[INFO] cloning repository https://github.com/eclarke/qgramr [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/eclarke/qgramr" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Feclarke%2Fqgramr", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Feclarke%2Fqgramr'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 797461dce20a90970f9abcc23ec87e72339b200c [INFO] checking eclarke/qgramr against beta for pr-78714 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Feclarke%2Fqgramr" "/workspace/builds/worker-3/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-3/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/eclarke/qgramr on toolchain beta [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta" "read-manifest" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/eclarke/qgramr [INFO] finished tweaking git repo https://github.com/eclarke/qgramr [INFO] tweaked toml for git repo https://github.com/eclarke/qgramr written to /workspace/builds/worker-3/source/Cargo.toml [INFO] crate git repo https://github.com/eclarke/qgramr already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] error: the lock file /workspace/builds/worker-3/source/Cargo.lock needs to be updated but --locked was passed to prevent this [INFO] [stderr] If you want to try to generate the lock file without accessing the network, use the --offline flag. [INFO] the lockfile is outdated, regenerating it [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update", kill_on_drop: false }` [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "rustops/crates-build-env@sha256:6eabd152ff4036248d66efda456a36cb33d24b7291b33f25f75140726c88da35" "/opt/rustwide/cargo-home/bin/cargo" "+beta" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 2fb69f498ed65a172db2a3f1b8dc6b38b38f4bd873df7af71fec1a4239b1a8ec [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" "2fb69f498ed65a172db2a3f1b8dc6b38b38f4bd873df7af71fec1a4239b1a8ec", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "2fb69f498ed65a172db2a3f1b8dc6b38b38f4bd873df7af71fec1a4239b1a8ec", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "2fb69f498ed65a172db2a3f1b8dc6b38b38f4bd873df7af71fec1a4239b1a8ec", kill_on_drop: false }` [INFO] [stdout] 2fb69f498ed65a172db2a3f1b8dc6b38b38f4bd873df7af71fec1a4239b1a8ec [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-3/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" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--user" "0:0" "--network" "none" "rustops/crates-build-env@sha256:6eabd152ff4036248d66efda456a36cb33d24b7291b33f25f75140726c88da35" "/opt/rustwide/cargo-home/bin/cargo" "+beta" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 91cd57a7d8fa821b79a4e65a3c243ca47c1bebb7391680bc7238bf9180cb6e70 [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" "91cd57a7d8fa821b79a4e65a3c243ca47c1bebb7391680bc7238bf9180cb6e70", kill_on_drop: false }` [INFO] [stderr] Compiling syn v1.0.48 [INFO] [stderr] Compiling ndarray v0.13.1 [INFO] [stderr] Compiling unicode-segmentation v1.7.0 [INFO] [stderr] Checking fixedbitset v0.2.0 [INFO] [stderr] Checking either v1.6.1 [INFO] [stderr] Checking array-macro v1.0.5 [INFO] [stderr] Checking bit-vec v0.6.2 [INFO] [stderr] Compiling bio v0.32.0 [INFO] [stderr] Checking triple_accel v0.3.4 [INFO] [stderr] Checking strum v0.18.0 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Checking getrandom v0.1.15 [INFO] [stderr] Checking ordered-float v1.1.0 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking petgraph v0.5.1 [INFO] [stderr] Checking itertools v0.9.0 [INFO] [stderr] Checking rand_core v0.5.1 [INFO] [stderr] Checking bit-set v0.5.2 [INFO] [stderr] Checking rand_chacha v0.2.2 [INFO] [stderr] Compiling heck v0.3.1 [INFO] [stderr] Checking rand v0.7.3 [INFO] [stderr] Checking statrs v0.12.0 [INFO] [stderr] Compiling serde_derive v1.0.117 [INFO] [stderr] Compiling enum-map-derive v0.4.6 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling snafu-derive v0.6.9 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Compiling strum_macros v0.18.0 [INFO] [stderr] Checking enum-map v0.6.4 [INFO] [stderr] Checking snafu v0.6.9 [INFO] [stderr] Checking serde v1.0.117 [INFO] [stderr] Checking bstr v0.2.14 [INFO] [stderr] Checking bio-types v0.7.0 [INFO] [stderr] Checking multimap v0.8.2 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking csv v1.1.4 [INFO] [stderr] Checking qgramr v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] error[E0599]: no method named `read` found for struct `bio::io::fasta::Reader` in the current scope [INFO] [stdout] --> src/main.rs:9:12 [INFO] [stdout] | [INFO] [stdout] 9 | reader.read(&mut rec).ok().expect("Error reading record"); [INFO] [stdout] | ^^^^ method not found in `bio::io::fasta::Reader` [INFO] [stdout] | [INFO] [stdout] = help: items from traits can only be used if the trait is in scope [INFO] [stdout] help: the following trait is implemented but not in scope; perhaps add a `use` for it: [INFO] [stdout] | [INFO] [stdout] 2 | use bio::io::fasta::FastaRead; [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0599]: no method named `read` found for struct `bio::io::fasta::Reader` in the current scope [INFO] [stdout] --> src/main.rs:9:12 [INFO] [stdout] | [INFO] [stdout] 9 | reader.read(&mut rec).ok().expect("Error reading record"); [INFO] [stdout] | ^^^^ method not found in `bio::io::fasta::Reader` [INFO] [stdout] | [INFO] [stdout] = help: items from traits can only be used if the trait is in scope [INFO] [stdout] help: the following trait is implemented but not in scope; perhaps add a `use` for it: [INFO] [stdout] | [INFO] [stdout] 2 | use bio::io::fasta::FastaRead; [INFO] [stdout] | [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0599]: no method named `expect` found for reference `&str` in the current scope [INFO] [stdout] --> src/main.rs:15:52 [INFO] [stdout] | [INFO] [stdout] 15 | println!("Building index over {}...", rec.id().expect("")); [INFO] [stdout] | ^^^^^^ method not found in `&str` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0599]: no method named `expect` found for reference `&str` in the current scope [INFO] [stdout] --> src/main.rs:15:52 [INFO] [stdout] | [INFO] [stdout] 15 | println!("Building index over {}...", rec.id().expect("")); [INFO] [stdout] | ^^^^^^ method not found in `&str` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to 2 previous errors [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0599`. [INFO] [stdout] [INFO] [stdout] error: aborting due to 2 previous errors [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0599`. [INFO] [stdout] [INFO] [stderr] error: could not compile `qgramr` [INFO] [stderr] [INFO] [stderr] To learn more, run the command again with --verbose. [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] [stderr] error: build failed [INFO] running `Command { std: "docker" "inspect" "91cd57a7d8fa821b79a4e65a3c243ca47c1bebb7391680bc7238bf9180cb6e70", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "91cd57a7d8fa821b79a4e65a3c243ca47c1bebb7391680bc7238bf9180cb6e70", kill_on_drop: false }` [INFO] [stdout] 91cd57a7d8fa821b79a4e65a3c243ca47c1bebb7391680bc7238bf9180cb6e70