[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] checking tolkit/vcf2msa against try#1779a8680dcd39c56ed600627cf6742ef07ed78c for pr-149045
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ftolkit%2Fvcf2msa" "/workspace/builds/worker-0-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-0-tc2/source'...
[INFO] [stderr] done.
[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-0-tc2/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/tolkit/vcf2msa on toolchain 1779a8680dcd39c56ed600627cf6742ef07ed78c
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+1779a8680dcd39c56ed600627cf6742ef07ed78c" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/tolkit/vcf2msa 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" "+1779a8680dcd39c56ed600627cf6742ef07ed78c" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded ieee754 v0.2.6
[INFO] [stderr]   Downloaded newtype_derive v0.1.6
[INFO] [stderr]   Downloaded rust-htslib v0.37.0
[INFO] [stderr]   Downloaded unicode-bidi v0.3.6
[INFO] [stderr]   Downloaded derive-new v0.5.9
[INFO] [stderr]   Downloaded nalgebra-macros v0.1.0
[INFO] [stderr]   Downloaded enum-map v1.1.1
[INFO] [stderr]   Downloaded approx v0.5.0
[INFO] [stderr]   Downloaded custom_derive v0.1.7
[INFO] [stderr]   Downloaded itertools-num v0.1.3
[INFO] [stderr]   Downloaded enum-map-derive v0.6.0
[INFO] [stderr]   Downloaded fs-utils v1.1.4
[INFO] [stderr]   Downloaded bytecount v0.6.2
[INFO] [stderr]   Downloaded getset v0.1.1
[INFO] [stderr]   Downloaded strum_macros v0.20.1
[INFO] [stderr]   Downloaded paste v1.0.5
[INFO] [stderr]   Downloaded bio-types v0.12.0
[INFO] [stderr]   Downloaded triple_accel v0.4.0
[INFO] [stderr]   Downloaded simba v0.5.1
[INFO] [stderr]   Downloaded matrixmultiply v0.3.1
[INFO] [stderr]   Downloaded rand_distr v0.4.2
[INFO] [stderr]   Downloaded indexmap v1.7.0
[INFO] [stderr]   Downloaded itertools v0.10.1
[INFO] [stderr]   Downloaded statrs v0.15.0
[INFO] [stderr]   Downloaded syn v1.0.77
[INFO] [stderr]   Downloaded bio v0.37.1
[INFO] [stderr]   Downloaded ndarray v0.15.3
[INFO] [stderr]   Downloaded nalgebra v0.27.1
[INFO] [stderr]   Downloaded hts-sys v1.11.1-fix2
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+1779a8680dcd39c56ed600627cf6742ef07ed78c" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 934d6d5fcacaf585250fa40a1d88f167b35866ccea15b1772c7dde1f9e64e02b
[INFO] running `Command { std: "docker" "start" "-a" "934d6d5fcacaf585250fa40a1d88f167b35866ccea15b1772c7dde1f9e64e02b", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "934d6d5fcacaf585250fa40a1d88f167b35866ccea15b1772c7dde1f9e64e02b", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "934d6d5fcacaf585250fa40a1d88f167b35866ccea15b1772c7dde1f9e64e02b", kill_on_drop: false }`
[INFO] [stdout] 934d6d5fcacaf585250fa40a1d88f167b35866ccea15b1772c7dde1f9e64e02b
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-0-tc2/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" "RUSTDOCFLAGS=--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:d429b63d4308055ea97f60fb1d3dfca48854a00942f1bd2ad806beaf015945ec" "/opt/rustwide/cargo-home/bin/cargo" "+1779a8680dcd39c56ed600627cf6742ef07ed78c" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 1d0ba71dc4063895b37a9d887f4a0b9f250e9acd96f4f38f56c82532750801dd
[INFO] running `Command { std: "docker" "start" "-a" "1d0ba71dc4063895b37a9d887f4a0b9f250e9acd96f4f38f56c82532750801dd", kill_on_drop: false }`
[INFO] [stderr]    Compiling proc-macro2 v1.0.29
[INFO] [stderr]    Compiling unicode-xid v0.2.2
[INFO] [stderr]    Compiling syn v1.0.77
[INFO] [stderr]    Compiling autocfg v1.0.1
[INFO] [stderr]    Compiling libc v0.2.103
[INFO] [stderr]    Compiling libm v0.2.1
[INFO] [stderr]    Compiling memchr v2.4.1
[INFO] [stderr]    Compiling serde_derive v1.0.130
[INFO] [stderr]    Compiling serde v1.0.130
[INFO] [stderr]    Compiling version_check v0.9.3
[INFO] [stderr]    Compiling semver v0.1.20
[INFO] [stderr]    Compiling unicode-segmentation v1.8.0
[INFO] [stderr]    Compiling pkg-config v0.3.20
[INFO] [stderr]     Checking ppv-lite86 v0.2.10
[INFO] [stderr]    Compiling quick-error v1.2.3
[INFO] [stderr]    Compiling typenum v1.14.0
[INFO] [stderr]     Checking tinyvec_macros v0.1.0
[INFO] [stderr]     Checking matrixmultiply v0.3.1
[INFO] [stderr]     Checking tinyvec v1.5.0
[INFO] [stderr]    Compiling fs-utils v1.1.4
[INFO] [stderr]    Compiling paste v1.0.5
