[INFO] cloning repository https://github.com/seb-hyland/molecular-dynamics
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/seb-hyland/molecular-dynamics" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fseb-hyland%2Fmolecular-dynamics", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fseb-hyland%2Fmolecular-dynamics'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 414ef260203cabcdeff53acb512152d321b99080
[INFO] fixing seb-hyland/molecular-dynamics against try#622891a4e29178280638a6b63a8908bde2c0c854+cargoflags=-Zfix-edition=start=2015 for pr-157817-2
[INFO] running `Command { std: "git" "clone" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Fseb-hyland%2Fmolecular-dynamics" "/workspace/builds/worker-5-tc1/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-5-tc1/source'...
[INFO] [stderr] done.
[INFO] removed /workspace/builds/worker-5-tc1/source/rust-toolchain.toml
[INFO] started tweaking git repo https://github.com/seb-hyland/molecular-dynamics
[INFO] finished tweaking git repo https://github.com/seb-hyland/molecular-dynamics
[INFO] tweaked toml for git repo https://github.com/seb-hyland/molecular-dynamics written to /workspace/builds/worker-5-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/seb-hyland/molecular-dynamics on toolchain 622891a4e29178280638a6b63a8908bde2c0c854
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+622891a4e29178280638a6b63a8908bde2c0c854" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] crate git repo https://github.com/seb-hyland/molecular-dynamics 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" "+622891a4e29178280638a6b63a8908bde2c0c854" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating git repository `https://github.com/seb-hyland/maestro.git`
[INFO] [stderr]     Updating git repository `https://github.com/seb-hyland/dagger.git`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded layout-rs v0.1.3
[INFO] [stderr]   Downloaded toml_writer v1.0.3
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/source:/opt/rustwide/workdir:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc1/target:/opt/rustwide/target:rw,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" "-m" "1610612736" "--network" "none" "ghcr.io/rust-lang/crates-build-env/linux@sha256:3a6becf2bc8dde7f3fa57ede90e4f284e72d296796fc446bbb1e2c7cc0530151" "sleep" "infinity", kill_on_drop: false }`
[INFO] [stdout] 928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3
[INFO] running `Command { std: "docker" "start" "928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-w" "/opt/rustwide/workdir" "--user" "0:0" "928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3" "/opt/rustwide/cargo-home/bin/cargo" "+622891a4e29178280638a6b63a8908bde2c0c854" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "exec" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=" "-e" "RUSTDOCFLAGS=" "-w" "/opt/rustwide/workdir" "--user" "0:0" "928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3" "/opt/rustwide/cargo-home/bin/cargo" "+622891a4e29178280638a6b63a8908bde2c0c854" "fix" "--allow-no-vcs" "--allow-dirty" "--frozen" "--all" "--all-targets" "--message-format=json" "-Zfix-edition=start=2015", kill_on_drop: false }`
[INFO] [stderr]    Compiling libc v0.2.176
[INFO] [stderr]    Compiling getrandom v0.3.3
[INFO] [stderr]    Compiling proc-macro2 v1.0.101
[INFO] [stderr]    Compiling cfg-if v1.0.3
[INFO] [stderr]    Compiling winnow v0.7.13
[INFO] [stderr]    Compiling toml_writer v1.0.3
[INFO] [stderr]     Checking layout-rs v0.1.3
[INFO] [stderr]    Compiling fxhash v0.2.1
[INFO] [stderr]     Checking inventory v0.3.21
[INFO] [stderr]    Compiling serde_core v1.0.228
[INFO] [stderr]     Checking serde_spanned v1.0.2
[INFO] [stderr]     Checking toml_datetime v0.7.2
[INFO] [stderr]    Compiling quote v1.0.41
[INFO] [stderr]    Compiling syn v2.0.106
[INFO] [stderr]    Compiling toml_parser v1.0.3
[INFO] [stderr]    Compiling rand_core v0.9.3
[INFO] [stderr]    Compiling rand_chacha v0.9.0
[INFO] [stderr]     Checking rand v0.9.2
[INFO] [stderr]     Checking toml v0.9.7
[INFO] [stderr]     Checking session_gen v0.1.0 (https://github.com/seb-hyland/maestro.git#b086cf4c)
[INFO] [stderr]    Compiling serde_derive v1.0.228
[INFO] [stderr]    Compiling dagger-macros v0.1.0 (https://github.com/seb-hyland/dagger.git#c2c3f3e2)
[INFO] [stderr]     Checking dagger v0.1.9 (https://github.com/seb-hyland/dagger.git#c2c3f3e2)
[INFO] [stderr]    Compiling serde v1.0.228
[INFO] [stderr]    Compiling maestro_macros v0.1.0 (https://github.com/seb-hyland/maestro.git#b086cf4c)
[INFO] [stderr]     Checking maestro v0.2.10 (https://github.com/seb-hyland/maestro.git#b086cf4c)
[INFO] [stderr]     Checking molecular-dynamics v0.1.0 (/opt/rustwide/workdir)
[INFO] [stdout] error: Failed to spawn script checker!
