[INFO] cloning repository https://github.com/laeblab/crispy
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/laeblab/crispy" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Flaeblab%2Fcrispy", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Flaeblab%2Fcrispy'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 5d1c69457c80ee0867dc55ddf1ad74a3b6909ccf
[INFO] testing laeblab/crispy against master#432e145bd5a974c5b6f4dd9b352891bd7502b69d for pr-87041
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Flaeblab%2Fcrispy" "/workspace/builds/worker-7/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-7/source'...
[INFO] [stderr] done.
[INFO] validating manifest of git repo https://github.com/laeblab/crispy on toolchain 432e145bd5a974c5b6f4dd9b352891bd7502b69d
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+432e145bd5a974c5b6f4dd9b352891bd7502b69d" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] started tweaking git repo https://github.com/laeblab/crispy
[INFO] finished tweaking git repo https://github.com/laeblab/crispy
[INFO] tweaked toml for git repo https://github.com/laeblab/crispy written to /workspace/builds/worker-7/source/Cargo.toml
[INFO] crate git repo https://github.com/laeblab/crispy already has a lockfile, it will not be regenerated
[INFO] running `Command { std: "/workspace/cargo-home/bin/cargo" "+432e145bd5a974c5b6f4dd9b352891bd7502b69d" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+432e145bd5a974c5b6f4dd9b352891bd7502b69d" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 5e7b938d60b285b56810e3ed97954ec9f1cc9e98984ed023b08c4073c8cd972c
[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" "5e7b938d60b285b56810e3ed97954ec9f1cc9e98984ed023b08c4073c8cd972c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "5e7b938d60b285b56810e3ed97954ec9f1cc9e98984ed023b08c4073c8cd972c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "5e7b938d60b285b56810e3ed97954ec9f1cc9e98984ed023b08c4073c8cd972c", kill_on_drop: false }`
[INFO] [stdout] 5e7b938d60b285b56810e3ed97954ec9f1cc9e98984ed023b08c4073c8cd972c
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+432e145bd5a974c5b6f4dd9b352891bd7502b69d" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] [stdout] 35e2838f052588052d3f78fda65a3ec1c401f387462136f5ff46648dd410118a
[INFO] running `Command { std: "docker" "start" "-a" "35e2838f052588052d3f78fda65a3ec1c401f387462136f5ff46648dd410118a", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.71
[INFO] [stderr]    Compiling proc-macro2 v1.0.5
[INFO] [stderr]    Compiling syn v1.0.5
[INFO] [stderr]    Compiling lazy_static v1.4.0
[INFO] [stderr]    Compiling cfg-if v0.1.10
[INFO] [stderr]    Compiling memchr v2.2.1
[INFO] [stderr]    Compiling serde v1.0.101
[INFO] [stderr]    Compiling semver-parser v0.7.0
[INFO] [stderr]    Compiling byteorder v1.3.2
[INFO] [stderr]    Compiling regex-syntax v0.6.12
[INFO] [stderr]    Compiling ppv-lite86 v0.2.8
[INFO] [stderr]    Compiling feature-probe v0.1.1
[INFO] [stderr]    Compiling rawpointer v0.2.1
[INFO] [stderr]    Compiling ndarray v0.13.1
[INFO] [stderr]    Compiling bitflags v1.2.0
[INFO] [stderr]    Compiling bit-vec v0.5.1
[INFO] [stderr]    Compiling quick-error v1.2.2
[INFO] [stderr]    Compiling ordermap v0.3.5
[INFO] [stderr]    Compiling fixedbitset v0.1.9
[INFO] [stderr]    Compiling bio v0.31.0
[INFO] [stderr]    Compiling itoa v0.4.4
[INFO] [stderr]    Compiling bytecount v0.6.0
[INFO] [stderr]    Compiling fnv v1.0.6
[INFO] [stderr]    Compiling ansi_term v0.11.0
[INFO] [stderr]    Compiling custom_derive v0.1.7
[INFO] [stderr]    Compiling num-traits v0.2.8
[INFO] [stderr]    Compiling num-integer v0.1.41
[INFO] [stderr]    Compiling num-complex v0.2.3
[INFO] [stderr]    Compiling backtrace-sys v0.1.31
[INFO] [stderr]    Compiling error-chain v0.12.1
[INFO] [stderr]    Compiling crossbeam-utils v0.6.6
[INFO] [stderr]    Compiling thread_local v0.3.6
[INFO] [stderr]    Compiling matrixmultiply v0.2.3
