[INFO] cloning repository https://github.com/rhysnewell/Kallisto_Indexer
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/rhysnewell/Kallisto_Indexer" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Frhysnewell%2FKallisto_Indexer", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Frhysnewell%2FKallisto_Indexer'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] fb2da531c4e51b75f98c9782bc949a5d3d711a18
[INFO] building rhysnewell/Kallisto_Indexer against master#ff34b919075f35a1787659e9c448a34b06bab8de for issue-85264
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Frhysnewell%2FKallisto_Indexer" "/workspace/builds/worker-10/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-10/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/rhysnewell/Kallisto_Indexer on toolchain ff34b919075f35a1787659e9c448a34b06bab8de
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+ff34b919075f35a1787659e9c448a34b06bab8de" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/rhysnewell/Kallisto_Indexer
[INFO] finished tweaking git repo https://github.com/rhysnewell/Kallisto_Indexer
[INFO] tweaked toml for git repo https://github.com/rhysnewell/Kallisto_Indexer written to /workspace/builds/worker-10/source/Cargo.toml
[INFO] crate git repo https://github.com/rhysnewell/Kallisto_Indexer already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+ff34b919075f35a1787659e9c448a34b06bab8de" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-10/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-10/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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:20528e8c29e4536546f0102ce88568b16ea7538393a33fcca951030f7af10457" "/opt/rustwide/cargo-home/bin/cargo" "+ff34b919075f35a1787659e9c448a34b06bab8de" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 0fc320f7e01f06f2d7b57ca1927e1753e14a0cad076991fcd61f5624d6f61321
[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" "0fc320f7e01f06f2d7b57ca1927e1753e14a0cad076991fcd61f5624d6f61321", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "0fc320f7e01f06f2d7b57ca1927e1753e14a0cad076991fcd61f5624d6f61321", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "0fc320f7e01f06f2d7b57ca1927e1753e14a0cad076991fcd61f5624d6f61321", kill_on_drop: false }`
[INFO] [stdout] 0fc320f7e01f06f2d7b57ca1927e1753e14a0cad076991fcd61f5624d6f61321
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-10/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-10/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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:20528e8c29e4536546f0102ce88568b16ea7538393a33fcca951030f7af10457" "/opt/rustwide/cargo-home/bin/cargo" "+ff34b919075f35a1787659e9c448a34b06bab8de" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 13ec9da27732845917b24ec0c8030d59e9553d3a6be2459e66563a2c54aea4a8
[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" "13ec9da27732845917b24ec0c8030d59e9553d3a6be2459e66563a2c54aea4a8", kill_on_drop: false }`
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[INFO] [stderr]    Compiling env_logger v0.4.3
[INFO] [stderr]    Compiling env_logger v0.5.13
[INFO] [stderr]    Compiling serde_derive v1.0.79
[INFO] [stderr]    Compiling vec_map v0.8.1
[INFO] [stderr]    Compiling multimap v0.4.0
[INFO] [stderr]    Compiling csv v1.0.2
[INFO] [stderr]    Compiling bio-types v0.3.0
[INFO] [stderr]    Compiling clap v2.32.0
[INFO] [stderr]    Compiling bio v0.20.3
[INFO] [stderr]    Compiling rust-htslib v0.21.1-alpha.0 (https://github.com/rust-bio/rust-htslib#1f9736ef)
[INFO] [stderr]    Compiling kmer_indexer v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `std::collections::hash_map::Entry`
[INFO] [stdout]  --> src/genomes_and_contigs.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use std::collections::hash_map::Entry;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::cmp::min`
[INFO] [stdout]   --> src/lib.rs:23:5
[INFO] [stdout]    |
[INFO] [stdout] 23 | use std::cmp::min;
[INFO] [stdout]    |     ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::collections`
[INFO] [stdout]   --> src/lib.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 | use std::collections;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated macro `try`: use the `?` operator instead
[INFO] [stdout]    --> src/lib.rs:188:13
[INFO] [stdout]     |
[INFO] [stdout] 188 |             try!(self.reader.read_line(&mut self.line));
[INFO] [stdout]     |             ^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(deprecated)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated macro `try`: use the `?` operator instead
[INFO] [stdout]    --> src/lib.rs:213:13
[INFO] [stdout]     |
[INFO] [stdout] 213 |             try!(self.reader.read_line(&mut self.line));