[INFO] [stdout]        No such file or directory (os error 2)
[INFO] [stdout]   --> src/main.rs:41:18
[INFO] [stdout]    |
[INFO] [stdout] 41 |           script = r#"
[INFO] [stdout]    |  __________________^
[INFO] [stdout] 42 | |             PATH=/arc/project/st-shallam-1/igem-2025/molecular-dynamics/.pixi/envs/default/bin/:$PATH
[INFO] [stdout] 43 | |             echo "
[INFO] [stdout] 44 | |                 source leaprc.water.tip3p
[INFO] [stdout] ...  |
[INFO] [stdout] 54 | |             tleap -f tleap.in > tleap.log
[INFO] [stdout] 55 | |         "#
[INFO] [stdout]    | |__________^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: Failed to spawn script checker!
[INFO] [stdout]        No such file or directory (os error 2)
[INFO] [stdout]   --> src/main.rs:70:18
[INFO] [stdout]    |
[INFO] [stdout] 70 |           script = r#"
[INFO] [stdout]    |  __________________^
[INFO] [stdout] 71 | |             PATH=/arc/project/st-shallam-1/igem-2025/molecular-dynamics/.pixi/envs/default/bin/:$PATH
[INFO] [stdout] 72 | |             echo "
[INFO] [stdout] 73 | | import parmed as pmd
[INFO] [stdout] ...  |
[INFO] [stdout] 79 | |             python parmed_convert.py
[INFO] [stdout] 80 | |         "#
[INFO] [stdout]    | |__________^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: Failed to spawn script checker!
[INFO] [stdout]        No such file or directory (os error 2)
[INFO] [stdout]    --> src/main.rs:102:18
[INFO] [stdout]     |
[INFO] [stdout] 102 |           script = r#"
[INFO] [stdout]     |  __________________^
[INFO] [stdout] 103 | |             set -euo pipefail
[INFO] [stdout] 104 | |
[INFO] [stdout] 105 | |             echo "===> Setting environment variables!"
[INFO] [stdout] ...   |
[INFO] [stdout] 125 | |             echo "===> MD Simulation Complete"
[INFO] [stdout] 126 | |         "#
[INFO] [stdout]     | |__________^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: a method with this name may be added to the standard library in the future
[INFO] [stdout]   --> src/main.rs:17:60
[INFO] [stdout]    |
[INFO] [stdout] 17 |         let [prmtop, inpcrd] = tleap(path, molecule_name)?.into_array();
[INFO] [stdout]    |                                                            ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: call with fully qualified syntax `into_array(...)` to keep using the current method
[INFO] [stdout]    = warning: once this associated item is added to the standard library, the ambiguity may cause an error or change in behavior!
