[INFO] cloning repository https://github.com/informationsea/sequencetoolkit
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/informationsea/sequencetoolkit" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Finformationsea%2Fsequencetoolkit", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Finformationsea%2Fsequencetoolkit'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 3a477a1d885c3e86543daefa05ec6e85824e8958
[INFO] checking informationsea/sequencetoolkit against master#ceab6128fa48a616bfd3e3adf4bc80133b8ee223 for no-never-type-fallback
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Finformationsea%2Fsequencetoolkit" "/workspace/builds/worker-5-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-5-tc1/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/informationsea/sequencetoolkit on toolchain ceab6128fa48a616bfd3e3adf4bc80133b8ee223
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+ceab6128fa48a616bfd3e3adf4bc80133b8ee223" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/informationsea/sequencetoolkit
[INFO] finished tweaking git repo https://github.com/informationsea/sequencetoolkit
[INFO] tweaked toml for git repo https://github.com/informationsea/sequencetoolkit written to /workspace/builds/worker-5-tc1/source/Cargo.toml
[INFO] crate git repo https://github.com/informationsea/sequencetoolkit already has a lockfile, it will not be regenerated
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+ceab6128fa48a616bfd3e3adf4bc80133b8ee223" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
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[INFO] [stderr]  Downloading crates ...
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[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+ceab6128fa48a616bfd3e3adf4bc80133b8ee223" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
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[INFO] running `Command { std: "docker" "start" "-a" "9e56a77a88384125c74b79c7748eb4dd749d5c7f1a6bff33b1bc7fd9b007da28", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "9e56a77a88384125c74b79c7748eb4dd749d5c7f1a6bff33b1bc7fd9b007da28", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "9e56a77a88384125c74b79c7748eb4dd749d5c7f1a6bff33b1bc7fd9b007da28", kill_on_drop: false }`
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[INFO] running `Command { std: "docker" "start" "-a" "0eff9ac3d03ff5d9cc28345311efce827f95dff8ac74a0c07991179d406a39a6", kill_on_drop: false }`
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[INFO] [stderr]    Compiling sequencetoolkit v0.4.2 (/opt/rustwide/workdir/sequencetoolkit)
[INFO] [stderr]     Checking pretty_env_logger v0.4.0
[INFO] [stderr]     Checking failure v0.1.8
[INFO] [stderr]    Compiling libxlsxwriter-sys v1.1.5
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[INFO] [stderr]     Checking xlsxwriter v0.6.0
[INFO] [stderr]     Checking zstd v0.13.0
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[INFO] [stderr]     Checking fsutils v0.1.0 (/opt/rustwide/workdir/fsutils)
[INFO] [stderr]     Checking geneannot v0.1.0 (/opt/rustwide/workdir/geneannot)
[INFO] [stderr]     Checking vcfutils v0.1.0 (/opt/rustwide/workdir/vcfutils)
[INFO] [stdout] warning: the item `GeneAnnotError` is imported redundantly
[INFO] [stdout]  --> geneannot/src/annotator/models/refgene.rs:2:5
[INFO] [stdout]   |
[INFO] [stdout] 1 | use super::*;
[INFO] [stdout]   |     -------- the item `GeneAnnotError` is already imported here
[INFO] [stdout] 2 | use crate::GeneAnnotError;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `HashMap` is imported redundantly
[INFO] [stdout]  --> geneannot/src/annotator/models/refgene.rs:4:24
[INFO] [stdout]   |
[INFO] [stdout] 1 | use super::*;
[INFO] [stdout]   |     -------- the item `HashMap` is already imported here
[INFO] [stdout] ...
