[INFO] updating cached repository https://github.com/natir/br [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "-c" "remote.origin.fetch=refs/heads/*:refs/heads/*" "fetch" "origin" "--force" "--prune", kill_on_drop: false }` [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] f6570cee2dc9eb8d8321c8b71e7c150b1ea64783 [INFO] checking natir/br against try#c8bdaa84ec1b37f18f30375e196a65b7602f3790 for pr-73345 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fnatir%2Fbr" "/workspace/builds/worker-7/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-7/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/natir/br on toolchain c8bdaa84ec1b37f18f30375e196a65b7602f3790 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+c8bdaa84ec1b37f18f30375e196a65b7602f3790" "read-manifest" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/natir/br [INFO] finished tweaking git repo https://github.com/natir/br [INFO] tweaked toml for git repo https://github.com/natir/br written to /workspace/builds/worker-7/source/Cargo.toml [INFO] crate git repo https://github.com/natir/br already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+c8bdaa84ec1b37f18f30375e196a65b7602f3790" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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" "MAP_USER_ID=0" "-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" "--network" "none" "rustops/crates-build-env@sha256:6c9ffe128752d56c8d75334ed354142a5229917ed99767f56566dd8e857ad726" "/opt/rustwide/cargo-home/bin/cargo" "+c8bdaa84ec1b37f18f30375e196a65b7602f3790" "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] 1237d68b72aef593baffa717d417f74e731dd014400b7122d70265d9dee0a220 [INFO] running `Command { std: "docker" "start" "-a" "1237d68b72aef593baffa717d417f74e731dd014400b7122d70265d9dee0a220", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "1237d68b72aef593baffa717d417f74e731dd014400b7122d70265d9dee0a220", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "1237d68b72aef593baffa717d417f74e731dd014400b7122d70265d9dee0a220", kill_on_drop: false }` [INFO] [stdout] 1237d68b72aef593baffa717d417f74e731dd014400b7122d70265d9dee0a220 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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" "MAP_USER_ID=0" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--network" "none" "rustops/crates-build-env@sha256:6c9ffe128752d56c8d75334ed354142a5229917ed99767f56566dd8e857ad726" "/opt/rustwide/cargo-home/bin/cargo" "+c8bdaa84ec1b37f18f30375e196a65b7602f3790" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] a34076c69354b341c9b9fae8a819b83ec7973608c3db0832c5ef0cb6cab4352a [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" "a34076c69354b341c9b9fae8a819b83ec7973608c3db0832c5ef0cb6cab4352a", kill_on_drop: false }` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling autocfg v0.1.7 [INFO] [stderr] Compiling proc-macro2 v1.0.6 [INFO] [stderr] Checking rand_core v0.4.2 [INFO] [stderr] Compiling serde v1.0.103 [INFO] [stderr] Compiling memchr v2.2.1 [INFO] [stderr] Compiling proc-macro2 v0.4.30 [INFO] [stderr] Compiling byteorder v1.3.2 [INFO] [stderr] Compiling unicode-xid v0.1.0 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Checking quick-error v1.2.2 [INFO] [stderr] Compiling doc-comment v0.3.1 [INFO] [stderr] Compiling ryu v1.0.2 [INFO] [stderr] Checking regex-syntax v0.6.12 [INFO] [stderr] Checking rustc-demangle v0.1.16 [INFO] [stderr] Compiling unicode-segmentation v1.6.0 [INFO] [stderr] Compiling bio v0.29.0 [INFO] [stderr] Checking itoa v0.4.4 [INFO] [stderr] Checking termcolor v1.0.5 [INFO] [stderr] Checking bytecount v0.6.0 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking fnv v1.0.6 [INFO] [stderr] Checking thread_local v0.3.6 [INFO] [stderr] Checking itertools v0.8.2 [INFO] [stderr] Checking humantime v1.3.0 [INFO] [stderr] Checking rand_core v0.3.1 [INFO] [stderr] Checking rand_jitter v0.1.4 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling bv v0.11.0 [INFO] [stderr] Checking log v0.4.8 [INFO] [stderr] Checking rand_os v0.1.3 [INFO] [stderr] Checking atty v0.2.13 [INFO] [stderr] Checking backtrace-sys v0.1.32 [INFO] [stderr] Checking rand_isaac v0.1.1 [INFO] [stderr] Checking rand_hc v0.1.0 [INFO] [stderr] Checking rand_xorshift v0.1.1 [INFO] [stderr] Compiling heck v0.3.1 [INFO] [stderr] Checking backtrace v0.3.40 [INFO] [stderr] Compiling num-traits v0.2.10 [INFO] [stderr] Compiling rand_pcg v0.1.2 [INFO] [stderr] Compiling rand_chacha v0.1.1 [INFO] [stderr] Compiling num-complex v0.2.3 [INFO] [stderr] Compiling rand v0.6.5 [INFO] [stderr] Compiling num-integer v0.1.41 [INFO] [stderr] Checking regex-automata v0.1.8 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Checking aho-corasick v0.7.6 [INFO] [stderr] Checking csv-core v0.1.6 [INFO] [stderr] Compiling quote v1.0.2 [INFO] [stderr] Compiling quote v0.6.13 [INFO] [stderr] Compiling syn v1.0.11 [INFO] [stderr] Compiling syn v0.15.44 [INFO] [stderr] Checking ordered-float v1.0.2 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking statrs v0.11.0 [INFO] [stderr] Checking ndarray v0.13.0 [INFO] [stderr] Checking regex v1.3.1 [INFO] [stderr] Checking env_logger v0.7.1 [INFO] [stderr] Compiling serde_derive v1.0.103 [INFO] [stderr] Compiling strum_macros v0.16.0 [INFO] [stderr] Compiling snafu-derive v0.5.0 [INFO] [stderr] Checking snafu v0.5.0 [INFO] [stderr] Checking vec_map v0.8.1 [INFO] [stderr] Checking bstr v0.2.8 [INFO] [stderr] Checking bio-types v0.5.1 [INFO] [stderr] Checking multimap v0.6.0 [INFO] [stderr] Checking clap v2.33.0 [INFO] [stderr] Checking csv v1.1.1 [INFO] [stderr] Checking cocktail v0.1.0 (https://github.com/natir/cocktail.git?tag=0.2-beta1#eccc3f5b) [INFO] [stderr] Checking br v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:177:18 [INFO] [stdout] | [INFO] [stdout] 177 | data.set(pcon::convert::hash(b"ACTGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:178:18 [INFO] [stdout] | [INFO] [stdout] 178 | data.set(pcon::convert::hash(b"CTGAC", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:179:18 [INFO] [stdout] | [INFO] [stdout] 179 | data.set(pcon::convert::hash(b"TGACG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:180:18 [INFO] [stdout] | [INFO] [stdout] 180 | data.set(pcon::convert::hash(b"GACGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:192:18 [INFO] [stdout] | [INFO] [stdout] 192 | data.set(pcon::convert::hash(b"ACTGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:193:18 [INFO] [stdout] | [INFO] [stdout] 193 | data.set(pcon::convert::hash(b"CTGAC", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:194:18 [INFO] [stdout] | [INFO] [stdout] 194 | data.set(pcon::convert::hash(b"CTGAG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:195:18 [INFO] [stdout] | [INFO] [stdout] 195 | data.set(pcon::convert::hash(b"TGACG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:196:18 [INFO] [stdout] | [INFO] [stdout] 196 | data.set(pcon::convert::hash(b"GACGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:208:18 [INFO] [stdout] | [INFO] [stdout] 208 | data.set(pcon::convert::hash(b"ACTGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:209:18 [INFO] [stdout] | [INFO] [stdout] 209 | data.set(pcon::convert::hash(b"CTGAC", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:210:18 [INFO] [stdout] | [INFO] [stdout] 210 | data.set(pcon::convert::hash(b"TGACG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:211:18 [INFO] [stdout] | [INFO] [stdout] 211 | data.set(pcon::convert::hash(b"GACGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:223:18 [INFO] [stdout] | [INFO] [stdout] 223 | data.set(pcon::convert::hash(b"ACTGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:224:18 [INFO] [stdout] | [INFO] [stdout] 224 | data.set(pcon::convert::hash(b"CTGAC", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:225:18 [INFO] [stdout] | [INFO] [stdout] 225 | data.set(pcon::convert::hash(b"CTGAG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:226:18 [INFO] [stdout] | [INFO] [stdout] 226 | data.set(pcon::convert::hash(b"TGACG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:227:18 [INFO] [stdout] | [INFO] [stdout] 227 | data.set(pcon::convert::hash(b"GACGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:239:18 [INFO] [stdout] | [INFO] [stdout] 239 | data.set(pcon::convert::hash(b"ACTGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:240:18 [INFO] [stdout] | [INFO] [stdout] 240 | data.set(pcon::convert::hash(b"CTGAC", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:241:18 [INFO] [stdout] | [INFO] [stdout] 241 | data.set(pcon::convert::hash(b"TGACG", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0433]: failed to resolve: use of undeclared type or module `pcon` [INFO] [stdout] --> src/correct.rs:242:18 [INFO] [stdout] | [INFO] [stdout] 242 | data.set(pcon::convert::hash(b"GACGA", 5), true); [INFO] [stdout] | ^^^^ use of undeclared type or module `pcon` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: value assigned to `kmer` is never read [INFO] [stdout] --> src/correct.rs:54:17 [INFO] [stdout] | [INFO] [stdout] 54 | kmer = corrected_kmer; [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_assignments)]` on by default [INFO] [stdout] = help: maybe it is overwritten before being read? [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `score` [INFO] [stdout] --> src/correct.rs:114:10 [INFO] [stdout] | [INFO] [stdout] 114 | let (score, alt_nuc, error_type, alt_kmer) = &scenario[0]; [INFO] [stdout] | ^^^^^ help: if this is intentional, prefix it with an underscore: `_score` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variable does not need to be mutable [INFO] [stdout] --> src/main.rs:102:17 [INFO] [stdout] | [INFO] [stdout] 102 | let mut right_left = correct::correct_read(seq, k, solidity, &data); [INFO] [stdout] | ----^^^^^^^^^^ [INFO] [stdout] | | [INFO] [stdout] | help: remove this `mut` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_mut)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: variant is never constructed: `None` [INFO] [stdout] --> src/correct.rs:26:5 [INFO] [stdout] | [INFO] [stdout] 26 | None = 0, [INFO] [stdout] | ^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(dead_code)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 4 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to 22 previous errors [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0433`. [INFO] [stdout] [INFO] [stderr] error: could not compile `br`. [INFO] [stderr] [INFO] [stderr] To learn more, run the command again with --verbose. [INFO] running `Command { std: "docker" "inspect" "a34076c69354b341c9b9fae8a819b83ec7973608c3db0832c5ef0cb6cab4352a", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "a34076c69354b341c9b9fae8a819b83ec7973608c3db0832c5ef0cb6cab4352a", kill_on_drop: false }` [INFO] [stdout] a34076c69354b341c9b9fae8a819b83ec7973608c3db0832c5ef0cb6cab4352a