[INFO] [stdout]     |             ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated associated function `core::str::<impl str>::trim_right`: superseded by `trim_end`
[INFO] [stdout]    --> src/lib.rs:201:14
[INFO] [stdout]     |
[INFO] [stdout] 201 |             .trim_right()
[INFO] [stdout]     |              ^^^^^^^^^^ help: replace the use of the deprecated associated function: `trim_end`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated associated function `core::str::<impl str>::trim_right`: superseded by `trim_end`
[INFO] [stdout]    --> src/lib.rs:207:14
[INFO] [stdout]     |
[INFO] [stdout] 207 |             .trim_right()
[INFO] [stdout]     |              ^^^^^^^^^^ help: replace the use of the deprecated associated function: `trim_end`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/lib.rs:276:13
[INFO] [stdout]     |
[INFO] [stdout] 276 |         let mut reader = Reader::from_file(path);
[INFO] [stdout]     |             ----^^^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/lib.rs:277:13
[INFO] [stdout]     |
[INFO] [stdout] 277 |         let mut name = file.to_string();
[INFO] [stdout]     |             ----^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]   --> src/genomes_and_contigs.rs:40:17
[INFO] [stdout]    |
[INFO] [stdout] 40 |             let mut gen = genome.lines();
[INFO] [stdout]    |                 ----^^^
[INFO] [stdout]    |                 |
[INFO] [stdout]    |                 help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]   --> src/genomes_and_contigs.rs:44:17
[INFO] [stdout]    |
[INFO] [stdout] 44 |             let mut joined_genome = full_gen.join("").to_uppercase();
[INFO] [stdout]    |                 ----^^^^^^^^^^^^^
[INFO] [stdout]    |                 |
[INFO] [stdout]    |                 help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function is never used: `find_first`
[INFO] [stdout]   --> src/genomes_and_contigs.rs:94:4
[INFO] [stdout]    |
[INFO] [stdout] 94 | fn find_first<T>(slice: &[T], element: T) -> Result<usize, &'static str>
[INFO] [stdout]    |    ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(dead_code)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 12 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `#[macro_use]` import
[INFO] [stdout]   --> src/main.rs:11:1
[INFO] [stdout]    |
[INFO] [stdout] 11 | #[macro_use]
[INFO] [stdout]    | ^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `log::LogLevelFilter`
[INFO] [stdout]   --> src/main.rs:13:5
[INFO] [stdout]    |
[INFO] [stdout] 13 | use log::LogLevelFilter;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `env_logger::LogBuilder`
[INFO] [stdout]   --> src/main.rs:15:5
[INFO] [stdout]    |
[INFO] [stdout] 15 | use env_logger::LogBuilder;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `kmer_indexer::genomes_and_contigs`
[INFO] [stdout]   --> src/main.rs:17:5
[INFO] [stdout]    |
[INFO] [stdout] 17 | use kmer_indexer::genomes_and_contigs;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `tempdir`, `tempfile`
[INFO] [stdout]   --> src/main.rs:18:16
[INFO] [stdout]    |
[INFO] [stdout] 18 | use tempfile::{tempfile, tempdir, Builder};
[INFO] [stdout]    |                ^^^^^^^^  ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `self`
[INFO] [stdout]   --> src/main.rs:19:15
[INFO] [stdout]    |
[INFO] [stdout] 19 | use std::io::{self, Write, Read};
[INFO] [stdout]    |               ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::env`
[INFO] [stdout]   --> src/main.rs:20:5
[INFO] [stdout]    |
[INFO] [stdout] 20 | use std::env;
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `self`
[INFO] [stdout]   --> src/main.rs:22:20
[INFO] [stdout]    |
[INFO] [stdout] 22 | use std::process::{self, Command};
[INFO] [stdout]    |                    ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::path::Path`
[INFO] [stdout]   --> src/main.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 | use std::path::Path;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::error::Error`
[INFO] [stdout]   --> src/main.rs:25:5
[INFO] [stdout]    |
[INFO] [stdout] 25 | use std::error::Error;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::ffi::OsString`
[INFO] [stdout]   --> src/main.rs:26:5
[INFO] [stdout]    |
[INFO] [stdout] 26 | use std::ffi::OsString;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `self`
[INFO] [stdout]   --> src/main.rs:27:15
[INFO] [stdout]    |
[INFO] [stdout] 27 | use std::fs::{self, File};
[INFO] [stdout]    |               ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `ReaderBuilder`, `Writer`
[INFO] [stdout]   --> src/main.rs:28:11
[INFO] [stdout]    |
[INFO] [stdout] 28 | use csv::{Writer, ReaderBuilder};
[INFO] [stdout]    |           ^^^^^^  ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `genomes_string`