[INFO] [stderr]     Checking matches v0.1.9
[INFO] [stderr]    Compiling rustc_version v0.1.7
[INFO] [stderr]    Compiling proc-macro-error-attr v1.0.4
[INFO] [stderr]    Compiling num-traits v0.2.14
[INFO] [stderr]    Compiling num-integer v0.1.44
[INFO] [stderr]    Compiling heck v0.3.3
[INFO] [stderr]    Compiling num-rational v0.4.0
[INFO] [stderr]    Compiling indexmap v1.7.0
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]     Checking aho-corasick v0.7.18
[INFO] [stderr]    Compiling proc-macro-error v1.0.4
[INFO] [stderr]    Compiling quote v1.0.9
[INFO] [stderr]     Checking getrandom v0.2.3
[INFO] [stderr]    Compiling glob v0.3.0
[INFO] [stderr]    Compiling ryu v1.0.5
[INFO] [stderr]     Checking regex-syntax v0.6.25
[INFO] [stderr]    Compiling anyhow v1.0.44
[INFO] [stderr]     Checking byteorder v1.4.3
[INFO] [stderr]     Checking rand_core v0.6.3
[INFO] [stderr]     Checking hashbrown v0.11.2
[INFO] [stderr]    Compiling jobserver v0.1.24
[INFO] [stderr]     Checking regex-automata v0.1.10
[INFO] [stderr]     Checking unicode-bidi v0.3.6
[INFO] [stderr]     Checking unicode-normalization v0.1.19
[INFO] [stderr]    Compiling cc v1.0.70
[INFO] [stderr]     Checking form_urlencoded v1.0.1
[INFO] [stderr]     Checking rand_chacha v0.3.1
[INFO] [stderr]     Checking csv-core v0.1.10
[INFO] [stderr]     Checking unicode-width v0.1.9
[INFO] [stderr]     Checking itoa v0.4.8
[INFO] [stderr]     Checking fixedbitset v0.2.0
[INFO] [stderr]    Compiling bio v0.37.1
[INFO] [stderr]     Checking custom_derive v0.1.7
[INFO] [stderr]     Checking bit-vec v0.6.3
[INFO] [stderr]     Checking either v1.6.1
[INFO] [stderr]     Checking num-complex v0.4.0
[INFO] [stderr]     Checking rand v0.8.4
[INFO] [stderr]     Checking approx v0.5.0
[INFO] [stderr]     Checking itertools v0.10.1
[INFO] [stderr]     Checking ordered-float v1.1.1
[INFO] [stderr]     Checking itertools-num v0.1.3
[INFO] [stderr]     Checking textwrap v0.11.0
[INFO] [stderr]     Checking fxhash v0.2.1
[INFO] [stderr]     Checking bit-set v0.5.2
[INFO] [stderr]     Checking atty v0.2.14
[INFO] [stderr]     Checking strum v0.21.0
[INFO] [stderr]     Checking ieee754 v0.2.6
[INFO] [stderr]     Checking ansi_term v0.11.0
[INFO] [stderr]     Checking triple_accel v0.4.0
[INFO] [stderr]     Checking bytecount v0.6.2
[INFO] [stderr]     Checking linear-map v1.2.0
[INFO] [stderr]     Checking simba v0.5.1
[INFO] [stderr]     Checking ndarray v0.15.3
[INFO] [stderr]     Checking strsim v0.8.0
[INFO] [stderr]     Checking petgraph v0.5.1
[INFO] [stderr]    Compiling libz-sys v1.1.3
[INFO] [stderr]    Compiling hts-sys v1.11.1-fix2
[INFO] [stderr]     Checking rand_distr v0.4.2
[INFO] [stderr]     Checking idna v0.2.3
[INFO] [stderr]     Checking url v2.2.2
[INFO] [stderr]     Checking regex v1.5.4
[INFO] [stderr]    Compiling thiserror-impl v1.0.29
[INFO] [stderr]    Compiling strum_macros v0.20.1
[INFO] [stderr]    Compiling nalgebra-macros v0.1.0
[INFO] [stderr]    Compiling derive-new v0.5.9
[INFO] [stderr]    Compiling enum-map-derive v0.6.0
[INFO] [stderr]    Compiling strum_macros v0.21.1
[INFO] [stderr]    Compiling getset v0.1.1
[INFO] [stderr]     Checking enum-map v1.1.1
[INFO] [stderr]     Checking nalgebra v0.27.1
[INFO] [stderr]     Checking thiserror v1.0.29
[INFO] [stderr]     Checking bio-types v0.12.0
[INFO] [stderr]     Checking rust-htslib v0.37.0
[INFO] [stderr]     Checking vec_map v0.8.2
[INFO] [stderr]     Checking bstr v0.2.17
[INFO] [stderr]     Checking bv v0.11.1
[INFO] [stderr]     Checking multimap v0.8.3
[INFO] [stderr]     Checking clap v2.33.3
[INFO] [stderr]     Checking csv v1.1.6
[INFO] [stderr]     Checking statrs v0.15.0
[INFO] [stderr]     Checking vcf2msa v0.1.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 36.03s
[INFO] [stderr] warning: the following packages contain code that will be rejected by a future version of Rust: nalgebra v0.27.1
[INFO] [stderr] note: to see what the problems were, use the option `--future-incompat-report`, or run `cargo report future-incompatibilities --id 3`
[INFO] running `Command { std: "docker" "inspect" "1d0ba71dc4063895b37a9d887f4a0b9f250e9acd96f4f38f56c82532750801dd", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1d0ba71dc4063895b37a9d887f4a0b9f250e9acd96f4f38f56c82532750801dd", kill_on_drop: false }`
[INFO] [stdout] 1d0ba71dc4063895b37a9d887f4a0b9f250e9acd96f4f38f56c82532750801dd