[INFO] [stderr]    Compiling semver v0.9.0
[INFO] [stderr]    Compiling bit-set v0.5.1
[INFO] [stderr]    Compiling bv v0.11.1
[INFO] [stderr]    Compiling petgraph v0.4.13
[INFO] [stderr]    Compiling arrayvec v0.4.12
[INFO] [stderr]    Compiling newtype_derive v0.1.6
[INFO] [stderr]    Compiling rustc_version v0.2.3
[INFO] [stderr]    Compiling crossbeam-queue v0.1.2
[INFO] [stderr]    Compiling memoffset v0.5.1
[INFO] [stderr]    Compiling quote v1.0.2
[INFO] [stderr]    Compiling regex-automata v0.1.8
[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]    Compiling getrandom v0.1.14
[INFO] [stderr]    Compiling num_cpus v1.10.1
[INFO] [stderr]    Compiling termios v0.3.1
[INFO] [stderr]    Compiling clicolors-control v1.0.1
[INFO] [stderr]    Compiling atty v0.2.13
[INFO] [stderr]    Compiling rand_core v0.5.1
[INFO] [stderr]    Compiling backtrace v0.3.38
[INFO] [stderr]    Compiling aho-corasick v0.7.6
[INFO] [stderr]    Compiling csv-core v0.1.6
[INFO] [stderr]    Compiling itertools-num v0.1.3
[INFO] [stderr]    Compiling approx v0.3.2
[INFO] [stderr]    Compiling ordered-float v1.0.2
[INFO] [stderr]    Compiling rand_chacha v0.2.2
[INFO] [stderr]    Compiling crossbeam-epoch v0.7.2
[INFO] [stderr]    Compiling rand v0.7.3
[INFO] [stderr]    Compiling crossbeam-deque v0.7.1
[INFO] [stderr]    Compiling regex v1.3.1
[INFO] [stderr]    Compiling rayon-core v1.6.0
[INFO] [stderr]    Compiling statrs v0.12.0
[INFO] [stderr]    Compiling rayon v1.2.0
[INFO] [stderr]    Compiling console v0.9.0
[INFO] [stderr]    Compiling indicatif v0.12.0
[INFO] [stderr]    Compiling serde_derive v1.0.101
[INFO] [stderr]    Compiling snafu-derive v0.6.8
[INFO] [stderr]    Compiling getset v0.0.9
[INFO] [stderr]    Compiling strum_macros v0.18.0
[INFO] [stderr]    Compiling snafu v0.6.8
[INFO] [stderr]    Compiling bstr v0.2.8
[INFO] [stderr]    Compiling vec_map v0.8.1
[INFO] [stderr]    Compiling bio-types v0.5.1
[INFO] [stderr]    Compiling multimap v0.6.0
[INFO] [stderr]    Compiling clap v2.33.0
[INFO] [stderr]    Compiling csv v1.1.1
[INFO] [stderr]    Compiling crispyr v0.2.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished dev [unoptimized + debuginfo] target(s) in 1m 06s
[INFO] running `Command { std: "docker" "inspect" "35e2838f052588052d3f78fda65a3ec1c401f387462136f5ff46648dd410118a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "35e2838f052588052d3f78fda65a3ec1c401f387462136f5ff46648dd410118a", kill_on_drop: false }`
[INFO] [stdout] 35e2838f052588052d3f78fda65a3ec1c401f387462136f5ff46648dd410118a
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+432e145bd5a974c5b6f4dd9b352891bd7502b69d" "test" "--frozen" "--no-run" "--message-format=json", kill_on_drop: false }`
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] [stdout] 1f2939166ca1a7b3813305a95fb5147e2303c54f7aa9e360bdf0431bbb5118d5
[INFO] running `Command { std: "docker" "start" "-a" "1f2939166ca1a7b3813305a95fb5147e2303c54f7aa9e360bdf0431bbb5118d5", kill_on_drop: false }`
[INFO] [stderr]    Compiling crispyr v0.2.0 (/opt/rustwide/workdir)
[INFO] [stderr]     Finished test [unoptimized + debuginfo] target(s) in 3.46s
[INFO] running `Command { std: "docker" "inspect" "1f2939166ca1a7b3813305a95fb5147e2303c54f7aa9e360bdf0431bbb5118d5", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1f2939166ca1a7b3813305a95fb5147e2303c54f7aa9e360bdf0431bbb5118d5", kill_on_drop: false }`
[INFO] [stdout] 1f2939166ca1a7b3813305a95fb5147e2303c54f7aa9e360bdf0431bbb5118d5
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-7/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@sha256:34b6a614d2c27851fe6cbf88fbd1137609cefab8b10d0615aaeb6fd47975d74e" "/opt/rustwide/cargo-home/bin/cargo" "+432e145bd5a974c5b6f4dd9b352891bd7502b69d" "test" "--frozen", kill_on_drop: false }`
[INFO] [stderr] WARNING: Your kernel does not support swap limit capabilities or the cgroup is not mounted. Memory limited without swap.