[INFO] [stdout]    --> src/main.rs:145:21
[INFO] [stdout]     |
[INFO] [stdout] 145 |             let mut genomes_string = String::new();
[INFO] [stdout]     |                     ^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_genomes_string`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable `output` is assigned to, but never used
[INFO] [stdout]    --> src/main.rs:199:13
[INFO] [stdout]     |
[INFO] [stdout] 199 |     let mut output;
[INFO] [stdout]     |             ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: consider using `_output` instead
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `output` is never read
[INFO] [stdout]    --> src/main.rs:201:9
[INFO] [stdout]     |
[INFO] [stdout] 201 |         output = Command::new("Bifrost")
[INFO] [stdout]     |         ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_assignments)]` on by default
[INFO] [stdout]     = help: maybe it is overwritten before being read?
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `output` is never read
[INFO] [stdout]    --> src/main.rs:214:9
[INFO] [stdout]     |
[INFO] [stdout] 214 |         output = Command::new("Bifrost")
[INFO] [stdout]     |         ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = help: maybe it is overwritten before being read?
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/main.rs:145:17
[INFO] [stdout]     |
[INFO] [stdout] 145 |             let mut genomes_string = String::new();
[INFO] [stdout]     |                 ----^^^^^^^^^^^^^^
[INFO] [stdout]     |                 |
[INFO] [stdout]     |                 help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/main.rs:199:9
[INFO] [stdout]     |
[INFO] [stdout] 199 |     let mut output;
[INFO] [stdout]     |         ----^^^^^^
[INFO] [stdout]     |         |
[INFO] [stdout]     |         help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/main.rs:240:13
[INFO] [stdout]     |
[INFO] [stdout] 240 |         let mut output;
[INFO] [stdout]     |             ----^^^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:47:17
[INFO] [stdout]    |
[INFO] [stdout] 47 |                 run_kallisto(genomes_string, m.clone());
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_must_use)]` on by default
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:54:17
[INFO] [stdout]    |
[INFO] [stdout] 54 |                 file_path.read_to_string(&mut contents);
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:82:17
[INFO] [stdout]    |
[INFO] [stdout] 82 |                 run_kallisto(genomes_string, m.clone());
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:91:13
[INFO] [stdout]    |
[INFO] [stdout] 91 |             file_path.read_to_string(&mut contents);
[INFO] [stdout]    |             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:99:13
[INFO] [stdout]    |
[INFO] [stdout] 99 |             rep_path.read_to_string(&mut rep_contents);
[INFO] [stdout]    |             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable `RepRecord` should have a snake case name
[INFO] [stdout]    --> src/main.rs:105:21
[INFO] [stdout]     |
[INFO] [stdout] 105 |             let mut RepRecord: HashSet<String> = HashSet::new();
[INFO] [stdout]     |                     ^^^^^^^^^ help: convert the identifier to snake case: `rep_record`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(non_snake_case)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:130:17
[INFO] [stdout]     |
[INFO] [stdout] 130 |                 gen_file.write_all(f.as_bytes());
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:132:13
[INFO] [stdout]     |
[INFO] [stdout] 132 |             gen_file.flush();
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:136:17
[INFO] [stdout]     |
[INFO] [stdout] 136 |                 rep_file.write_all(f.as_bytes());
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:138:13
[INFO] [stdout]     |
[INFO] [stdout] 138 |             gen_file.flush();
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:140:13
[INFO] [stdout]     |
[INFO] [stdout] 140 |             run_bifrost(m.clone());
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:156:17
[INFO] [stdout]     |
[INFO] [stdout] 156 |                 file_path.read_to_string(&mut contents);
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 32 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 1m 25s
[INFO] running `Command { std: "docker" "inspect" "13ec9da27732845917b24ec0c8030d59e9553d3a6be2459e66563a2c54aea4a8", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "13ec9da27732845917b24ec0c8030d59e9553d3a6be2459e66563a2c54aea4a8", kill_on_drop: false }`
[INFO] [stdout] 13ec9da27732845917b24ec0c8030d59e9553d3a6be2459e66563a2c54aea4a8
