[INFO] updating cached repository https://github.com/eclarke/qgramr [INFO] running `"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"` [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] 797461dce20a90970f9abcc23ec87e72339b200c [INFO] checking eclarke/qgramr against master#74e80468347471779be6060d8d7d6d04e98e467f for pr-72788 [INFO] running `"git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Feclarke%2Fqgramr" "/workspace/builds/worker-5/source"` [INFO] [stderr] Cloning into '/workspace/builds/worker-5/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/eclarke/qgramr on toolchain 74e80468347471779be6060d8d7d6d04e98e467f [INFO] running `"/workspace/cargo-home/bin/cargo" "+74e80468347471779be6060d8d7d6d04e98e467f" "read-manifest" "--manifest-path" "Cargo.toml"` [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-5/source/Cargo.toml [INFO] crate git repo https://github.com/eclarke/qgramr already has a lockfile, it will not be regenerated [INFO] running `"/workspace/cargo-home/bin/cargo" "+74e80468347471779be6060d8d7d6d04e98e467f" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] error: the lock file /workspace/builds/worker-5/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 [INFO] the lockfile is outdated, regenerating it [INFO] running `"/workspace/cargo-home/bin/cargo" "+74e80468347471779be6060d8d7d6d04e98e467f" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `"/workspace/cargo-home/bin/cargo" "+74e80468347471779be6060d8d7d6d04e98e467f" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] running `"docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5/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" "/opt/rustwide/cargo-home/bin/cargo" "+74e80468347471779be6060d8d7d6d04e98e467f" "check" "--frozen" "--all" "--all-targets"` [INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap. [INFO] [stdout] e22c23b18f09dc9e98001f0a631b63ae5a3c24fa2bdbaed67ca431c35074a785 [INFO] running `"docker" "start" "-a" "e22c23b18f09dc9e98001f0a631b63ae5a3c24fa2bdbaed67ca431c35074a785"` [INFO] [stderr] sudo: setrlimit(RLIMIT_CORE): Operation not permitted [INFO] [stderr] Compiling unicode-xid v0.2.0 [INFO] [stderr] Compiling autocfg v1.0.0 [INFO] [stderr] Compiling getrandom v0.1.14 [INFO] [stderr] Checking cfg-if v0.1.10 [INFO] [stderr] Checking lazy_static v1.4.0 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Compiling ryu v1.0.5 [INFO] [stderr] Compiling unicode-segmentation v1.6.0 [INFO] [stderr] Compiling bio v0.31.0 [INFO] [stderr] Checking itoa v0.4.5 [INFO] [stderr] Checking fixedbitset v0.1.9 [INFO] [stderr] Checking ordermap v0.3.5 [INFO] [stderr] Checking custom_derive v0.1.7 [INFO] [stderr] Checking itertools v0.9.0 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Checking regex-automata v0.1.9 [INFO] [stderr] Checking fxhash v0.2.1 [INFO] [stderr] Compiling proc-macro2 v1.0.18 [INFO] [stderr] Checking thread_local v1.0.1 [INFO] [stderr] Checking regex v1.3.9 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling num-traits v0.2.11 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling num-integer v0.1.42 [INFO] [stderr] Checking petgraph v0.4.13 [INFO] [stderr] Compiling heck v0.3.1 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking rand_core v0.5.1 [INFO] [stderr] Compiling quote v1.0.6 [INFO] [stderr] Checking rand_chacha v0.2.2 [INFO] [stderr] Compiling syn v1.0.30 [INFO] [stderr] Checking rand v0.7.3 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking ordered-float v1.0.2 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking ndarray v0.13.1 [INFO] [stderr] Checking statrs v0.12.0 [INFO] [stderr] Compiling serde_derive v1.0.111 [INFO] [stderr] Compiling snafu-derive v0.6.8 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling strum_macros v0.18.0 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Checking