[INFO] cloning repository https://github.com/HopedWall/rs-vgaligner [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/HopedWall/rs-vgaligner" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHopedWall%2Frs-vgaligner", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHopedWall%2Frs-vgaligner'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] 2d669bcd0c4040e688bde15bd32686fd5867389a [INFO] checking HopedWall/rs-vgaligner against master#8007b506ac5da629f223b755f5a5391edd5f6d01 for pr-88041 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHopedWall%2Frs-vgaligner" "/workspace/builds/worker-113/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-113/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/HopedWall/rs-vgaligner on toolchain 8007b506ac5da629f223b755f5a5391edd5f6d01 [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+8007b506ac5da629f223b755f5a5391edd5f6d01" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/HopedWall/rs-vgaligner [INFO] finished tweaking git repo https://github.com/HopedWall/rs-vgaligner [INFO] tweaked toml for git repo https://github.com/HopedWall/rs-vgaligner written to /workspace/builds/worker-113/source/Cargo.toml [INFO] crate git repo https://github.com/HopedWall/rs-vgaligner already has a lockfile, it will not be regenerated [INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+8007b506ac5da629f223b755f5a5391edd5f6d01" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Downloading crates ... 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[stderr] Checking multimap v0.8.2 [INFO] [stderr] Checking serde_with v1.8.1 [INFO] [stderr] Checking bincode v1.3.3 [INFO] [stderr] Checking boomphf v0.5.9 [INFO] [stderr] Checking clap v2.33.3 [INFO] [stderr] Checking csv v1.1.5 [INFO] [stderr] Checking gfa v0.8.0 [INFO] [stderr] Checking handlegraph v0.5.0 [INFO] [stderr] Checking vgaligner v0.1.0 (/opt/rustwide/workdir) [INFO] [stdout] error[E0252]: the name `VecDeque` is defined multiple times [INFO] [stdout] --> src/chain.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 6 | use std::collections::VecDeque; [INFO] [stdout] | -------------------------- previous import of the type `VecDeque` here [INFO] [stdout] ... [INFO] [stdout] 14 | use std::collections::vec_deque::VecDeque; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ `VecDeque` reimported here [INFO] [stdout] | [INFO] [stdout] = note: `VecDeque` must be defined only once in the type namespace of this module [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error[E0252]: the name `VecDeque` is defined multiple times [INFO] [stdout] --> src/chain.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 6 | use std::collections::VecDeque; [INFO] [stdout] | -------------------------- previous import of the type `VecDeque` here [INFO] [stdout] ... [INFO] [stdout] 14 | use std::collections::vec_deque::VecDeque; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ `VecDeque` reimported here [INFO] [stdout] | [INFO] [stdout] = note: `VecDeque` must be defined only once in the type namespace of this module [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::handlegraph::HandleGraph` [INFO] [stdout] --> src/subcommands/index_main.rs:6:5 [INFO] [stdout] | [INFO] [stdout] 6 | use handlegraph::handlegraph::HandleGraph; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ahash::RandomState` [INFO] [stdout] --> src/index.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use ahash::RandomState; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `generate_kmers_linearly`, `generate_pos_on_ref` [INFO] [stdout] --> src/index.rs:8:35 [INFO] [stdout] | [INFO] [stdout] 8 | use crate::kmer::{generate_kmers, generate_kmers_linearly, generate_pos_on_ref, generate_pos_on_ref_2, Kmer, KmerPos, generate_hash}; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::cmp::Ordering` [INFO] [stdout] --> src/index.rs:13:5 [INFO] [stdout] | [INFO] [stdout] 13 | use std::cmp::Ordering; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::error::Error` [INFO] [stdout] --> src/index.