, Captures};
[INFO] [stdout]   |             ^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `warn`
[INFO] [stdout]   --> src/simsplice.rs:23:18
[INFO] [stdout]    |
[INFO] [stdout] 23 | use slog::{info, warn};
[INFO] [stdout]    |                  ^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `log`
[INFO] [stdout]   --> src/liftover.rs:58:9
[INFO] [stdout]    |
[INFO] [stdout] 58 |     let log = slog::Logger::root(
[INFO] [stdout]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_log`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `result`
[INFO] [stdout]    --> src/genvcf.rs:199:17
[INFO] [stdout]     |
[INFO] [stdout] 199 |             let result = result?;
[INFO] [stdout]     |                 ^^^^^^ help: if this is intentional, prefix it with an underscore: `_result`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `origpos` is never read
[INFO] [stdout]    --> src/simsplice.rs:399:21
[INFO] [stdout]     |
[INFO] [stdout] 399 |                     origpos = splice.start;
[INFO] [stdout]     |                     ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = help: maybe it is overwritten before being read?
[INFO] [stdout]     = note: `#[warn(unused_assignments)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [optimized + debuginfo] target(s) in 6m 20s
[INFO] running `Command { std: "docker" "inspect" "6192313c15f8f40721ebaceb59ef8514776ee6a4c6cbd9e85b2f72115a7fa4cf", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "6192313c15f8f40721ebaceb59ef8514776ee6a4c6cbd9e85b2f72115a7fa4cf", kill_on_drop: false }`
[INFO] [stdout] 6192313c15f8f40721ebaceb59ef8514776ee6a4c6cbd9e85b2f72115a7fa4cf
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "test" "--frozen" "--no-run" "--message-format=json" "--target" "x86_64-unknown-linux-musl", kill_on_drop: false }`
[INFO] [stdout] e84f90d98db76544a8aa59b671c3eca59a137bdaf3ffcf19f9b2dc028d3e3372
[INFO] running `Command { std: "docker" "start" "-a" "e84f90d98db76544a8aa59b671c3eca59a137bdaf3ffcf19f9b2dc028d3e3372", kill_on_drop: false }`
[INFO] [stderr]    Compiling simsplice v1.0.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `Regex`
[INFO] [stdout]  --> src/liftover.rs:5:13
[INFO] [stdout]   |
[INFO] [stdout] 5 | use regex::{Regex};
[INFO] [stdout]   |             ^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `slog::info`
[INFO] [stdout]  --> src/liftover.rs:9:5
[INFO] [stdout]   |
[INFO] [stdout] 9 | use slog::info;
[INFO] [stdout]   |     ^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `warn`
[INFO] [stdout]   --> src/simsplice.rs:23:18
[INFO] [stdout]    |
[INFO] [stdout] 23 | use slog::{info, warn};
[INFO] [stdout]    |                  ^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `Regex`
[INFO] [stdout]  --> src/genvcf.rs:5:13
[INFO] [stdout]   |
[INFO] [stdout] 5 | use regex::{Regex, Captures};
[INFO] [stdout]   |             ^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `log`
[INFO] [stdout]   --> src/liftover.rs:58:9
[INFO] [stdout]    |
[INFO] [stdout] 58 |     let log = slog::Logger::root(
[INFO] [stdout]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_log`
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_variables)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `result`
[INFO] [stdout]    --> src/genvcf.rs:199:17
[INFO] [stdout]     |
[INFO] [stdout] 199 |             let result = result?;
[INFO] [stdout]     |                 ^^^^^^ help: if this is intentional, prefix it with an underscore: `_result`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `origpos` is never read
[INFO] [stdout]    --> src/simsplice.rs:399:21
[INFO] [stdout]     |
[INFO] [stdout] 399 |                     origpos = splice.start;
[INFO] [stdout]     |                     ^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = help: maybe it is overwritten before being read?