[INFO] [stdout] 4 | use std::collections::{HashMap, HashSet};
[INFO] [stdout]   |                        ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `SeedableRng` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/commands/replace_sample.rs:7:5
[INFO] [stdout]   |
[INFO] [stdout] 6 | use rand::prelude::*;
[INFO] [stdout]   |     ---------------- the item `SeedableRng` is already imported here
[INFO] [stdout] 7 | use rand::SeedableRng;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `Box` is imported redundantly
[INFO] [stdout]   --> vcfutils/src/commands/vcf2csv.rs:10:5
[INFO] [stdout]    |
[INFO] [stdout] 10 | use std::boxed::Box;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout]   --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:144:13
[INFO] [stdout]    |
[INFO] [stdout]    = note: the item `Box` is already defined here
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `vcf` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/logic/add_af.rs:7:11
[INFO] [stdout]   |
[INFO] [stdout] 7 | use vcf::{self, U8Vec};
[INFO] [stdout]   |           ^^^^ the item `vcf` is already defined by prelude
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `String` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/logic/generate_sql.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 | use std::string::String;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]  --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:144:13
[INFO] [stdout]   |
[INFO] [stdout]   = note: the item `String` is already defined here
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `vcf` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/logic/generate_sql.rs:6:11
[INFO] [stdout]   |
[INFO] [stdout] 6 | use vcf::{self, VCFHeader, ValueType};
[INFO] [stdout]   |           ^^^^ the item `vcf` is already defined by prelude
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `vcf` is imported redundantly
[INFO] [stdout]   --> vcfutils/src/logic/vcf2table.rs:13:11
[INFO] [stdout]    |
[INFO] [stdout] 13 | use vcf::{self, U8Vec, VCFHeader, VCFReader, VCFRecord};
[INFO] [stdout]    |           ^^^^ the item `vcf` is already defined by prelude
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `nom` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/utils/recalc_af.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 |     self, branch::alt, bytes::complete::tag, bytes::complete::take_while1, character::is_digit,
[INFO] [stdout]   |     ^^^^ the item `nom` is already defined by prelude
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Checking fastqutils v0.1.0 (/opt/rustwide/workdir/fastqutils)
[INFO] [stdout] warning: the item `BufRead` is imported redundantly
[INFO] [stdout]  --> fastqutils/src/commands/index_count.rs:4:33
[INFO] [stdout]   |
[INFO] [stdout] 3 | use std::io::prelude::*;
[INFO] [stdout]   |     ------------------- the item `BufRead` is already imported here
[INFO] [stdout] 4 | use std::{collections::HashMap, io::BufRead};
[INFO] [stdout]   |                                 ^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 1 warning emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 2 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 7 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `BufRead` is imported redundantly
[INFO] [stdout]  --> fastqutils/src/commands/index_count.rs:4:33
[INFO] [stdout]   |
[INFO] [stdout] 3 | use std::io::prelude::*;
[INFO] [stdout]   |     ------------------- the item `BufRead` is already imported here
[INFO] [stdout] 4 | use std::{collections::HashMap, io::BufRead};
[INFO] [stdout]   |                                 ^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `SeedableRng` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/commands/replace_sample.rs:7:5
[INFO] [stdout]   |
[INFO] [stdout] 6 | use rand::prelude::*;
[INFO] [stdout]   |     ---------------- the item `SeedableRng` is already imported here
[INFO] [stdout] 7 | use rand::SeedableRng;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `Box` is imported redundantly
[INFO] [stdout]   --> vcfutils/src/commands/vcf2csv.rs:10:5
[INFO] [stdout]    |
[INFO] [stdout] 10 | use std::boxed::Box;
[INFO] [stdout]    |     ^^^^^^^^^^^^^^^
[INFO] [stdout]   --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:144:13
[INFO] [stdout]    |
[INFO] [stdout]    = note: the item `Box` is already defined here