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-10/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-10/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" "ghcr.io/rust-lang/crates-build-env/linux@sha256:20528e8c29e4536546f0102ce88568b16ea7538393a33fcca951030f7af10457" "/opt/rustwide/cargo-home/bin/cargo" "+ff34b919075f35a1787659e9c448a34b06bab8de" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] fd2dda963b886c743b7c84d94e8be9dac4e0c4020cd4a711ea4f70736278f01a
[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" "fd2dda963b886c743b7c84d94e8be9dac4e0c4020cd4a711ea4f70736278f01a", kill_on_drop: false }`
[INFO] [stderr]    Compiling failure_derive v0.1.2
[INFO] [stderr]    Compiling ryu v0.2.6
[INFO] [stderr]    Compiling rustc-demangle v0.1.9
[INFO] [stderr]    Compiling itoa v0.4.3
[INFO] [stderr]    Compiling difference v2.0.0
[INFO] [stderr]    Compiling environment v0.1.1
[INFO] [stderr]    Compiling backtrace-sys v0.1.24
[INFO] [stderr]    Compiling syn v0.14.9
[INFO] [stderr]    Compiling colored v1.6.1
[INFO] [stdout] warning: unused import: `std::collections::hash_map::Entry`
[INFO] [stdout]  --> src/genomes_and_contigs.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use std::collections::hash_map::Entry;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::cmp::min`
[INFO] [stdout]   --> src/lib.rs:23:5
[INFO] [stdout]    |
[INFO] [stdout] 23 | use std::cmp::min;
[INFO] [stdout]    |     ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::collections`
[INFO] [stdout]   --> src/lib.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 | use std::collections;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated macro `try`: use the `?` operator instead
[INFO] [stdout]    --> src/lib.rs:188:13
[INFO] [stdout]     |
[INFO] [stdout] 188 |             try!(self.reader.read_line(&mut self.line));
[INFO] [stdout]     |             ^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(deprecated)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated macro `try`: use the `?` operator instead
[INFO] [stdout]    --> src/lib.rs:213:13
[INFO] [stdout]     |
[INFO] [stdout] 213 |             try!(self.reader.read_line(&mut self.line));
[INFO] [stdout]     |             ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated associated function `core::str::<impl str>::trim_right`: superseded by `trim_end`
[INFO] [stdout]    --> src/lib.rs:201:14
[INFO] [stdout]     |
[INFO] [stdout] 201 |             .trim_right()
[INFO] [stdout]     |              ^^^^^^^^^^ help: replace the use of the deprecated associated function: `trim_end`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated associated function `core::str::<impl str>::trim_right`: superseded by `trim_end`
[INFO] [stdout]    --> src/lib.rs:207:14
[INFO] [stdout]     |
[INFO] [stdout] 207 |             .trim_right()
[INFO] [stdout]     |              ^^^^^^^^^^ help: replace the use of the deprecated associated function: `trim_end`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/lib.rs:276:13
[INFO] [stdout]     |
[INFO] [stdout] 276 |         let mut reader = Reader::from_file(path);
[INFO] [stdout]     |             ----^^^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/lib.rs:277:13
[INFO] [stdout]     |
[INFO] [stdout] 277 |         let mut name = file.to_string();
[INFO] [stdout]     |             ----^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]   --> src/genomes_and_contigs.rs:40:17
[INFO] [stdout]    |
[INFO] [stdout] 40 |             let mut gen = genome.lines();
[INFO] [stdout]    |                 ----^^^
[INFO] [stdout]    |                 |
[INFO] [stdout]    |                 help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]   --> src/genomes_and_contigs.rs:44:17
[INFO] [stdout]    |
[INFO] [stdout] 44 |             let mut joined_genome = full_gen.join("").to_uppercase();
[INFO] [stdout]    |                 ----^^^^^^^^^^^^^
[INFO] [stdout]    |                 |
[INFO] [stdout]    |                 help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: function is never used: `find_first`
[INFO] [stdout]   --> src/genomes_and_contigs.rs:94:4
[INFO] [stdout]    |
[INFO] [stdout] 94 | fn find_first<T>(slice: &[T], element: T) -> Result<usize, &'static str>
[INFO] [stdout]    |    ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(dead_code)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 12 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]    Compiling serde_json v1.0.31
[INFO] [stderr]    Compiling backtrace v0.3.9
[INFO] [stderr]    Compiling synstructure v0.9.0
[INFO] [stderr]    Compiling failure v0.1.2
[INFO] [stderr]    Compiling assert_cli v0.6.3
[INFO] [stderr]    Compiling kmer_indexer v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] warning: unused import: `std::collections::hash_map::Entry`
[INFO] [stdout]  --> src/genomes_and_contigs.rs:4:5