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::error::Error; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::collections::HashSet` [INFO] [stdout] --> src/index.rs:15:5 [INFO] [stdout] | [INFO] [stdout] 15 | use std::collections::HashSet; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::iter::FromIterator` [INFO] [stdout] --> src/index.rs:16:5 [INFO] [stdout] | [INFO] [stdout] 16 | use std::iter::FromIterator; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `IntoParallelIterator`, `IntoParallelRefIterator` [INFO] [stdout] --> src/map.rs:6:19 [INFO] [stdout] | [INFO] [stdout] 6 | use rayon::iter::{IntoParallelRefIterator, IntoParallelIterator}; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bstr::io::BufReadExt` [INFO] [stdout] --> src/io.rs:4:5 [INFO] [stdout] | [INFO] [stdout] 4 | use bstr::io::BufReadExt; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `itertools::Itertools` [INFO] [stdout] --> src/io.rs:8:5 [INFO] [stdout] | [INFO] [stdout] 8 | use itertools::Itertools; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::io` [INFO] [stdout] --> src/io.rs:10:5 [INFO] [stdout] | [INFO] [stdout] 10 | use std::io; [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Deref`, `Index` [INFO] [stdout] --> src/kmer.rs:17:16 [INFO] [stdout] | [INFO] [stdout] 17 | use std::ops::{Index, Deref}; [INFO] [stdout] | ^^^^^ ^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Read` [INFO] [stdout] --> src/serialization.rs:2:22 [INFO] [stdout] | [INFO] [stdout] 2 | use std::io::{Write, Read, BufReader}; [INFO] [stdout] | ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `substring::Substring` [INFO] [stdout] --> src/chain.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use substring::Substring; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `itertools::Unique` [INFO] [stdout] --> src/chain.rs:5:5 [INFO] [stdout] | [INFO] [stdout] 5 | use itertools::Unique; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::ops::Deref` [INFO] [stdout] --> src/chain.rs:7:5 [INFO] [stdout] | [INFO] [stdout] 7 | use std::ops::Deref; [INFO] [stdout] | ^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::collections::vec_deque::VecDeque` [INFO] [stdout] --> src/chain.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::collections::vec_deque::VecDeque; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around method argument [INFO] [stdout] --> src/chain.rs:331:30 [INFO] [stdout] | [INFO] [stdout] 331 | interval_tree.insert((query_begin..query_end), chain.clone()); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around method argument [INFO] [stdout] --> src/chain.rs:343:43 [INFO] [stdout] | [INFO] [stdout] 343 | let ovlp = interval_tree.find((chain_begin..chain_end)); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around function argument [INFO] [stdout] --> src/chain.rs:370:39 [INFO] [stdout] | [INFO] [stdout] 370 | * cmp::min(1, (chain.anchors.len()/10)) as f64 [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::handlegraph::HandleGraph` [INFO] [stdout] --> src/subcommands/index_main.rs:6:5 [INFO] [stdout] | [INFO] [stdout] 6 | use handlegraph::handlegraph::HandleGraph; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ahash::RandomState` [INFO] [stdout] --> src/index.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use ahash::RandomState; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `generate_kmers_linearly`, `generate_pos_on_ref` [INFO] [stdout] --> src/index.rs:8:35 [INFO] [stdout] | [INFO] [stdout] 8 | use crate::kmer::{generate_kmers, generate_kmers_linearly, generate_pos_on_ref, generate_pos_on_ref_2, Kmer, KmerPos, generate_hash}; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::cmp::Ordering` [INFO] [stdout] --> src/index.rs:13:5 [INFO] [stdout] | [INFO] [stdout] 13 | use std::cmp::Ordering; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::error::Error` [INFO] [stdout] --> src/index.