[INFO] cloning repository https://github.com/tolkit/vcf2msa
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/tolkit/vcf2msa" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftolkit%2Fvcf2msa", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftolkit%2Fvcf2msa'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 809cb881b4b4e942de5fb7765cd6b7da8e05505d
[INFO] testing tolkit/vcf2msa against beta-2022-04-10 for beta-1.61-1
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftolkit%2Fvcf2msa" "/workspace/builds/worker-2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-2/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/tolkit/vcf2msa on toolchain beta-2022-04-10
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-04-10" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/tolkit/vcf2msa
[INFO] finished tweaking git repo https://github.com/tolkit/vcf2msa
[INFO] tweaked toml for git repo https://github.com/tolkit/vcf2msa written to /workspace/builds/worker-2/source/Cargo.toml
[INFO] crate git repo https://github.com/tolkit/vcf2msa already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+beta-2022-04-10" "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] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/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:b0c94ce3c1162fcb8e57cac5b65ec2f72eabb1eebea4fcc35e269e823f681646" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 5fd1fdc3d4aa96f85d16a31fa70dfb7267b3efeb0e9ff1564155b0751a77d9fa
[INFO] running `Command { std: "docker" "start" "-a" "5fd1fdc3d4aa96f85d16a31fa70dfb7267b3efeb0e9ff1564155b0751a77d9fa", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "5fd1fdc3d4aa96f85d16a31fa70dfb7267b3efeb0e9ff1564155b0751a77d9fa", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "5fd1fdc3d4aa96f85d16a31fa70dfb7267b3efeb0e9ff1564155b0751a77d9fa", kill_on_drop: false }`
[INFO] [stdout] 5fd1fdc3d4aa96f85d16a31fa70dfb7267b3efeb0e9ff1564155b0751a77d9fa
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/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=warn" "-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:b0c94ce3c1162fcb8e57cac5b65ec2f72eabb1eebea4fcc35e269e823f681646" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 1faef5e18ad16613124f43305caedd1cc1416e9d8acaa11f19804d3b78a2fcfd
[INFO] running `Command { std: "docker" "start" "-a" "1faef5e18ad16613124f43305caedd1cc1416e9d8acaa11f19804d3b78a2fcfd", kill_on_drop: false }`
[INFO] [stderr]    Compiling proc-macro2 v1.0.29
[INFO] [stderr]    Compiling syn v1.0.77
[INFO] [stderr]    Compiling libc v0.2.103
[INFO] [stderr]    Compiling serde_derive v1.0.130
[INFO] [stderr]    Compiling serde v1.0.130
[INFO] [stderr]    Compiling pkg-config v0.3.20
[INFO] [stderr]    Compiling unicode-segmentation v1.8.0
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling typenum v1.14.0
[INFO] [stderr]    Compiling regex-syntax v0.6.25
[INFO] [stderr]    Compiling paste v1.0.5
[INFO] [stderr]    Compiling feature-probe v0.1.1
[INFO] [stderr]    Compiling unicode-bidi v0.3.6
[INFO] [stderr]    Compiling anyhow v1.0.44
[INFO] [stderr]    Compiling itoa v0.4.8
[INFO] [stderr]    Compiling fixedbitset v0.2.0
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling bit-vec v0.6.3
[INFO] [stderr]    Compiling bio v0.37.1
[INFO] [stderr]    Compiling triple_accel v0.4.0
[INFO] [stderr]    Compiling linear-map v1.2.0
[INFO] [stderr]    Compiling bytecount v0.6.2
[INFO] [stderr]    Compiling strum v0.21.0
[INFO] [stderr]    Compiling num-traits v0.2.14
[INFO] [stderr]    Compiling num-rational v0.4.0
[INFO] [stderr]    Compiling proc-macro-error-attr v1.0.4
[INFO] [stderr]    Compiling indexmap v1.7.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling matrixmultiply v0.3.1
[INFO] [stderr]    Compiling tinyvec v1.5.0
[INFO] [stderr]    Compiling proc-macro-error v1.0.4
[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]    Compiling itertools v0.10.1
[INFO] [stderr]    Compiling csv-core v0.1.10
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling bv v0.11.1
[INFO] [stderr]    Compiling bit-set v0.5.2
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling heck v0.3.3
[INFO] [stderr]    Compiling unicode-normalization v0.1.19
[INFO] [stderr]    Compiling quote v1.0.9
[INFO] [stderr]    Compiling jobserver v0.1.24
[INFO] [stderr]    Compiling getrandom v0.2.3
[INFO] [stderr]    Compiling atty v0.2.14
[INFO] [stderr]    Compiling petgraph v0.5.1
[INFO] [stderr]    Compiling cc v1.0.70
[INFO] [stderr]    Compiling rand_core v0.6.3
