[INFO] cloning repository https://github.com/chfi/rs-handlegraph [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/chfi/rs-handlegraph" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fchfi%2Frs-handlegraph", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fchfi%2Frs-handlegraph'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 320b8f1904fba07f6acbd985bc51ab09cdc65b50 [INFO] checking chfi/rs-handlegraph against master#c919f490bbcd2b29b74016101f7ec71aaa24bdbb for pr-79073 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fchfi%2Frs-handlegraph" "/workspace/builds/worker-8/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-8/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/chfi/rs-handlegraph on toolchain c919f490bbcd2b29b74016101f7ec71aaa24bdbb [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+c919f490bbcd2b29b74016101f7ec71aaa24bdbb" "read-manifest" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/chfi/rs-handlegraph [INFO] removed path dependency gfa from git repo https://github.com/chfi/rs-handlegraph [INFO] finished tweaking git repo https://github.com/chfi/rs-handlegraph [INFO] tweaked toml for git repo https://github.com/chfi/rs-handlegraph written to /workspace/builds/worker-8/source/Cargo.toml [INFO] crate git repo https://github.com/chfi/rs-handlegraph already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+c919f490bbcd2b29b74016101f7ec71aaa24bdbb" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] warning: dependency (gfa) specified without providing a local path, Git repository, or version to use. This will be considered an error in future versions [INFO] [stderr] Updating crates.io index [INFO] [stderr] error: the lock file /workspace/builds/worker-8/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 [INFO] the lockfile is outdated, regenerating it [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+c919f490bbcd2b29b74016101f7ec71aaa24bdbb" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update", kill_on_drop: false }` [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+c919f490bbcd2b29b74016101f7ec71aaa24bdbb" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] warning: dependency (gfa) specified without providing a local path, Git repository, or version to use. This will be considered an error in future versions [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-8/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-8/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" "+c919f490bbcd2b29b74016101f7ec71aaa24bdbb" "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] 7d4404027bbffab36d656de4460ff14b1efe93d3c678f284c6797c6dfce27745 [INFO] running `Command { std: "docker" "start" "-a" "7d4404027bbffab36d656de4460ff14b1efe93d3c678f284c6797c6dfce27745", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "7d4404027bbffab36d656de4460ff14b1efe93d3c678f284c6797c6dfce27745", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "7d4404027bbffab36d656de4460ff14b1efe93d3c678f284c6797c6dfce27745", kill_on_drop: false }` [INFO] [stdout] 7d4404027bbffab36d656de4460ff14b1efe93d3c678f284c6797c6dfce27745 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-8/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-8/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" "+c919f490bbcd2b29b74016101f7ec71aaa24bdbb" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 6553b2ecb2fab8d5dfee14505a58f357365d0857d14a4090f1729a71bd6cc903 [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" "6553b2ecb2fab8d5dfee14505a58f357365d0857d14a4090f1729a71bd6cc903", kill_on_drop: false }` [INFO] [stderr] warning: dependency (gfa) specified without providing a local path, Git repository, or version