[INFO] cloning repository https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/HadiKhan-dev/li_stephens_py_hkhan" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHadiKhan-dev%2Fli_stephens_py_hkhan", kill_on_drop: false }` [INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHadiKhan-dev%2Fli_stephens_py_hkhan'... [INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }` [INFO] [stdout] ffb5c9dcd42dda06baf4a228c5dc028b0ef4fd09 [INFO] checking HadiKhan-dev/li_stephens_py_hkhan against master#8f359beca4e58bc3ae795a666301a8f47023044c for pr-121545 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHadiKhan-dev%2Fli_stephens_py_hkhan" "/workspace/builds/worker-4-tc1/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-4-tc1/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan on toolchain 8f359beca4e58bc3ae795a666301a8f47023044c [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+8f359beca4e58bc3ae795a666301a8f47023044c" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] finished tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] tweaked toml for git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan written to /workspace/builds/worker-4-tc1/source/Cargo.toml [INFO] crate git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan 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" "+8f359beca4e58bc3ae795a666301a8f47023044c" "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 [ERROR] error running command: no output for 300 seconds [ERROR] this task or one of its parent failed! [ERROR] no output for 300 seconds [ERROR] note: run with `RUST_BACKTRACE=1` to display a backtrace. [INFO] checking HadiKhan-dev/li_stephens_py_hkhan against try#7ee76453dd3eae6de6c1351f26482bed63b01beb for pr-121545 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHadiKhan-dev%2Fli_stephens_py_hkhan" "/workspace/builds/worker-4-tc2/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-4-tc2/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan on toolchain 7ee76453dd3eae6de6c1351f26482bed63b01beb [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] finished tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] tweaked toml for git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan written to /workspace/builds/worker-4-tc2/source/Cargo.toml [INFO] crate git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan 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" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "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 [ERROR] error running command: no output for 300 seconds [INFO] checking HadiKhan-dev/li_stephens_py_hkhan against try#7ee76453dd3eae6de6c1351f26482bed63b01beb for pr-121545 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHadiKhan-dev%2Fli_stephens_py_hkhan" "/workspace/builds/worker-4-tc2/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-4-tc2/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan on toolchain 7ee76453dd3eae6de6c1351f26482bed63b01beb [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] finished tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] tweaked toml for git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan written to /workspace/builds/worker-4-tc2/source/Cargo.toml [INFO] crate git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan 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" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }` [INFO] [stderr] Blocking waiting for file lock on package cache [ERROR] error running command: no output for 300 seconds [INFO] checking HadiKhan-dev/li_stephens_py_hkhan against try#7ee76453dd3eae6de6c1351f26482bed63b01beb for pr-121545 [INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2FHadiKhan-dev%2Fli_stephens_py_hkhan" "/workspace/builds/worker-4-tc2/source", kill_on_drop: false }` [INFO] [stderr] Cloning into '/workspace/builds/worker-4-tc2/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan on toolchain 7ee76453dd3eae6de6c1351f26482bed63b01beb [INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }` [INFO] started tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] finished tweaking git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan [INFO] tweaked toml for git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan written to /workspace/builds/worker-4-tc2/source/Cargo.toml [INFO] crate git repo https://github.com/HadiKhan-dev/li_stephens_py_hkhan 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" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "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 ndarray v0.15.4 [INFO] [stderr] Downloaded li-stephens v0.1.0 [INFO] [stderr] Downloaded numpy v0.15.1 [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }` [INFO] [stdout] 590b7902bc6e061ac6d129c49e1e03d34b854be891be31c38379e90c1e33febe [INFO] running `Command { std: "docker" "start" "-a" "590b7902bc6e061ac6d129c49e1e03d34b854be891be31c38379e90c1e33febe", kill_on_drop: false }` [INFO] running `Command { std: "docker" "inspect" "590b7902bc6e061ac6d129c49e1e03d34b854be891be31c38379e90c1e33febe", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "590b7902bc6e061ac6d129c49e1e03d34b854be891be31c38379e90c1e33febe", kill_on_drop: false }` [INFO] [stdout] 590b7902bc6e061ac6d129c49e1e03d34b854be891be31c38379e90c1e33febe [INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-4-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@sha256:2788e3201cd34a07e3172128adcd8b3090168a8e3bcc40d7c032b9dda1df7d1c" "/opt/rustwide/cargo-home/bin/cargo" "+7ee76453dd3eae6de6c1351f26482bed63b01beb" "check" "--frozen" "--all" "--all-targets" "--message-format=json", kill_on_drop: false }` [INFO] [stdout] 971c0f7c1c1fb15b305df0778ac73d274bd28b3b66beda6630398e9e7d88a8a8 [INFO] running `Command { std: "docker" "start" "-a" "971c0f7c1c1fb15b305df0778ac73d274bd28b3b66beda6630398e9e7d88a8a8", kill_on_drop: false }` [INFO] [stderr] Compiling proc-macro-hack v0.5.20+deprecated [INFO] [stderr] Compiling pyo3-build-config v0.15.2 [INFO] [stderr] Compiling once_cell v1.19.0 [INFO] [stderr] Compiling num-integer v0.1.45 [INFO] [stderr] Compiling parking_lot_core v0.8.6 [INFO] [stderr] Checking rawpointer v0.2.1 [INFO] [stderr] Compiling unindent v0.1.11 [INFO] [stderr] Checking smallvec v1.13.1 [INFO] [stderr] Compiling syn v1.0.109 [INFO] [stderr] Compiling num-traits v0.2.15 [INFO] [stderr] Checking matrixmultiply v0.3.2 [INFO] [stderr] Checking parking_lot v0.11.2 [INFO] [stderr] Compiling pyo3 v0.15.2 [INFO] [stderr] Compiling paste-impl v0.1.18 [INFO] [stderr] Checking num-complex v0.4.2 [INFO] [stderr] Checking paste v0.1.18 [INFO] [stderr] Checking ndarray v0.15.4 [INFO] [stderr] Compiling pyo3-macros-backend v0.15.2 [INFO] [stderr] Compiling indoc-impl v0.3.6 [INFO] [stderr] Checking indoc v0.3.6 [INFO] [stderr] Checking li-stephens v0.1.0 [INFO] [stderr] Compiling pyo3-macros v0.15.2 [INFO] [stderr] Checking numpy v0.15.1 [INFO] [stderr] Checking li_stephens_py_hkhan v0.1.1 (/opt/rustwide/workdir) [INFO] [stdout] warning: unused import: `ndarray` [INFO] [stdout] --> src/lib.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use ndarray; [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `IntoPyArray`, `PyArray1`, `PyArray2`, `PyArrayDyn`, `PyReadonlyArrayDyn` [INFO] [stdout] --> src/lib.rs:2:13 [INFO] [stdout] | [INFO] [stdout] 2 | use numpy::{IntoPyArray, PyArray1, PyArray2, PyArrayDyn, PyReadonlyArrayDyn}; [INFO] [stdout] | ^^^^^^^^^^^ ^^^^^^^^ ^^^^^^^^ ^^^^^^^^^^ ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: the item `li_stephens` is imported redundantly [INFO] [stdout] --> src/lib.rs:4:5 [INFO] [stdout] | [INFO] [stdout] 4 | use li_stephens; [INFO] [stdout] | ^^^^^^^^^^^ the item `li_stephens` is already defined here [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::collections::HashMap` [INFO] [stdout] --> src/lib.rs:5:5 [INFO] [stdout] | [INFO] [stdout] 5 | use std::collections::HashMap; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `ndarray` [INFO] [stdout] --> src/lib.rs:1:5 [INFO] [stdout] | [INFO] [stdout] 1 | use ndarray; [INFO] [stdout] | ^^^^^^^ [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_imports)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused imports: `IntoPyArray`, `PyArray1`, `PyArray2`, `PyArrayDyn`, `PyReadonlyArrayDyn` [INFO] [stdout] --> src/lib.rs:2:13 [INFO] [stdout] | [INFO] [stdout] 2 | use numpy::{IntoPyArray, PyArray1, PyArray2, PyArrayDyn, PyReadonlyArrayDyn}; [INFO] [stdout] | ^^^^^^^^^^^ ^^^^^^^^ ^^^^^^^^ ^^^^^^^^^^ ^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: the item `li_stephens` is imported redundantly [INFO] [stdout] --> src/lib.rs:4:5 [INFO] [stdout] | [INFO] [stdout] 4 | use li_stephens; [INFO] [stdout] | ^^^^^^^^^^^ the item `li_stephens` is already defined here [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused import: `std::collections::HashMap` [INFO] [stdout] --> src/lib.rs:5:5 [INFO] [stdout] | [INFO] [stdout] 5 | use std::collections::HashMap; [INFO] [stdout] | ^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `py` [INFO] [stdout] --> src/lib.rs:12:31 [INFO] [stdout] | [INFO] [stdout] 12 | fn li_stephens_probs<'py>(py: Python<'py>,haplotypes: Vec, test_haplotype: String, mutation_prob: f64, [INFO] [stdout] | ^^ help: if this is intentional, prefix it with an underscore: `_py` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: unused variable: `py` [INFO] [stdout] --> src/lib.rs:12:31 [INFO] [stdout] | [INFO] [stdout] 12 | fn li_stephens_probs<'py>(py: Python<'py>,haplotypes: Vec, test_haplotype: String, mutation_prob: f64, [INFO] [stdout] | ^^ help: if this is intentional, prefix it with an underscore: `_py` [INFO] [stdout] | [INFO] [stdout] = note: `#[warn(unused_variables)]` on by default [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 5 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stdout] warning: 5 warnings emitted [INFO] [stdout] [INFO] [stdout] [INFO] [stderr] Finished `dev` profile [unoptimized + debuginfo] target(s) in 12.49s [INFO] running `Command { std: "docker" "inspect" "971c0f7c1c1fb15b305df0778ac73d274bd28b3b66beda6630398e9e7d88a8a8", kill_on_drop: false }` [INFO] running `Command { std: "docker" "rm" "-f" "971c0f7c1c1fb15b305df0778ac73d274bd28b3b66beda6630398e9e7d88a8a8", kill_on_drop: false }` [INFO] [stdout] 971c0f7c1c1fb15b305df0778ac73d274bd28b3b66beda6630398e9e7d88a8a8