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::error::Error; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::collections::HashSet` [INFO] [stdout] --> src/index.rs:15:5 [INFO] [stdout] | [INFO] [stdout] 15 | use std::collections::HashSet; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::iter::FromIterator` [INFO] [stdout] --> src/index.rs:16:5 [INFO] [stdout] | [INFO] [stdout] 16 | use std::iter::FromIterator; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `handlegraph::handle::Handle` [INFO] [stdout] --> src/index.rs:377:9 [INFO] [stdout] | [INFO] [stdout] 377 | use handlegraph::handle::Handle; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `IntoParallelIterator`, `IntoParallelRefIterator` [INFO] [stdout] --> src/map.rs:6:19 [INFO] [stdout] | [INFO] [stdout] 6 | use rayon::iter::{IntoParallelRefIterator, IntoParallelIterator}; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^ ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `bstr::io::BufReadExt` [INFO] [stdout] --> src/io.rs:4:5 [INFO] [stdout] | [INFO] [stdout] 4 | use bstr::io::BufReadExt; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `itertools::Itertools` [INFO] [stdout] --> src/io.rs:8:5 [INFO] [stdout] | [INFO] [stdout] 8 | use itertools::Itertools; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::io` [INFO] [stdout] --> src/io.rs:10:5 [INFO] [stdout] | [INFO] [stdout] 10 | use std::io; [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `Deref`, `Index` [INFO] [stdout] --> src/kmer.rs:17:16 [INFO] [stdout] | [INFO] [stdout] 17 | use std::ops::{Index, Deref}; [INFO] [stdout] | ^^^^^ ^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `Read` [INFO] [stdout] --> src/serialization.rs:2:22 [INFO] [stdout] | [INFO] [stdout] 2 | use std::io::{Write, Read, BufReader}; [INFO] [stdout] | ^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `substring::Substring` [INFO] [stdout] --> src/chain.rs:3:5 [INFO] [stdout] | [INFO] [stdout] 3 | use substring::Substring; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `itertools::Unique` [INFO] [stdout] --> src/chain.rs:5:5 [INFO] [stdout] | [INFO] [stdout] 5 | use itertools::Unique; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::ops::Deref` [INFO] [stdout] --> src/chain.rs:7:5 [INFO] [stdout] | [INFO] [stdout] 7 | use std::ops::Deref; [INFO] [stdout] | ^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::collections::vec_deque::VecDeque` [INFO] [stdout] --> src/chain.rs:14:5 [INFO] [stdout] | [INFO] [stdout] 14 | use std::collections::vec_deque::VecDeque; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around method argument [INFO] [stdout] --> src/chain.rs:331:30 [INFO] [stdout] | [INFO] [stdout] 331 | interval_tree.insert((query_begin..query_end), chain.clone()); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_parens)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around method argument [INFO] [stdout] --> src/chain.rs:343:43 [INFO] [stdout] | [INFO] [stdout] 343 | let ovlp = interval_tree.find((chain_begin..chain_end)); [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unnecessary parentheses around function argument [INFO] [stdout] --> src/chain.rs:370:39 [INFO] [stdout] | [INFO] [stdout] 370 | * cmp::min(1, (chain.anchors.len()/10)) as f64 [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `rayon::prelude` [INFO] [stdout] --> src/io.rs:9:5 [INFO] [stdout] | [INFO] [stdout] 9 | use rayon::prelude::*; [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `rayon::prelude` [INFO] [stdout] --> src/chain.rs:12:5 [INFO] [stdout] | [INFO] [stdout] 12 | use rayon::prelude::*; [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to previous error; 22 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0252`. [INFO] [stdout] [INFO] [stderr] error: could not compile `vgaligner` due to 2 previous errors; 22 warnings emitted [INFO] [stderr] warning: build failed, waiting for other jobs to finish... [INFO] [stdout] warning: unused import: `rayon::prelude` [INFO] [stdout] --> src/io.rs:9:5 [INFO] [stdout] | [INFO] [stdout] 9 | use rayon::prelude::*; [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `rayon::prelude` [INFO] [stdout] --> src/chain.rs:12:5 [INFO] [stdout] | [INFO] [stdout] 12 | use rayon::prelude::*; [INFO] [stdout] | ^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] error: aborting due to previous error; 23 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] For more information about this error, try `rustc --explain E0252`. [INFO] [stdout] [INFO] [stderr] error: build failed [INFO] running `Command { std: "docker" "inspect" "f3ca65043e49971376bb36941cf7142332aa38b9c4718fca1eb2449adb7a1a6f", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "f3ca65043e49971376bb36941cf7142332aa38b9c4718fca1eb2449adb7a1a6f", kill_on_drop: false }` [INFO] [stdout] f3ca65043e49971376bb36941cf7142332aa38b9c4718fca1eb2449adb7a1a6f