[INFO] [stdout]   |
[INFO] [stdout] 4 | use std::collections::hash_map::Entry;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::cmp::min`
[INFO] [stdout]   --> src/lib.rs:23:5
[INFO] [stdout]    |
[INFO] [stdout] 23 | use std::cmp::min;
[INFO] [stdout]    |     ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::collections`
[INFO] [stdout]   --> src/lib.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 | use std::collections;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated macro `try`: use the `?` operator instead
[INFO] [stdout]    --> src/lib.rs:188:13
[INFO] [stdout]     |
[INFO] [stdout] 188 |             try!(self.reader.read_line(&mut self.line));
[INFO] [stdout]     |             ^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(deprecated)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated macro `try`: use the `?` operator instead
[INFO] [stdout]    --> src/lib.rs:213:13
[INFO] [stdout]     |
[INFO] [stdout] 213 |             try!(self.reader.read_line(&mut self.line));
[INFO] [stdout]     |             ^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `#[macro_use]` import
[INFO] [stdout]   --> src/main.rs:11:1
[INFO] [stdout]    |
[INFO] [stdout] 11 | #[macro_use]
[INFO] [stdout]    | ^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `log::LogLevelFilter`
[INFO] [stdout]   --> src/main.rs:13:5
[INFO] [stdout]    |
[INFO] [stdout] 13 | use log::LogLevelFilter;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `env_logger::LogBuilder`
[INFO] [stdout]   --> src/main.rs:15:5
[INFO] [stdout]    |
[INFO] [stdout] 15 | use env_logger::LogBuilder;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `kmer_indexer::genomes_and_contigs`
[INFO] [stdout]   --> src/main.rs:17:5
[INFO] [stdout]    |
[INFO] [stdout] 17 | use kmer_indexer::genomes_and_contigs;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `tempdir`, `tempfile`
[INFO] [stdout]   --> src/main.rs:18:16
[INFO] [stdout]    |
[INFO] [stdout] 18 | use tempfile::{tempfile, tempdir, Builder};
[INFO] [stdout]    |                ^^^^^^^^  ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `self`
[INFO] [stdout]   --> src/main.rs:19:15
[INFO] [stdout]    |
[INFO] [stdout] 19 | use std::io::{self, Write, Read};
[INFO] [stdout]    |               ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::env`
[INFO] [stdout]   --> src/main.rs:20:5
[INFO] [stdout]    |
[INFO] [stdout] 20 | use std::env;
[INFO] [stdout]    |     ^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `self`
[INFO] [stdout]   --> src/main.rs:22:20
[INFO] [stdout]    |
[INFO] [stdout] 22 | use std::process::{self, Command};
[INFO] [stdout]    |                    ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::path::Path`
[INFO] [stdout]   --> src/main.rs:24:5
[INFO] [stdout]    |
[INFO] [stdout] 24 | use std::path::Path;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::error::Error`
[INFO] [stdout]   --> src/main.rs:25:5
[INFO] [stdout]    |
[INFO] [stdout] 25 | use std::error::Error;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `std::ffi::OsString`
[INFO] [stdout]   --> src/main.rs:26:5
[INFO] [stdout]    |
[INFO] [stdout] 26 | use std::ffi::OsString;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused import: `self`
[INFO] [stdout]   --> src/main.rs:27:15
[INFO] [stdout]    |
[INFO] [stdout] 27 | use std::fs::{self, File};
[INFO] [stdout]    |               ^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused imports: `ReaderBuilder`, `Writer`
[INFO] [stdout]   --> src/main.rs:28:11
[INFO] [stdout]    |
[INFO] [stdout] 28 | use csv::{Writer, ReaderBuilder};
[INFO] [stdout]    |           ^^^^^^  ^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused variable: `genomes_string`
[INFO] [stdout]    --> src/main.rs:145:21
[INFO] [stdout]     |
[INFO] [stdout] 145 |             let mut genomes_string = String::new();
[INFO] [stdout]     |                     ^^^^^^^^^^^^^^ help: if this is intentional, prefix it with an underscore: `_genomes_string`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_variables)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable `output` is assigned to, but never used
[INFO] [stdout]    --> src/main.rs:199:13
[INFO] [stdout]     |
[INFO] [stdout] 199 |     let mut output;
[INFO] [stdout]     |             ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: consider using `_output` instead
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `output` is never read
[INFO] [stdout]    --> src/main.rs:201:9
[INFO] [stdout]     |
[INFO] [stdout] 201 |         output = Command::new("Bifrost")
[INFO] [stdout]     |         ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_assignments)]` on by default
[INFO] [stdout]     = help: maybe it is overwritten before being read?
