[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] 3e7d8a95e7b0d1a8dfe409c02b6a8c52d97e8bff [INFO] checking chfi/rs-handlegraph against master#430feb24a46993e5073c1bb1b39da190d83fa2bf for pr-78363 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fchfi%2Frs-handlegraph" "/workspace/builds/worker-9/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-9/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/chfi/rs-handlegraph on toolchain 430feb24a46993e5073c1bb1b39da190d83fa2bf [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+430feb24a46993e5073c1bb1b39da190d83fa2bf" "read-manifest" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] started tweaking 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-9/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" "+430feb24a46993e5073c1bb1b39da190d83fa2bf" "fetch" "--locked" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/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:d92eaeed33fa75130ca1ee6c8a01d1ffb62bac859dfdfb3450e3e5d1c0146529" "/opt/rustwide/cargo-home/bin/cargo" "+430feb24a46993e5073c1bb1b39da190d83fa2bf" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 11f30ba8c7c0397f2f4c3afd18ca02b016ecd0f62edb7eff3fb4bf9b26215c76 [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" "11f30ba8c7c0397f2f4c3afd18ca02b016ecd0f62edb7eff3fb4bf9b26215c76", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "11f30ba8c7c0397f2f4c3afd18ca02b016ecd0f62edb7eff3fb4bf9b26215c76", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "11f30ba8c7c0397f2f4c3afd18ca02b016ecd0f62edb7eff3fb4bf9b26215c76", kill_on_drop: false }` [INFO] [stdout] 11f30ba8c7c0397f2f4c3afd18ca02b016ecd0f62edb7eff3fb4bf9b26215c76 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-9/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:d92eaeed33fa75130ca1ee6c8a01d1ffb62bac859dfdfb3450e3e5d1c0146529" "/opt/rustwide/cargo-home/bin/cargo" "+430feb24a46993e5073c1bb1b39da190d83fa2bf" "check" "--frozen" "--all" "--all-targets" "--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] b62117e8a8f5c5b6769f0f7d1a3f709aa290a8d83b33e8079c42bcadd0f5a9dc [INFO] running `Command { std: "docker" "start" "-a" "b62117e8a8f5c5b6769f0f7d1a3f709aa290a8d83b33e8079c42bcadd0f5a9dc", kill_on_drop: false }` [INFO] [stderr] Compiling getrandom v0.1.15 [INFO] [stderr] Compiling semver v0.1.20 [INFO] [stderr] Checking ppv-lite86 v0.2.9 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling version_check v0.9.2 [INFO] [stderr] Compiling doc-comment v0.3.3 [INFO] [stderr] Compiling serde_json v1.0.57 [INFO] [stderr] Compiling ndarray v0.13.1 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Checking static_assertions v1.1.0 [INFO] [stderr] Checking fixedbitset v0.2.0 [INFO] [stderr] Checking array-macro v1.0.5 [INFO] [stderr] Compiling bio v0.32.0 [INFO] [stderr] Checking fnv v1.0.7 [INFO] [stderr] Checking bit-vec v0.6.2 [INFO] [stderr] Checking triple_accel v0.3.4 [INFO] [stderr] Checking bytecount v0.6.0 [INFO] [stderr] Checking strum v0.18.0 [INFO] [stderr] Compiling num-traits v0.2.12 [INFO] [stderr] Compiling num-complex v0.2.4 [INFO] [stderr] Compiling indexmap v1.6.0 [INFO] [stderr] Compiling num-integer v0.1.43 [INFO] [stderr] Checking itertools v0.9.0 [INFO] [stderr] Checking matrixmultiply v0.2.3 [INFO] [stderr] Checking bit-set v0.5.2 [INFO] [stderr] Checking csv-core v0.1.10 [INFO] [stderr] Checking lexical-core v0.7.4 [INFO] [stderr] Checking regex-automata v0.1.9 [INFO] [stderr] Compiling rustc_version v0.1.7 [INFO] [stderr] Compiling syn v1.0.38 [INFO] [stderr] Compiling bv v0.11.1 [INFO] [stderr] Checking env_logger v0.7.1 [INFO] [stderr] Compiling nom v5.1.2 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Checking rand_core v0.5.1 [INFO] [stderr] Checking petgraph v0.5.1 [INFO] [stderr] Checking rand_chacha v0.2.2 [INFO] [stderr] Checking rand v0.7.3 [INFO] [stderr] Checking itertools-num v0.1.3 [INFO] [stderr] Checking approx v0.3.2 [INFO] [stderr] Checking ordered-float v1.1.0 [INFO] [stderr] Checking succinct v0.5.2 [INFO] [stderr] Checking statrs v0.12.0 [INFO] [stderr] Checking quickcheck v0.9.2 [INFO] [stderr] Compiling serde_derive v1.0.114 [INFO] [stderr] Compiling enum-map-derive v0.4.3 [INFO] [stderr] Compiling snafu-derive v0.6.9 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling bytemuck_derive v1.0.0 [INFO] [stderr] Compiling strum_macros v0.18.0 [INFO] [stderr] Compiling getset v0.0.9 [INFO] [stderr] Checking enum-map v0.6.3 [INFO] [stderr] Checking bytemuck v1.4.1 [INFO] [stderr] Checking snafu v0.6.9 [INFO] [stderr] Checking serde v1.0.114 [INFO] [stderr] Checking bstr v0.2.13 [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 v1.1.3 [INFO] [stderr] Checking gfa v0.8.0 [INFO] [stderr] Checking handlegraph v0.5.0 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `Edge` [INFO] [stdout] --> src/handlegraph.rs:1:32 [INFO] [stdout] | [INFO] [stdout] 1 | use crate::handle::{Direction, Edge, Handle, NodeId}; [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `HandleGraphRef` [INFO] [stdout] --> src/hashgraph.rs:7:44 [INFO] [stdout] | [INFO] [stdout] 7 | AllEdges, AllHandles, HandleGraph, HandleGraphRef, HandleNeighbors, [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::alphabets::dna` [INFO] [stdout] --> src/packedgraph.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use bio::alphabets::dna; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `BString` [INFO] [stdout] --> src/packedgraph.rs:2:12 [INFO] [stdout] | [INFO] [stdout] 2 | use bstr::{BString, ByteSlice}; [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `GFA`, `Link`, `Orientation`, `Segment`, `optfields::OptFields` [INFO] [stdout] --> src/packedgraph/graph.rs:2:11 [INFO] [stdout] | [INFO] [stdout] 2 | gfa::{Link, Orientation, Segment, GFA}, [INFO] [stdout] | ^^^^ ^^^^^^^^^^^ ^^^^^^^ ^^^ [INFO] [stdout] 3 | optfields::OptFields, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Edge`, `mutablehandlegraph::MutableHandleGraph` [INFO] [stdout] --> src/packedgraph/graph.rs:7:25 [INFO] [stdout] | [INFO] [stdout] 7 | handle::{Direction, Edge, Handle, NodeId}, [INFO] [stdout] | ^^^^ [INFO] [stdout] 8 | handlegraph::HandleGraph, [INFO] [stdout] 9 | mutablehandlegraph::MutableHandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Sequences` [INFO] [stdout] --> src/packedgraph.rs:14:65 [INFO] [stdout] | [INFO] [stdout] 14 | use self::graph::{EdgeIx, EdgeLists, EdgeRecord, PackedSeqIter, Sequences}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Edge` [INFO] [stdout] --> src/handlegraph.rs:1:32 [INFO] [stdout] | [INFO] [stdout] 1 | use crate::handle::{Direction, Edge, Handle, NodeId}; [INFO] [stdout] | ^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `HandleGraphRef` [INFO] [stdout] --> src/hashgraph.rs:7:44 [INFO] [stdout] | [INFO] [stdout] 7 | AllEdges, AllHandles, HandleGraph, HandleGraphRef, HandleNeighbors, [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bio::alphabets::dna` [INFO] [stdout] --> src/packedgraph.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use bio::alphabets::dna; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `GFA`, `Link`, `Orientation`, `Segment`, `optfields::OptFields` [INFO] [stdout] --> src/packedgraph/graph.rs:2:11 [INFO] [stdout] | [INFO] [stdout] 2 | gfa::{Link, Orientation, Segment, GFA}, [INFO] [stdout] | ^^^^ ^^^^^^^^^^^ ^^^^^^^ ^^^ [INFO] [stdout] 3 | optfields::OptFields, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `HandleSequences` [INFO] [stdout] --> src/packedgraph/graph.rs:605:61 [INFO] [stdout] | [INFO] [stdout] 605 | use crate::handlegraph::{AllEdges, HandleNeighbors, HandleSequences}; [INFO] [stdout] | ^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `BString` [INFO] [stdout] --> src/packedgraph/graph.rs:606:20 [INFO] [stdout] | [INFO] [stdout] 606 | use bstr::{BString, B}; [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Sequences` [INFO] [stdout] --> src/packedgraph.rs:14:65 [INFO] [stdout] | [INFO] [stdout] 14 | use self::graph::{EdgeIx, EdgeLists, EdgeRecord, PackedSeqIter, Sequences}; [INFO] [stdout] | ^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0308]: mismatched types [INFO] [stdout] --> src/packedgraph/graph.rs:260:13 [INFO] [stdout] | [INFO] [stdout] 260 | let (h_ix, e_ix) = self [INFO] [stdout] | _____________^^^^^^^^^^^^___- [INFO] [stdout] | | | [INFO] [stdout] | | expected `usize`, found tuple [INFO] [stdout] 261 | | .iter(ix) [INFO] [stdout] 262 | | .enumerate() [INFO] [stdout] 263 | | .position(|(_, r)| r.handle == handle)?; [INFO] [stdout] | |___________________________________________________- this expression has type `usize` [INFO] [stdout] | [INFO] [stdout] = note: expected type `usize` [INFO] [stdout] found tuple `(_, _)` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0308]: mismatched types [INFO] [stdout] --> src/packedgraph/graph.rs:260:13 [INFO] [stdout] | [INFO] [stdout] 260 | let (h_ix, e_ix) = self [INFO] [stdout] | _____________^^^^^^^^^^^^___- [INFO] [stdout] | | | [INFO] [stdout] | | expected `usize`, found tuple [INFO] [stdout] 261 | | .iter(ix) [INFO] [stdout] 262 | | .enumerate() [INFO] [stdout] 263 | | .position(|(_, r)| r.handle == handle)?; [INFO] [stdout] | |___________________________________________________- this expression has type `usize` [INFO] [stdout] | [INFO] [stdout] = note: expected type `usize` [INFO] [stdout] found tuple `(_, _)` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0308]: mismatched types [INFO] [stdout] --> src/packedgraph/graph.rs:265:22 [INFO] [stdout] | [INFO] [stdout] 265 | if h_ix == 0 { [INFO] [stdout] | ______________________^ [INFO] [stdout] 266 | | // Only remove the record in question [INFO] [stdout] 267 | | self.null_record(ix); [INFO] [stdout] 268 | | Some(ix); [INFO] [stdout] | | - help: consider removing this semicolon [INFO] [stdout] 269 | | } else { [INFO] [stdout] | |_________^ expected enum `Option`, found `()` [INFO] [stdout] | [INFO] [stdout] = note: expected enum `Option` [INFO] [stdout] found unit type `()` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0308]: mismatched types [INFO] [stdout] --> src/packedgraph/graph.rs:265:22 [INFO] [stdout] | [INFO] [stdout] 265 | if h_ix == 0 { [INFO] [stdout] | ______________________^ [INFO] [stdout] 266 | | // Only remove the record in question [INFO] [stdout] 267 | | self.null_record(ix); [INFO] [stdout] 268 | | Some(ix); [INFO] [stdout] | | - help: consider removing this semicolon [INFO] [stdout] 269 | | } else { [INFO] [stdout] | |_________^ expected enum `Option`, found `()` [INFO] [stdout] | [INFO] [stdout] = note: expected enum `Option` [INFO] [stdout] found unit type `()` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0599]: no method named `to_edge_list_ix` found for struct `EdgeRecord` in the current scope [INFO] [stdout] --> src/packedgraph/graph.rs:273:35 [INFO] [stdout] | [INFO] [stdout] 146 | pub struct EdgeRecord { [INFO] [stdout] | --------------------- method `to_edge_list_ix` not found for this [INFO] [stdout] ... [INFO] [stdout] 273 | let prec_ix = prec_ix.to_edge_list_ix(); [INFO] [stdout] | ^^^^^^^^^^^^^^^ method not found in `EdgeRecord` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::HandleGraph` [INFO] [stdout] --> src/construction.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | handlegraph::HandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::HandleGraph` [INFO] [stdout] --> src/hashgraph/graph.rs:11:5 [INFO] [stdout] | [INFO] [stdout] 11 | handlegraph::HandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::HandleGraph` [INFO] [stdout] --> src/packedgraph/graph.rs:8:5 [INFO] [stdout] | [INFO] [stdout] 8 | handlegraph::HandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0599]: no method named `to_edge_list_ix` found for struct `EdgeRecord` in the current scope [INFO] [stdout] --> src/packedgraph/graph.rs:273:35 [INFO] [stdout] | [INFO] [stdout] 146 | pub struct EdgeRecord { [INFO] [stdout] | --------------------- method `to_edge_list_ix` not found for this [INFO] [stdout] ... [INFO] [stdout] 273 | let prec_ix = prec_ix.to_edge_list_ix(); [INFO] [stdout] | ^^^^^^^^^^^^^^^ method not found in `EdgeRecord` [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to 3 previous errors; 10 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] Some errors have detailed explanations: E0308, E0599. [INFO] [stdout] [INFO] [stdout] For more information about an error, try `rustc --explain E0308`. [INFO] [stdout] [INFO] [stderr] error: could not compile `handlegraph` [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] [stdout] warning: unused import: `handlegraph::HandleGraph` [INFO] [stdout] --> src/construction.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | handlegraph::HandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::HandleGraph` [INFO] [stdout] --> src/hashgraph/graph.rs:11:5 [INFO] [stdout] | [INFO] [stdout] 11 | handlegraph::HandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::HandleGraph` [INFO] [stdout] --> src/packedgraph/graph.rs:8:5 [INFO] [stdout] | [INFO] [stdout] 8 | handlegraph::HandleGraph, [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to 3 previous errors; 10 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] Some errors have detailed explanations: E0308, E0599. [INFO] [stdout] [INFO] [stdout] For more information about an error, try `rustc --explain E0308`. [INFO] [stdout] [INFO] [stderr] error: build failed [INFO] running `Command { std: "docker" "inspect" "b62117e8a8f5c5b6769f0f7d1a3f709aa290a8d83b33e8079c42bcadd0f5a9dc", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "b62117e8a8f5c5b6769f0f7d1a3f709aa290a8d83b33e8079c42bcadd0f5a9dc", kill_on_drop: false }` [INFO] [stdout] b62117e8a8f5c5b6769f0f7d1a3f709aa290a8d83b33e8079c42bcadd0f5a9dc