to use. This will be considered an error in future versions [INFO] [stderr] Checking lazy_static v1.4.0 [INFO] [stderr] Checking cfg-if v0.1.10 [INFO] [stderr] Compiling byteorder v1.3.4 [INFO] [stderr] Compiling syn v1.0.51 [INFO] [stderr] Compiling getrandom v0.1.15 [INFO] [stderr] Checking scopeguard v1.1.0 [INFO] [stderr] Compiling lexical-core v0.7.4 [INFO] [stderr] Checking arrayvec v0.5.2 [INFO] [stderr] Checking static_assertions v1.1.0 [INFO] [stderr] Checking ppv-lite86 v0.2.10 [INFO] [stderr] Compiling crossbeam-utils v0.8.0 [INFO] [stderr] Compiling memoffset v0.5.6 [INFO] [stderr] Compiling rayon v1.5.0 [INFO] [stderr] Compiling nom v5.1.2 [INFO] [stderr] Checking num_cpus v1.13.0 [INFO] [stderr] Checking log v0.4.11 [INFO] [stderr] Checking thread_local v1.0.1 [INFO] [stderr] Checking regex v1.4.2 [INFO] [stderr] Checking rand_core v0.5.1 [INFO] [stderr] Checking crossbeam-epoch v0.9.0 [INFO] [stderr] Checking crossbeam-channel v0.5.0 [INFO] [stderr] Checking rand_chacha v0.2.2 [INFO] [stderr] Checking regex-automata v0.1.9 [INFO] [stderr] Checking succinct v0.5.2 [INFO] [stderr] Checking rand v0.7.3 [INFO] [stderr] Checking crossbeam-deque v0.8.0 [INFO] [stderr] Checking bstr v0.2.14 [INFO] [stderr] Checking rayon-core v1.9.0 [INFO] [stderr] Checking env_logger v0.7.1 [INFO] [stderr] Checking quickcheck v0.9.2 [INFO] [stderr] Compiling bytemuck_derive v1.0.0 [INFO] [stderr] Checking bytemuck v1.4.1 [INFO] [stderr] Checking gfa v0.9.0 [INFO] [stderr] Checking handlegraph v0.5.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused imports: `MutPath`, `PathStep`, `PathSteps`, `StepUpdate` [INFO] [stdout] --> src/pathhandlegraph/embedded_paths.rs:17:13 [INFO] [stdout] | [INFO] [stdout] 17 | use super::{MutPath, PathBase, PathId, PathStep, PathSteps, StepUpdate}; [INFO] [stdout] | ^^^^^^^ ^^^^^^^^ ^^^^^^^^^ ^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `EdgeRecord` [INFO] [stdout] --> src/packedgraph.rs:36:36 [INFO] [stdout] | [INFO] [stdout] 36 | use edges::{EdgeListIx, EdgeLists, EdgeRecord}; [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `NodeRecordId`, `PackedDoubleList`, `PackedListMut`, `PackedList` [INFO] [stdout] --> src/packedgraph.rs:45:18 [INFO] [stdout] | [INFO] [stdout] 45 | list::{self, PackedDoubleList, PackedList, PackedListMut}, [INFO] [stdout] | ^^^^^^^^^^^^^^^^ ^^^^^^^^^^ ^^^^^^^^^^^^^ [INFO] [stdout] 46 | NodeRecordId, OneBasedIndex, RecordIndex, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `NodeIdIndexMap`, `NodeRecords` [INFO] [stdout] --> src/packedgraph.rs:53:27 [INFO] [stdout] | [INFO] [stdout] 53 | use nodes::{IndexMapIter, NodeIdIndexMap, NodeRecords}; [INFO] [stdout] | ^^^^^^^^^^^^^^ ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Sequences` [INFO] [stdout] --> src/packedgraph.rs:55:31 [INFO] [stdout] | [INFO] [stdout] 55 | use sequence::{PackedSeqIter, Sequences}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `NodeOccurrences`, `OccurRecord` [INFO] [stdout] --> src/packedgraph.rs:58:19 [INFO] [stdout] | [INFO] [stdout] 58 | use occurrences::{NodeOccurrences, OccurRecord, OccurrencesIter}; [INFO] [stdout] | ^^^^^^^^^^^^^^^ ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `MutPath`, `PathStep`, `PathSteps`, `StepUpdate` [INFO] [stdout] --> src/pathhandlegraph/embedded_paths.rs:17:13 [INFO] [stdout] | [INFO] [stdout] 17 | use super::{MutPath, PathBase, PathId, PathStep, PathSteps, StepUpdate}; [INFO] [stdout] | ^^^^^^^ ^^^^^^^^ ^^^^^^^^^ ^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `EdgeRecord` [INFO] [stdout] --> src/packedgraph.rs:36:36 [INFO] [stdout] | [INFO] [stdout] 36 | use