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: value assigned to `output` is never read
[INFO] [stdout]    --> src/main.rs:214:9
[INFO] [stdout]     |
[INFO] [stdout] 214 |         output = Command::new("Bifrost")
[INFO] [stdout]     |         ^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = help: maybe it is overwritten before being read?
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated associated function `core::str::<impl str>::trim_right`: superseded by `trim_end`
[INFO] [stdout]    --> src/lib.rs:201:14
[INFO] [stdout]     |
[INFO] [stdout] 201 |             .trim_right()
[INFO] [stdout]     |              ^^^^^^^^^^ help: replace the use of the deprecated associated function: `trim_end`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/main.rs:145:17
[INFO] [stdout]     |
[INFO] [stdout] 145 |             let mut genomes_string = String::new();
[INFO] [stdout]     |                 ----^^^^^^^^^^^^^^
[INFO] [stdout]     |                 |
[INFO] [stdout]     |                 help: remove this `mut`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(unused_mut)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: use of deprecated associated function `core::str::<impl str>::trim_right`: superseded by `trim_end`
[INFO] [stdout]    --> src/lib.rs:207:14
[INFO] [stdout]     |
[INFO] [stdout] 207 |             .trim_right()
[INFO] [stdout]     |              ^^^^^^^^^^ help: replace the use of the deprecated associated function: `trim_end`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/main.rs:199:9
[INFO] [stdout]     |
[INFO] [stdout] 199 |     let mut output;
[INFO] [stdout]     |         ----^^^^^^
[INFO] [stdout]     |         |
[INFO] [stdout]     |         help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable does not need to be mutable
[INFO] [stdout]    --> src/main.rs:240:13
[INFO] [stdout]     |
[INFO] [stdout] 240 |         let mut output;
[INFO] [stdout]     |             ----^^^^^^
[INFO] [stdout]     |             |
[INFO] [stdout]     |             help: remove this `mut`
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:47:17
[INFO] [stdout]    |
[INFO] [stdout] 47 |                 run_kallisto(genomes_string, m.clone());
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: `#[warn(unused_must_use)]` on by default
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:54:17
[INFO] [stdout]    |
[INFO] [stdout] 54 |                 file_path.read_to_string(&mut contents);
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:82:17
[INFO] [stdout]    |
[INFO] [stdout] 82 |                 run_kallisto(genomes_string, m.clone());
[INFO] [stdout]    |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:91:13
[INFO] [stdout]    |
[INFO] [stdout] 91 |             file_path.read_to_string(&mut contents);
[INFO] [stdout]    |             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]   --> src/main.rs:99:13
[INFO] [stdout]    |
[INFO] [stdout] 99 |             rep_path.read_to_string(&mut rep_contents);
[INFO] [stdout]    |             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: variable `RepRecord` should have a snake case name
[INFO] [stdout]    --> src/main.rs:105:21
[INFO] [stdout]     |
[INFO] [stdout] 105 |             let mut RepRecord: HashSet<String> = HashSet::new();
[INFO] [stdout]     |                     ^^^^^^^^^ help: convert the identifier to snake case: `rep_record`
[INFO] [stdout]     |
[INFO] [stdout]     = note: `#[warn(non_snake_case)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:130:17
[INFO] [stdout]     |
[INFO] [stdout] 130 |                 gen_file.write_all(f.as_bytes());
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:132:13
[INFO] [stdout]     |
[INFO] [stdout] 132 |             gen_file.flush();
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:136:17