[INFO] [stdout] 1d88126d1dd0fd947c331c8cfc0e2355ec715a3b7b6c2b77e666bd9a649cf9ea
[INFO] running `Command { std: "docker" "start" "-a" "1d88126d1dd0fd947c331c8cfc0e2355ec715a3b7b6c2b77e666bd9a649cf9ea", 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]     Finished test [unoptimized + debuginfo] target(s) in 10.23s
[INFO] [stderr]      Running unittests (/opt/rustwide/target/debug/deps/crispyr-eb6fad6aa67f4693)
[INFO] [stdout] 
[INFO] [stderr]      Running unittests (/opt/rustwide/target/debug/deps/crispyr-d0dcc5112f33ea84)
[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 tests/enzyme.rs (/opt/rustwide/target/debug/deps/enzyme-31d2a0c019b05b70)
[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] [stdout] 
[INFO] [stdout] running 3 tests
[INFO] [stderr]      Running tests/index.rs (/opt/rustwide/target/debug/deps/index-25ace3ad9a5633e2)
[INFO] [stdout] test test_enzyme_cas9 ... ok
[INFO] [stdout] test test_enzyme_mad7 ... ok
[INFO] [stdout] test test_enzyme_unknown ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 3 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] running 12 tests
[INFO] [stdout] test test_position_to_u64_forward_neg_pos_and_ref ... ok
[INFO] [stdout] test test_position_to_u64_reverse_pos_no_ref ... ok
[INFO] [stdout] test test_position_to_u64_reverse_zeroes ... ok
[INFO] [stderr]      Running tests/iupac.rs (/opt/rustwide/target/debug/deps/iupac-a202becbe46cdc55)
[INFO] [stdout] test test_position_to_u64_reverse_neg_pos_and_ref ... ok
[INFO] [stdout] test test_position_to_u64_reverse_neg_pos_no_ref ... ok
[INFO] [stdout] test test_position_to_u64_reverse_pos_and_ref ... ok
[INFO] [stdout] test test_position_to_u64_forward_neg_pos_no_ref ... ok
[INFO] [stdout] test test_position_to_u64_reverse_ref_no_pos ... ok
[INFO] [stdout] test test_position_to_u64_forward_ref_no_pos ... ok
[INFO] [stdout] test test_position_to_u64_forward_zeroes ... ok
[INFO] [stdout] test test_position_to_u64_forward_pos_and_ref ... ok
[INFO] [stdout] test test_position_to_u64_forward_pos_no_ref ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 12 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.01s
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] running 3 tests
[INFO] [stdout] test test_degenerate_nucleotide ... ok
[INFO] [stdout] test test_basic_nucleotides ... ok
[INFO] [stdout] test test_non_nucleotide_values ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 3 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.00s
[INFO] [stdout] 
[INFO] [stderr]      Running tests/pam.rs (/opt/rustwide/target/debug/deps/pam-d5ebef88ad180fff)
[INFO] [stdout] 
[INFO] [stdout] running 15 tests
[INFO] [stdout] test test_enzyme_kmer_mad7 ... ok
[INFO] [stdout] test test_enzyme_kmer_mut_mad7 ... ok
[INFO] [stdout] test test_head_kmer ... ok
[INFO] [stdout] test test_empty_tail_pam_matches ... ok
[INFO] [stdout] test test_empty_head_pam_matches ... ok
[INFO] [stdout] test test_enzyme_kmer_mut_cas9 ... ok
[INFO] [stdout] test test_tail_kmer ... ok
[INFO] [stdout] test test_empty_head_pam_kmer_slice ... ok
[INFO] [stdout] test test_pam_lengths ... ok
[INFO] [stdout] test test_head_pam_matches ... ok
[INFO] [stdout] test test_enzyme_kmer_cas9 ... ok
[INFO] [stdout] test test_empty_tail_pam_kmer_slice ... ok
[INFO] [stdout] test test_pam_position ... ok
[INFO] [stdout] test test_to_string ... ok
[INFO] [stdout] test test_tail_pam_matches ... ok
[INFO] [stdout] 
[INFO] [stdout] test result: ok. 15 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out; finished in 0.03s
[INFO] [stdout] 
[INFO] [stderr]    Doc-tests crispyr
[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" "1d88126d1dd0fd947c331c8cfc0e2355ec715a3b7b6c2b77e666bd9a649cf9ea", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1d88126d1dd0fd947c331c8cfc0e2355ec715a3b7b6c2b77e666bd9a649cf9ea", kill_on_drop: false }`
[INFO] [stdout] 1d88126d1dd0fd947c331c8cfc0e2355ec715a3b7b6c2b77e666bd9a649cf9ea