[INFO] [stderr]    Compiling idna v0.2.3
[INFO] [stderr]    Compiling num-complex v0.4.0
[INFO] [stderr]    Compiling num-integer v0.1.44
[INFO] [stderr]    Compiling approx v0.5.0
[INFO] [stderr]    Compiling itertools-num v0.1.3
[INFO] [stderr]    Compiling ordered-float v1.1.1
[INFO] [stderr]    Compiling regex v1.5.4
[INFO] [stderr]    Compiling rand_chacha v0.3.1
[INFO] [stderr]    Compiling rand v0.8.4
[INFO] [stderr]    Compiling url v2.2.2
[INFO] [stderr]    Compiling libz-sys v1.1.3
[INFO] [stderr]    Compiling hts-sys v1.11.1-fix2
[INFO] [stderr]    Compiling simba v0.5.1
[INFO] [stderr]    Compiling ndarray v0.15.3
[INFO] [stderr]    Compiling rand_distr v0.4.2
[INFO] [stderr]    Compiling thiserror-impl v1.0.29
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]    Compiling nalgebra-macros v0.1.0
[INFO] [stderr]    Compiling strum_macros v0.20.1
[INFO] [stderr]    Compiling enum-map-derive v0.6.0
[INFO] [stderr]    Compiling getset v0.1.1
[INFO] [stderr]    Compiling strum_macros v0.21.1
[INFO] [stderr]    Compiling enum-map v1.1.1
[INFO] [stderr]    Compiling nalgebra v0.27.1
[INFO] [stderr]    Compiling thiserror v1.0.29
[INFO] [stderr]    Compiling bio-types v0.12.0
[INFO] [stderr]    Compiling rust-htslib v0.37.0
[INFO] [stderr]    Compiling bstr v0.2.17
[INFO] [stderr]    Compiling vec_map v0.8.2
[INFO] [stderr]    Compiling multimap v0.8.3
[INFO] [stderr]    Compiling clap v2.33.3
[INFO] [stderr]    Compiling csv v1.1.6
[INFO] [stderr]    Compiling statrs v0.15.0
[INFO] [stderr]    Compiling vcf2msa v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 47.04s
[INFO] running `Command { std: "docker" "inspect" "1faef5e18ad16613124f43305caedd1cc1416e9d8acaa11f19804d3b78a2fcfd", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1faef5e18ad16613124f43305caedd1cc1416e9d8acaa11f19804d3b78a2fcfd", kill_on_drop: false }`
[INFO] [stdout] 1faef5e18ad16613124f43305caedd1cc1416e9d8acaa11f19804d3b78a2fcfd
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/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=warn" "-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:b0c94ce3c1162fcb8e57cac5b65ec2f72eabb1eebea4fcc35e269e823f681646" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] f556e568da0a262ed680c4c74f886480305e6f65d403589aff683a024405e583
[INFO] running `Command { std: "docker" "start" "-a" "f556e568da0a262ed680c4c74f886480305e6f65d403589aff683a024405e583", kill_on_drop: false }`
[INFO] [stderr]    Compiling vcf2msa v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 0.73s
[INFO] [stderr]   Executable unittests src/lib.rs (/opt/rustwide/target/debug/deps/vcf2msa-bd4f432dfd16e6c6)
[INFO] [stderr]   Executable unittests src/main.rs (/opt/rustwide/target/debug/deps/vcf2msa-5006a95350453db2)
[INFO] running `Command { std: "docker" "inspect" "f556e568da0a262ed680c4c74f886480305e6f65d403589aff683a024405e583", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "f556e568da0a262ed680c4c74f886480305e6f65d403589aff683a024405e583", kill_on_drop: false }`
[INFO] [stdout] f556e568da0a262ed680c4c74f886480305e6f65d403589aff683a024405e583
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-2/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=warn" "-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:b0c94ce3c1162fcb8e57cac5b65ec2f72eabb1eebea4fcc35e269e823f681646" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2022-04-10" "test" "--frozen", kill_on_drop: false }`
[INFO] [stdout] 055b85c2480da2352e0cac92a8ae6565706d0bad28bc48dc5767f48608a59f90
[INFO] running `Command { std: "docker" "start" "-a" "055b85c2480da2352e0cac92a8ae6565706d0bad28bc48dc5767f48608a59f90", kill_on_drop: false }`
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 0.16s
[INFO] [stderr]      Running unittests src/lib.rs (/opt/rustwide/target/debug/deps/vcf2msa-bd4f432dfd16e6c6)
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stderr]      Running unittests src/main.rs (/opt/rustwide/target/debug/deps/vcf2msa-5006a95350453db2)
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stderr]    Doc-tests vcf2msa
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] running 0 tests
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] running `Command { std: "docker" "inspect" "055b85c2480da2352e0cac92a8ae6565706d0bad28bc48dc5767f48608a59f90", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "055b85c2480da2352e0cac92a8ae6565706d0bad28bc48dc5767f48608a59f90", kill_on_drop: false }`
[INFO] [stdout] 055b85c2480da2352e0cac92a8ae6565706d0bad28bc48dc5767f48608a59f90