[INFO] cloning repository https://github.com/illumination-k/hrr_corrnet [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/illumination-k/hrr_corrnet" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fillumination-k%2Fhrr_corrnet", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fillumination-k%2Fhrr_corrnet'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 9f286386800629ae80745cebe67e9eeaf22ca3c5 [INFO] testing illumination-k/hrr_corrnet against 1.55.0 for beta-1.56-1 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fillumination-k%2Fhrr_corrnet" "/workspace/builds/worker-0/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-0/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/illumination-k/hrr_corrnet on toolchain 1.55.0 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.55.0" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/illumination-k/hrr_corrnet [INFO] finished tweaking git repo https://github.com/illumination-k/hrr_corrnet [INFO] tweaked toml for git repo https://github.com/illumination-k/hrr_corrnet written to /workspace/builds/worker-0/source/Cargo.toml [INFO] crate git repo https://github.com/illumination-k/hrr_corrnet already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+1.55.0" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] 8c55c13461402ed729d47eb3463414c7ff5829e7e701542342df5d6f23a596a9 [INFO] running `Command { std: "docker" "start" "-a" "8c55c13461402ed729d47eb3463414c7ff5829e7e701542342df5d6f23a596a9", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "8c55c13461402ed729d47eb3463414c7ff5829e7e701542342df5d6f23a596a9", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "8c55c13461402ed729d47eb3463414c7ff5829e7e701542342df5d6f23a596a9", kill_on_drop: false }` [INFO] [stdout] 8c55c13461402ed729d47eb3463414c7ff5829e7e701542342df5d6f23a596a9 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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=warn" "-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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "build" "--frozen" "--message-format=json", kill_on_drop: false }` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] ee4010f628683342adcfe4af30b9ea18428efb6337f33d952a2d0be043def43d [INFO] running `Command { std: "docker" "start" "-a" "ee4010f628683342adcfe4af30b9ea18428efb6337f33d952a2d0be043def43d", kill_on_drop: false }` [INFO] [stderr] Compiling syn v1.0.54 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling ndarray v0.14.0 [INFO] [stderr] Compiling bio v0.32.0 [INFO] [stderr] Compiling triple_accel v0.3.4 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling bytecount v0.6.2 [INFO] [stderr] Compiling superslice v1.0.0 [INFO] [stderr] Compiling miniz-sys v0.1.12 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling num-integer v0.1.44 [INFO] [stderr] Compiling num-complex v0.3.1 [INFO] [stderr] Compiling approx v0.4.0 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling noisy_float v0.1.13 [INFO] [stderr] Compiling ordered-float v1.1.1 [INFO] [stderr] Compiling ordered-float v2.0.1 [INFO] [stderr] Compiling bytes v0.4.12 [INFO] [stderr] Compiling petgraph v0.5.1 [INFO] [stderr] Compiling statrs v0.12.0 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Compiling ndarray v0.13.1 [INFO] [stderr] Compiling tokio-io v0.1.13 [INFO] [stderr] Compiling flate2 v0.2.20 [INFO] [stderr] Compiling ndarray-stats v0.4.0 [INFO] [stderr] Compiling proc-macro-error v1.0.4 [INFO] [stderr] Compiling serde_derive v1.0.118 [INFO] [stderr] Compiling snafu-derive v0.6.10 [INFO] [stderr] Compiling enum-map-derive v0.4.6 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling structopt-derive v0.4.14 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Compiling strum_macros v0.18.0 [INFO] [stderr] Compiling enum-map v0.6.4 [INFO] [stderr] Compiling snafu v0.6.10 [INFO] [stderr] Compiling serde v1.0.118 [INFO] [stderr] Compiling vec_map v0.8.2 [INFO] [stderr] Compiling bstr v0.2.14 [INFO] [stderr] Compiling multimap v0.8.2 [INFO] [stderr] Compiling bio-types v0.7.0 [INFO] [stderr] Compiling clap v2.33.3 [INFO] [stderr] Compiling csv v1.1.5 [INFO] [stderr] Compiling structopt v0.3.21 [INFO] [stderr] Compiling hrr_corrnet v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused variable: `in_graph` [INFO] [stdout] --> src/handlers/clustering.rs:7:5 [INFO] [stdout] | [INFO] [stdout] 7 | in_graph: &PathBuf, [INFO] [stdout] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_in_graph` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `rank_cutoff` [INFO] [stdout] --> src/handlers/clustering.rs:8:5 [INFO] [stdout] | [INFO] [stdout] 8 | rank_cutoff: Option<&f64>, [INFO] [stdout] | ^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rank_cutoff` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `corr` [INFO] [stdout] --> src/io.rs:121:12 [INFO] [stdout] | [INFO] [stdout] 121 | pub fn corr(&self) -> f64 { [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `from_edges` [INFO] [stdout] --> src/graph.rs:106:12 [INFO] [stdout] | [INFO] [stdout] 106 | pub fn from_edges(nodes: &Vec, edges: &Vec>) -> Self { [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `dfs` [INFO] [stdout] --> src/handlers/query.rs:78:4 [INFO] [stdout] | [INFO] [stdout] 78 | fn dfs( [INFO] [stdout] | ^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `parse_args` [INFO] [stdout] --> src/handlers/clustering.rs:6:8 [INFO] [stdout] | [INFO] [stdout] 6 | pub fn parse_args( [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 6 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 1m 00s [INFO] running `Command { std: "docker" "inspect" "ee4010f628683342adcfe4af30b9ea18428efb6337f33d952a2d0be043def43d", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "ee4010f628683342adcfe4af30b9ea18428efb6337f33d952a2d0be043def43d", kill_on_drop: false }` [INFO] [stdout] ee4010f628683342adcfe4af30b9ea18428efb6337f33d952a2d0be043def43d [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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=warn" "-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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] fb7bf00be81bce99fe780740ce9681ac386c400f8e13e870a9b002be8f901210 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "fb7bf00be81bce99fe780740ce9681ac386c400f8e13e870a9b002be8f901210", kill_on_drop: false }` [INFO] [stderr] Compiling hrr_corrnet v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused `#[macro_use]` import [INFO] [stdout] --> src/main.rs:24:1 [INFO] [stdout] | [INFO] [stdout] 24 | #[macro_use] [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `super::dfs` [INFO] [stdout] --> src/handlers/query.rs:100:9 [INFO] [stdout] | [INFO] [stdout] 100 | use super::dfs; [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `in_graph` [INFO] [stdout] --> src/handlers/clustering.rs:7:5 [INFO] [stdout] | [INFO] [stdout] 7 | in_graph: &PathBuf, [INFO] [stdout] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_in_graph` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `rank_cutoff` [INFO] [stdout] --> src/handlers/clustering.rs:8:5 [INFO] [stdout] | [INFO] [stdout] 8 | rank_cutoff: Option<&f64>, [INFO] [stdout] | ^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rank_cutoff` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `corr` [INFO] [stdout] --> src/io.rs:121:12 [INFO] [stdout] | [INFO] [stdout] 121 | pub fn corr(&self) -> f64 { [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `from_edges` [INFO] [stdout] --> src/graph.rs:106:12 [INFO] [stdout] | [INFO] [stdout] 106 | pub fn from_edges(nodes: &Vec, edges: &Vec>) -> Self { [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `dfs` [INFO] [stdout] --> src/handlers/query.rs:78:4 [INFO] [stdout] | [INFO] [stdout] 78 | fn dfs( [INFO] [stdout] | ^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: function is never used: `parse_args` [INFO] [stdout] --> src/handlers/clustering.rs:6:8 [INFO] [stdout] | [INFO] [stdout] 6 | pub fn parse_args( [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 8 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 5.06s [INFO] running `Command { std: "docker" "inspect" "fb7bf00be81bce99fe780740ce9681ac386c400f8e13e870a9b002be8f901210", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "fb7bf00be81bce99fe780740ce9681ac386c400f8e13e870a9b002be8f901210", kill_on_drop: false }` [INFO] [stdout] fb7bf00be81bce99fe780740ce9681ac386c400f8e13e870a9b002be8f901210 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0/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=warn" "-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:a89201d6b5b9fd45c15d5952ece0a0129e7e80cb26ec023fd59cf09bc26f1604" "/opt/rustwide/cargo-home/bin/cargo" "+1.55.0" "test" "--frozen", kill_on_drop: false }` [INFO] [stdout] bc151829e8d084fa4ca32f7d80b24850f1cea15f63b01abdece797b2e092ee71 [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] running `Command { std: "docker" "start" "-a" "bc151829e8d084fa4ca32f7d80b24850f1cea15f63b01abdece797b2e092ee71", kill_on_drop: false }` [INFO] [stderr] warning: unused `#[macro_use]` import [INFO] [stderr] --> src/main.rs:24:1 [INFO] [stderr] | [INFO] [stderr] 24 | #[macro_use] [INFO] [stderr] | ^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused import: `super::dfs` [INFO] [stderr] --> src/handlers/query.rs:100:9 [INFO] [stderr] | [INFO] [stderr] 100 | use super::dfs; [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused variable: `in_graph` [INFO] [stderr] --> src/handlers/clustering.rs:7:5 [INFO] [stderr] | [INFO] [stderr] 7 | in_graph: &PathBuf, [INFO] [stderr] | ^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_in_graph` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `rank_cutoff` [INFO] [stderr] --> src/handlers/clustering.rs:8:5 [INFO] [stderr] | [INFO] [stderr] 8 | rank_cutoff: Option<&f64>, [INFO] [stderr] | ^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_rank_cutoff` [INFO] [stderr] [INFO] [stderr] warning: associated function is never used: `corr` [INFO] [stderr] --> src/io.rs:121:12 [INFO] [stderr] | [INFO] [stderr] 121 | pub fn corr(&self) -> f64 { [INFO] [stderr] | ^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: associated function is never used: `from_edges` [INFO] [stderr] --> src/graph.rs:106:12 [INFO] [stderr] | [INFO] [stderr] 106 | pub fn from_edges(nodes: &Vec, edges: &Vec>) -> Self { [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `dfs` [INFO] [stderr] --> src/handlers/query.rs:78:4 [INFO] [stderr] | [INFO] [stderr] 78 | fn dfs( [INFO] [stderr] | ^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `parse_args` [INFO] [stderr] --> src/handlers/clustering.rs:6:8 [INFO] [stderr] | [INFO] [stderr] 6 | pub fn parse_args( [INFO] [stderr] | ^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: `hrr_corrnet` (bin "hrr_corrnet" test) generated 8 warnings [INFO] [stderr] Finished test [unoptimized + debuginfo] target(s) in 0.12s [INFO] [stderr] Running unittests (/opt/rustwide/target/debug/deps/hrr_corrnet-31e849c3ce581862) [INFO] [stdout] [INFO] [stdout] running 11 tests [INFO] [stdout] test handlers::codon_usage::test::test_sort_corr_by_rank ... ok [INFO] [stdout] test math::test::test_median_1 ... ok [INFO] [stdout] test codon::test::test_make_codon_map ... ok [INFO] [stdout] test math::test::test_std_1 ... ok [INFO] [stdout] test rank::test::test_construct_rank_matrix_1 ... ok [INFO] [stdout] test rank::test::test_mr ... ok [INFO] [stdout] test similarity::test::test_cosmix_1 ... ok [INFO] [stdout] test rank::test::test_hrr ... ok [INFO] [stdout] test rank::test::test_get_index_sorted_by_rank_1 ... ok [INFO] [stdout] test similarity::test::test_cosmix_2 ... ok [INFO] [stdout] test codon::test::test_make_codon_vec_1 ... ok [INFO] [stdout] [INFO] [stdout] test result: ok. 11 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s [INFO] [stdout] [INFO] running `Command { std: "docker" "inspect" "bc151829e8d084fa4ca32f7d80b24850f1cea15f63b01abdece797b2e092ee71", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "bc151829e8d084fa4ca32f7d80b24850f1cea15f63b01abdece797b2e092ee71", kill_on_drop: false }` [INFO] [stdout] bc151829e8d084fa4ca32f7d80b24850f1cea15f63b01abdece797b2e092ee71