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `String` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/logic/generate_sql.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 | use std::string::String;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]  --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:144:13
[INFO] [stdout]   |
[INFO] [stdout]   = note: the item `String` is already defined here
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `io` is imported redundantly
[INFO] [stdout]   --> vcfutils/src/logic/rewrite_format.rs:77:9
[INFO] [stdout]    |
[INFO] [stdout] 76 |     use super::*;
[INFO] [stdout]    |         -------- the item `io` is already imported here
[INFO] [stdout] 77 |     use std::io;
[INFO] [stdout]    |         ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `io` is imported redundantly
[INFO] [stdout]   --> vcfutils/src/logic/rewrite_info.rs:62:9
[INFO] [stdout]    |
[INFO] [stdout] 60 |     use super::*;
[INFO] [stdout]    |         -------- the item `io` is already imported here
[INFO] [stdout] 61 |     use std::collections::HashSet;
[INFO] [stdout] 62 |     use std::io;
[INFO] [stdout]    |         ^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `nom` is imported redundantly
[INFO] [stdout]  --> vcfutils/src/utils/recalc_af.rs:5:5
[INFO] [stdout]   |
[INFO] [stdout] 5 |     self, branch::alt, bytes::complete::tag, bytes::complete::take_while1, character::is_digit,
[INFO] [stdout]   |     ^^^^ the item `nom` is already defined by prelude
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `VCFUtilsError` is imported redundantly
[INFO] [stdout]    --> vcfutils/src/utils/recalc_af.rs:143:9
[INFO] [stdout]     |
[INFO] [stdout] 142 |     use super::*;
[INFO] [stdout]     |         -------- the item `VCFUtilsError` is already imported here
[INFO] [stdout] 143 |     use crate::error::VCFUtilsError;
[INFO] [stdout]     |         ^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 1 warning emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 7 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Checking rust-htslib v0.44.1
[INFO] [stderr]     Checking bam2fastq v0.1.0 (/opt/rustwide/workdir/bam2fastq)
[INFO] [stderr]     Checking bamutils v0.1.0 (/opt/rustwide/workdir/bamutils)
[INFO] [stdout] warning: the item `TryFrom` is imported redundantly
[INFO] [stdout]  --> bam2fastq/src/commands/illuminareorder.rs:6:5
[INFO] [stdout]   |
[INFO] [stdout] 6 | use std::convert::TryFrom;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]  --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:148:13
[INFO] [stdout]   |
[INFO] [stdout]   = note: the item `TryFrom` is already defined here
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `TryFrom` is imported redundantly
[INFO] [stdout]  --> bam2fastq/src/utils/fastq.rs:3:5
[INFO] [stdout]   |
[INFO] [stdout] 3 | use std::convert::TryFrom;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]  --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:148:13
[INFO] [stdout]   |
[INFO] [stdout]   = note: the item `TryFrom` is already defined here
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `TryFrom` is imported redundantly
[INFO] [stdout]  --> bam2fastq/src/commands/illuminareorder.rs:6:5
[INFO] [stdout]   |
[INFO] [stdout] 6 | use std::convert::TryFrom;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]  --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:148:13
[INFO] [stdout]   |
[INFO] [stdout]   = note: the item `TryFrom` is already defined here
[INFO] [stdout]   |
[INFO] [stdout]   = note: `#[warn(unused_imports)]` on by default
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: the item `TryFrom` is imported redundantly
[INFO] [stdout]  --> bam2fastq/src/utils/fastq.rs:3:5
[INFO] [stdout]   |
[INFO] [stdout] 3 | use std::convert::TryFrom;
[INFO] [stdout]   |     ^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout]  --> /rustc/ceab6128fa48a616bfd3e3adf4bc80133b8ee223/library/std/src/prelude/mod.rs:148:13
[INFO] [stdout]   |
[INFO] [stdout]   = note: the item `TryFrom` is already defined here
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 2 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: 2 warnings emitted
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 50s
[INFO] running `Command { std: "docker" "inspect" "0eff9ac3d03ff5d9cc28345311efce827f95dff8ac74a0c07991179d406a39a6", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "0eff9ac3d03ff5d9cc28345311efce827f95dff8ac74a0c07991179d406a39a6", kill_on_drop: false }`
[INFO] [stdout] 0eff9ac3d03ff5d9cc28345311efce827f95dff8ac74a0c07991179d406a39a6