snafu v0.6.8 [INFO] [stderr] Checking serde v1.0.111 [INFO] [stderr] Checking bstr v0.2.13 [INFO] [stderr] Checking bio-types v0.6.0 [INFO] [stderr] Checking multimap v0.6.0 [INFO] [stderr] Checking bv v0.11.1 [INFO] [stderr] Checking vec_map v0.8.2 [INFO] [stderr] Checking csv v1.1.3 [INFO] [stderr] Checking qgramr v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] error[E0599]: no method named `read` found for struct `bio::io::fasta::Reader` in the current scope [INFO] [stderr] --> src/main.rs:9:12 [INFO] [stderr] | [INFO] [stderr] 9 | reader.read(&mut rec).ok().expect("Error reading record"); [INFO] [stderr] | ^^^^ method not found in `bio::io::fasta::Reader` [INFO] [stderr] | [INFO] [stderr] ::: /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/bio-0.31.0/src/io/fasta.rs:34:8 [INFO] [stderr] | [INFO] [stderr] 34 | fn read(&mut self, record: &mut Record) -> io::Result<()>; [INFO] [stderr] | ---- [INFO] [stderr] | | [INFO] [stderr] | the method is available for `std::boxed::Box>` here [INFO] [stderr] | the method is available for `std::sync::Arc>` here [INFO] [stderr] | the method is available for `std::rc::Rc>` here [INFO] [stderr] | [INFO] [stderr] = help: items from traits can only be used if the trait is in scope [INFO] [stderr] help: the following trait is implemented but not in scope; perhaps add a `use` for it: [INFO] [stderr] | [INFO] [stderr] 2 | use bio::io::fasta::FastaRead; [INFO] [stderr] | [INFO] [stderr] [INFO] [stderr] error[E0599]: no method named `expect` found for reference `&str` in the current scope [INFO] [stderr] --> src/main.rs:15:52 [INFO] [stderr] | [INFO] [stderr] 15 | println!("Building index over {}...", rec.id().expect("")); [INFO] [stderr] | ^^^^^^ method not found in `&str` [INFO] [stderr] [INFO] [stderr] error[E0599]: no method named `read` found for struct `bio::io::fasta::Reader` in the current scope [INFO] [stderr] --> src/main.rs:9:12 [INFO] [stderr] | [INFO] [stderr] 9 | reader.read(&mut rec).ok().expect("Error reading record"); [INFO] [stderr] | ^^^^ method not found in `bio::io::fasta::Reader` [INFO] [stderr] | [INFO] [stderr] ::: /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/bio-0.31.0/src/io/fasta.rs:34:8 [INFO] [stderr] | [INFO] [stderr] 34 | fn read(&mut self, record: &mut Record) -> io::Result<()>; [INFO] [stderr] | ---- [INFO] [stderr] | | [INFO] [stderr] | the method is available for `std::boxed::Box>` here [INFO] [stderr] | the method is available for `std::sync::Arc>` here [INFO] [stderr] | the method is available for `std::rc::Rc>` here [INFO] [stderr] | [INFO] [stderr] = help: items from traits can only be used if the trait is in scope [INFO] [stderr] help: the following trait is implemented but not in scope; perhaps add a `use` for it: [INFO] [stderr] | [INFO] [stderr] 2 | use bio::io::fasta::FastaRead; [INFO] [stderr] | [INFO] [stderr] [INFO] [stderr] error[E0599]: no method named `expect` found for reference `&str` in the current scope [INFO] [stderr] --> src/main.rs:15:52 [INFO] [stderr] | [INFO] [stderr] 15 | println!("Building index over {}...", rec.id().expect("")); [INFO] [stderr] | ^^^^^^ method not found in `&str` [INFO] [stderr] [INFO] [stderr] error: aborting due to 2 previous errors [INFO] [stderr] [INFO] [stderr] For more information about this error, try `rustc --explain E0599`. [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: aborting due to 2 previous errors [INFO] [stderr] [INFO] [stderr] For more information about this error, try `rustc --explain E0599`. [INFO] [stderr] error: build failed [INFO] running `"docker" "inspect" "e22c23b18f09dc9e98001f0a631b63ae5a3c24fa2bdbaed67ca431c35074a785"` [INFO] running `"docker" "rm" "-f" "e22c23b18f09dc9e98001f0a631b63ae5a3c24fa2bdbaed67ca431c35074a785"` [INFO] [stdout] e22c23b18f09dc9e98001f0a631b63ae5a3c24fa2bdbaed67ca431c35074a785