[INFO] [stdout]    = note: for more information, see issue #48919 <https://github.com/rust-lang/rust/issues/48919>
[INFO] [stdout]    = note: `#[warn(unstable_name_collisions)]` (part of `#[warn(future_incompatible)]`) on by default
[INFO] [stdout] help: add `#![feature(alloc_slice_into_array)]` to the crate attributes to enable `Vec::<T, A>::into_array`
[INFO] [stdout]    |
[INFO] [stdout]  1 + #![feature(alloc_slice_into_array)]
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: a method with this name may be added to the standard library in the future
[INFO] [stdout]   --> src/main.rs:18:67
[INFO] [stdout]    |
[INFO] [stdout] 18 |         let [gro, topol] = parmed(prmtop, inpcrd, molecule_name)?.into_array();
[INFO] [stdout]    |                                                                   ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: call with fully qualified syntax `into_array(...)` to keep using the current method
[INFO] [stdout]    = warning: once this associated item is added to the standard library, the ambiguity may cause an error or change in behavior!
[INFO] [stdout]    = note: for more information, see issue #48919 <https://github.com/rust-lang/rust/issues/48919>
[INFO] [stdout] help: add `#![feature(alloc_slice_into_array)]` to the crate attributes to enable `Vec::<T, A>::into_array`
[INFO] [stdout]    |
[INFO] [stdout]  1 + #![feature(alloc_slice_into_array)]
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: a method with this name may be added to the standard library in the future
[INFO] [stdout]   --> src/main.rs:19:69
[INFO] [stdout]    |
[INFO] [stdout] 19 |         let [gromacs_workdir] = gromacs(gro, topol, molecule_name)?.into_array();
[INFO] [stdout]    |                                                                     ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: call with fully qualified syntax `into_array(...)` to keep using the current method
[INFO] [stdout]    = warning: once this associated item is added to the standard library, the ambiguity may cause an error or change in behavior!
[INFO] [stdout]    = note: for more information, see issue #48919 <https://github.com/rust-lang/rust/issues/48919>
[INFO] [stdout] help: add `#![feature(alloc_slice_into_array)]` to the crate attributes to enable `Vec::<T, A>::into_array`
[INFO] [stdout]    |
[INFO] [stdout]  1 + #![feature(alloc_slice_into_array)]
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: Failed to spawn script checker!
[INFO] [stdout]        No such file or directory (os error 2)
[INFO] [stdout]   --> src/main.rs:41:18
[INFO] [stdout]    |
[INFO] [stdout] 41 |           script = r#"
[INFO] [stdout]    |  __________________^
[INFO] [stdout] 42 | |             PATH=/arc/project/st-shallam-1/igem-2025/molecular-dynamics/.pixi/envs/default/bin/:$PATH
[INFO] [stdout] 43 | |             echo "
[INFO] [stdout] 44 | |                 source leaprc.water.tip3p
[INFO] [stdout] ...  |
[INFO] [stdout] 54 | |             tleap -f tleap.in > tleap.log
[INFO] [stdout] 55 | |         "#
[INFO] [stdout]    | |__________^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `molecular-dynamics` (bin "molecular-dynamics") due to 3 previous errors; 3 warnings emitted
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[INFO] [stdout] error: Failed to spawn script checker!
[INFO] [stdout]        No such file or directory (os error 2)
[INFO] [stdout]   --> src/main.rs:70:18
[INFO] [stdout]    |
[INFO] [stdout] 70 |           script = r#"
[INFO] [stdout]    |  __________________^
[INFO] [stdout] 71 | |             PATH=/arc/project/st-shallam-1/igem-2025/molecular-dynamics/.pixi/envs/default/bin/:$PATH
[INFO] [stdout] 72 | |             echo "
[INFO] [stdout] 73 | | import parmed as pmd
[INFO] [stdout] ...  |
[INFO] [stdout] 79 | |             python parmed_convert.py
[INFO] [stdout] 80 | |         "#
[INFO] [stdout]    | |__________^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: Failed to spawn script checker!