edges::{EdgeListIx, EdgeLists, EdgeRecord}; [INFO] [stdout] | ^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `NodeRecordId`, `PackedDoubleList`, `PackedListMut` [INFO] [stdout] --> src/packedgraph.rs:45:18 [INFO] [stdout] | [INFO] [stdout] 45 | list::{self, PackedDoubleList, PackedList, PackedListMut}, [INFO] [stdout] | ^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^ [INFO] [stdout] 46 | NodeRecordId, OneBasedIndex, RecordIndex, [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `NodeIdIndexMap`, `NodeRecords` [INFO] [stdout] --> src/packedgraph.rs:53:27 [INFO] [stdout] | [INFO] [stdout] 53 | use nodes::{IndexMapIter, NodeIdIndexMap, NodeRecords}; [INFO] [stdout] | ^^^^^^^^^^^^^^ ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Sequences` [INFO] [stdout] --> src/packedgraph.rs:55:31 [INFO] [stdout] | [INFO] [stdout] 55 | use sequence::{PackedSeqIter, Sequences}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `NodeOccurrences`, `OccurRecord` [INFO] [stdout] --> src/packedgraph.rs:58:19 [INFO] [stdout] | [INFO] [stdout] 58 | use occurrences::{NodeOccurrences, OccurRecord, OccurrencesIter}; [INFO] [stdout] | ^^^^^^^^^^^^^^^ ^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `handle` [INFO] [stdout] --> src/packedgraph.rs:373:37 [INFO] [stdout] | [INFO] [stdout] 373 | fn apply_orientation(&mut self, handle: Handle) -> Handle { [INFO] [stdout] | ^^^^^^ help: if this is intentional, prefix it with an underscore: `_handle` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `handle` [INFO] [stdout] --> src/packedgraph.rs:373:37 [INFO] [stdout] | [INFO] [stdout] 373 | fn apply_orientation(&mut self, handle: Handle) -> Handle { [INFO] [stdout] | ^^^^^^ help: if this is intentional, prefix it with an underscore: `_handle` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `get_node_edge_lists` [INFO] [stdout] --> src/packedgraph/nodes.rs:461:19 [INFO] [stdout] | [INFO] [stdout] 461 | pub(super) fn get_node_edge_lists( [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: `update_node_edge_lists` [INFO] [stdout] --> src/packedgraph/nodes.rs:494:19 [INFO] [stdout] | [INFO] [stdout] 494 | pub(super) fn update_node_edge_lists( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `append_empty` [INFO] [stdout] --> src/packedgraph/paths/properties.rs:44:19 [INFO] [stdout] | [INFO] [stdout] 44 | pub(super) fn append_empty(&mut self) { [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `overwrite_sequence` [INFO] [stdout] --> src/packedgraph/sequence.rs:135:19 [INFO] [stdout] | [INFO] [stdout] 135 | pub(super) fn overwrite_sequence( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 11 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `update_node_edge_lists` [INFO] [stdout] --> src/packedgraph/nodes.rs:494:19 [INFO] [stdout] | [INFO] [stdout] 494 | pub(super) fn update_node_edge_lists( [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: `append_empty` [INFO] [stdout] --> src/packedgraph/paths/properties.rs:44:19 [INFO] [stdout] | [INFO] [stdout] 44 | pub(super) fn append_empty(&mut self) { [INFO] [stdout] | ^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: associated function is never used: `overwrite_sequence` [INFO] [stdout] --> src/packedgraph/sequence.rs:135:19 [INFO] [stdout] | [INFO] [stdout] 135 | pub(super) fn overwrite_sequence( [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 10 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 46.18s [INFO] running `Command { std: "docker" "inspect" "6553b2ecb2fab8d5dfee14505a58f357365d0857d14a4090f1729a71bd6cc903", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "6553b2ecb2fab8d5dfee14505a58f357365d0857d14a4090f1729a71bd6cc903", kill_on_drop: false }` [INFO] [stdout] 6553b2ecb2fab8d5dfee14505a58f357365d0857d14a4090f1729a71bd6cc903