[INFO] [stdout]     = note: `#[warn(unused_assignments)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `test` profile [optimized + debuginfo] target(s) in 2.41s
[INFO] running `Command { std: "docker" "inspect" "e84f90d98db76544a8aa59b671c3eca59a137bdaf3ffcf19f9b2dc028d3e3372", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "e84f90d98db76544a8aa59b671c3eca59a137bdaf3ffcf19f9b2dc028d3e3372", kill_on_drop: false }`
[INFO] [stdout] e84f90d98db76544a8aa59b671c3eca59a137bdaf3ffcf19f9b2dc028d3e3372
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-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@sha256:90999bfc7ae267e83380e433d8e61a7c072ca6729e92edbae886d3423b3a6f4c" "/opt/rustwide/cargo-home/bin/cargo" "+8de4c7234dd9b97c9d76b58671343fdbbc9a433e" "test" "--frozen" "--target" "x86_64-unknown-linux-musl", kill_on_drop: false }`
[INFO] [stdout] 68189e03982fdf27cd135811367a27c1113c6be85d25e16e5c7d0a5a815e7403
[INFO] running `Command { std: "docker" "start" "-a" "68189e03982fdf27cd135811367a27c1113c6be85d25e16e5c7d0a5a815e7403", kill_on_drop: false }`
[INFO] [stderr] warning: unused import: `Regex`
[INFO] [stderr]  --> src/genvcf.rs:5:13
[INFO] [stderr]   |
[INFO] [stderr] 5 | use regex::{Regex, Captures};
[INFO] [stderr]   |             ^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused variable: `result`
[INFO] [stderr]    --> src/genvcf.rs:199:17
[INFO] [stderr]     |
[INFO] [stderr] 199 |             let result = result?;
[INFO] [stderr]     |                 ^^^^^^ help: if this is intentional, prefix it with an underscore: `_result`
[INFO] [stderr]     |
[INFO] [stderr]     = note: `#[warn(unused_variables)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `warn`
[INFO] [stderr]   --> src/simsplice.rs:23:18
[INFO] [stderr]    |
[INFO] [stderr] 23 | use slog::{info, warn};
[INFO] [stderr]    |                  ^^^^
[INFO] [stderr]    |
[INFO] [stderr]    = note: `#[warn(unused_imports)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: value assigned to `origpos` is never read
[INFO] [stderr]    --> src/simsplice.rs:399:21
[INFO] [stderr]     |
[INFO] [stderr] 399 |                     origpos = splice.start;
[INFO] [stderr]     |                     ^^^^^^^
[INFO] [stderr]     |
[INFO] [stderr]     = help: maybe it is overwritten before being read?
[INFO] [stderr]     = note: `#[warn(unused_assignments)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `Regex`
[INFO] [stderr]  --> src/liftover.rs:5:13
[INFO] [stderr]   |
[INFO] [stderr] 5 | use regex::{Regex};
[INFO] [stderr]   |             ^^^^^
[INFO] [stderr]   |
[INFO] [stderr]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: unused import: `slog::info`
[INFO] [stderr]  --> src/liftover.rs:9:5
[INFO] [stderr]   |
[INFO] [stderr] 9 | use slog::info;
[INFO] [stderr]   |     ^^^^^^^^^^
[INFO] [stderr] 
[INFO] [stderr] warning: unused variable: `log`
[INFO] [stderr]   --> src/liftover.rs:58:9
[INFO] [stderr]    |
[INFO] [stderr] 58 |     let log = slog::Logger::root(
[INFO] [stderr]    |         ^^^ help: if this is intentional, prefix it with an underscore: `_log`
[INFO] [stderr]    |
[INFO] [stderr]    = note: `#[warn(unused_variables)]` on by default
[INFO] [stderr] 
[INFO] [stderr] warning: `simsplice` (bin "genvcf" test) generated 2 warnings (run `cargo fix --bin "genvcf" --tests` to apply 1 suggestion)
[INFO] [stderr] warning: `simsplice` (bin "simsplice" test) generated 2 warnings (run `cargo fix --bin "simsplice" --tests` to apply 1 suggestion)
[INFO] [stderr] warning: `simsplice` (bin "liftover" test) generated 3 warnings (run `cargo fix --bin "liftover" --tests` to apply 2 suggestions)
[INFO] [stderr]     Finished `test` profile [optimized + debuginfo] target(s) in 0.33s
[INFO] [stderr]      Running unittests src/genvcf.rs (/opt/rustwide/target/x86_64-unknown-linux-musl/debug/deps/genvcf-58edba767c3762b7)
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests src/liftover.rs (/opt/rustwide/target/x86_64-unknown-linux-musl/debug/deps/liftover-d314d349f2c3eb59)
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests src/simsplice.rs (/opt/rustwide/target/x86_64-unknown-linux-musl/debug/deps/simsplice-47fd2d4d8d18155d)
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] running `Command { std: "docker" "inspect" "68189e03982fdf27cd135811367a27c1113c6be85d25e16e5c7d0a5a815e7403", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "68189e03982fdf27cd135811367a27c1113c6be85d25e16e5c7d0a5a815e7403", kill_on_drop: false }`
[INFO] [stdout] 68189e03982fdf27cd135811367a27c1113c6be85d25e16e5c7d0a5a815e7403