[INFO] [stdout]        No such file or directory (os error 2)
[INFO] [stdout]    --> src/main.rs:102:18
[INFO] [stdout]     |
[INFO] [stdout] 102 |           script = r#"
[INFO] [stdout]     |  __________________^
[INFO] [stdout] 103 | |             set -euo pipefail
[INFO] [stdout] 104 | |
[INFO] [stdout] 105 | |             echo "===> Setting environment variables!"
[INFO] [stdout] ...   |
[INFO] [stdout] 125 | |             echo "===> MD Simulation Complete"
[INFO] [stdout] 126 | |         "#
[INFO] [stdout]     | |__________^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: a method with this name may be added to the standard library in the future
[INFO] [stdout]   --> src/main.rs:17:60
[INFO] [stdout]    |
[INFO] [stdout] 17 |         let [prmtop, inpcrd] = tleap(path, molecule_name)?.into_array();
[INFO] [stdout]    |                                                            ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: call with fully qualified syntax `into_array(...)` to keep using the current method
[INFO] [stdout]    = warning: once this associated item is added to the standard library, the ambiguity may cause an error or change in behavior!
[INFO] [stdout]    = note: for more information, see issue #48919 <https://github.com/rust-lang/rust/issues/48919>
[INFO] [stdout]    = note: `#[warn(unstable_name_collisions)]` (part of `#[warn(future_incompatible)]`) on by default
[INFO] [stdout] help: add `#![feature(alloc_slice_into_array)]` to the crate attributes to enable `Vec::<T, A>::into_array`
[INFO] [stdout]    |
[INFO] [stdout]  1 + #![feature(alloc_slice_into_array)]
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: a method with this name may be added to the standard library in the future
[INFO] [stdout]   --> src/main.rs:18:67
[INFO] [stdout]    |
[INFO] [stdout] 18 |         let [gro, topol] = parmed(prmtop, inpcrd, molecule_name)?.into_array();
[INFO] [stdout]    |                                                                   ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: call with fully qualified syntax `into_array(...)` to keep using the current method
[INFO] [stdout]    = warning: once this associated item is added to the standard library, the ambiguity may cause an error or change in behavior!
[INFO] [stdout]    = note: for more information, see issue #48919 <https://github.com/rust-lang/rust/issues/48919>
[INFO] [stdout] help: add `#![feature(alloc_slice_into_array)]` to the crate attributes to enable `Vec::<T, A>::into_array`
[INFO] [stdout]    |
[INFO] [stdout]  1 + #![feature(alloc_slice_into_array)]
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] warning: a method with this name may be added to the standard library in the future
[INFO] [stdout]   --> src/main.rs:19:69
[INFO] [stdout]    |
[INFO] [stdout] 19 |         let [gromacs_workdir] = gromacs(gro, topol, molecule_name)?.into_array();
[INFO] [stdout]    |                                                                     ^^^^^^^^^^
[INFO] [stdout]    |
[INFO] [stdout]    = help: call with fully qualified syntax `into_array(...)` to keep using the current method
[INFO] [stdout]    = warning: once this associated item is added to the standard library, the ambiguity may cause an error or change in behavior!
[INFO] [stdout]    = note: for more information, see issue #48919 <https://github.com/rust-lang/rust/issues/48919>
[INFO] [stdout] help: add `#![feature(alloc_slice_into_array)]` to the crate attributes to enable `Vec::<T, A>::into_array`
[INFO] [stdout]    |
[INFO] [stdout]  1 + #![feature(alloc_slice_into_array)]
[INFO] [stdout]    |
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stderr] error: could not compile `molecular-dynamics` (bin "molecular-dynamics" test) due to 3 previous errors; 3 warnings emitted
[INFO] running `Command { std: "docker" "inspect" "928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3", kill_on_drop: false }`
[INFO] [stdout] 928f8cdd1c3877a7bffa3fd1336175d61aafd35e1aa20a3749718dca9875dcf3