[INFO] [stdout]     |
[INFO] [stdout] 136 |                 rep_file.write_all(f.as_bytes());
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:138:13
[INFO] [stdout]     |
[INFO] [stdout] 138 |             gen_file.flush();
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:140:13
[INFO] [stdout]     |
[INFO] [stdout] 140 |             run_bifrost(m.clone());
[INFO] [stdout]     |             ^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: unused `std::result::Result` that must be used
[INFO] [stdout]    --> src/main.rs:156:17
[INFO] [stdout]     |
[INFO] [stdout] 156 |                 file_path.read_to_string(&mut contents);
[INFO] [stdout]     |                 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]     |
[INFO] [stdout]     = note: this `Result` may be an `Err` variant, which should be handled
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `genome_of_contig` found for struct `genomes_and_contigs::GenomesAndContigs` in the current scope
[INFO] [stdout]    --> src/lib.rs:303:32
[INFO] [stdout]     |
[INFO] [stdout] 303 |             *(contig_to_genome.genome_of_contig(&String::from("contig1")).unwrap()));
[INFO] [stdout]     |                                ^^^^^^^^^^^^^^^^ method not found in `genomes_and_contigs::GenomesAndContigs`
[INFO] [stdout]     | 
[INFO] [stdout]    ::: src/genomes_and_contigs.rs:8:1
[INFO] [stdout]     |
[INFO] [stdout] 8   | pub struct GenomesAndContigs {
[INFO] [stdout]     | ---------------------------- method `genome_of_contig` not found for this
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `genome_of_contig` found for struct `genomes_and_contigs::GenomesAndContigs` in the current scope
[INFO] [stdout]    --> src/lib.rs:309:63
[INFO] [stdout]     |
[INFO] [stdout] 309 |         assert_eq!(String::from("genome1"), *contig_to_genome.genome_of_contig(&String::from("seq1")).unwrap());
[INFO] [stdout]     |                                                               ^^^^^^^^^^^^^^^^ method not found in `genomes_and_contigs::GenomesAndContigs`
[INFO] [stdout]     | 
[INFO] [stdout]    ::: src/genomes_and_contigs.rs:8:1
[INFO] [stdout]     |
[INFO] [stdout] 8   | pub struct GenomesAndContigs {
[INFO] [stdout]     | ---------------------------- method `genome_of_contig` not found for this
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error[E0599]: no method named `genome_of_contig` found for struct `genomes_and_contigs::GenomesAndContigs` in the current scope
[INFO] [stdout]    --> src/lib.rs:310:63
[INFO] [stdout]     |
[INFO] [stdout] 310 |         assert_eq!(String::from("genome1"), *contig_to_genome.genome_of_contig(&String::from("seq2")).unwrap());
[INFO] [stdout]     |                                                               ^^^^^^^^^^^^^^^^ method not found in `genomes_and_contigs::GenomesAndContigs`
[INFO] [stdout]     | 
[INFO] [stdout]    ::: src/genomes_and_contigs.rs:8:1
[INFO] [stdout]     |
[INFO] [stdout] 8   | pub struct GenomesAndContigs {
[INFO] [stdout]     | ---------------------------- method `genome_of_contig` not found for this
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: aborting due to 3 previous errors; 7 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] For more information about this error, try `rustc --explain E0599`.
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `kmer_indexer`
[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: 32 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: build failed
[INFO] running `Command { std: "docker" "inspect" "fd2dda963b886c743b7c84d94e8be9dac4e0c4020cd4a711ea4f70736278f01a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "fd2dda963b886c743b7c84d94e8be9dac4e0c4020cd4a711ea4f70736278f01a", kill_on_drop: false }`
[INFO] [stdout] fd2dda963b886c743b7c84d94e8be9dac4e0c4020cd4a711ea4f70736278f01a
