[INFO] cloning repository https://github.com/fg-labs/bwa-mem2-rs
[INFO] running `Command { std: "git" "-c" "credential.helper=" "-c" "credential.helper=/workspace/cargo-home/bin/git-credential-null" "clone" "--bare" "https://github.com/fg-labs/bwa-mem2-rs" "/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ffg-labs%2Fbwa-mem2-rs", kill_on_drop: false }`
[INFO] [stderr] Cloning into bare repository '/workspace/cache/git-repos/https%3A%2F%2Fgithub.com%2Ffg-labs%2Fbwa-mem2-rs'...
[INFO] running `Command { std: "git" "rev-parse" "HEAD", kill_on_drop: false }`
[INFO] [stdout] 3491350afe74ace4aa2210a0b7771fb1675b40b6
[INFO] fixing fg-labs/bwa-mem2-rs 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%2Ffg-labs%2Fbwa-mem2-rs" "/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/.cargo/config.toml
[INFO] removed /workspace/builds/worker-5-tc1/source/rust-toolchain.toml
[INFO] started tweaking git repo https://github.com/fg-labs/bwa-mem2-rs
[INFO] finished tweaking git repo https://github.com/fg-labs/bwa-mem2-rs
[INFO] tweaked toml for git repo https://github.com/fg-labs/bwa-mem2-rs written to /workspace/builds/worker-5-tc1/source/Cargo.toml
[INFO] validating manifest of git repo https://github.com/fg-labs/bwa-mem2-rs 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/fg-labs/bwa-mem2-rs 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 crates.io index
[INFO] [stderr]  Downloading crates ...
[INFO] [stderr]   Downloaded noodles-bgzf v0.42.0
[INFO] [stderr]   Downloaded noodles-fastq v0.18.0
[INFO] [stderr]   Downloaded log v0.4.32
[INFO] [stderr]   Downloaded zlib-rs v0.6.3
[INFO] [stderr]   Downloaded bitflags v2.13.0
[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] 36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d
[INFO] running `Command { std: "docker" "start" "36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d", 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" "36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d" "/opt/rustwide/cargo-home/bin/cargo" "+622891a4e29178280638a6b63a8908bde2c0c854" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d", 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" "36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d" "/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 glob v0.3.3
[INFO] [stderr]    Compiling libc v0.2.186
[INFO] [stderr]    Compiling prettyplease v0.2.37
[INFO] [stderr]    Compiling rustix v0.38.44
[INFO] [stderr]    Compiling minimal-lexical v0.2.1
[INFO] [stderr]    Compiling cfg-if v1.0.4
[INFO] [stderr]    Compiling either v1.16.0
[INFO] [stderr]    Compiling regex-syntax v0.8.11
[INFO] [stderr]    Compiling bitflags v2.13.0
[INFO] [stderr]    Compiling memchr v2.8.1
[INFO] [stderr]    Compiling linux-raw-sys v0.4.15
[INFO] [stderr]    Compiling home v0.5.12
[INFO] [stderr]    Compiling quote v1.0.45
[INFO] [stderr]    Compiling bindgen v0.69.5
[INFO] [stderr]    Compiling log v0.4.32
[INFO] [stderr]    Compiling lazycell v1.3.0
[INFO] [stderr]    Compiling libloading v0.8.9
[INFO] [stderr]    Compiling rustc-hash v1.1.0
[INFO] [stderr]    Compiling shlex v2.0.1
[INFO] [stderr]    Compiling rustix v1.1.4
[INFO] [stderr]     Checking linux-raw-sys v0.12.1
[INFO] [stderr]     Checking once_cell v1.21.4
[INFO] [stderr]    Compiling cc v1.2.63
[INFO] [stderr]    Compiling syn v2.0.117
[INFO] [stderr]    Compiling clang-sys v1.8.1
[INFO] [stderr]    Compiling itertools v0.12.1
[INFO] [stderr]     Checking simd-adler32 v0.3.9
[INFO] [stderr]     Checking rayon v1.12.0
[INFO] [stderr]     Checking zlib-rs v0.6.3
[INFO] [stderr]     Checking bstr v1.12.1
[INFO] [stderr]     Checking miniz_oxide v0.8.9
[INFO] [stderr]    Compiling nom v7.1.3
[INFO] [stderr]     Checking noodles-fastq v0.18.0
[INFO] [stderr]     Checking flate2 v1.1.9
[INFO] [stderr]     Checking noodles-bgzf v0.42.0
[INFO] [stderr]    Compiling regex-automata v0.4.14
[INFO] [stderr]    Compiling which v4.4.2
[INFO] [stderr]    Compiling cexpr v0.6.0
[INFO] [stderr]     Checking tempfile v3.27.0
[INFO] [stderr]    Compiling regex v1.12.4
[INFO] [stderr]    Compiling thiserror-impl v1.0.69
[INFO] [stderr]    Compiling clap_derive v4.6.1
[INFO] [stderr]     Checking thiserror v1.0.69
[INFO] [stderr]     Checking clap v4.6.1
[INFO] [stderr]    Compiling bwa-mem3-sys v0.1.2 (/opt/rustwide/workdir/bwa-mem3-sys)
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/bandedSWA.cpp:1018: warning: ignoring '#pragma unroll ' [-Wunknown-pragmas]
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:  1018 | #pragma unroll(4)
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:       |
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/fastmap.cpp: In function 'int main_mem(int, char**)':
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/fastmap.cpp:1377:23: warning: pointer 'ko' may be used after 'void free(void*)' [-Wuse-after-free]
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:  1377 |                 kclose(ko);
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:       |                 ~~~~~~^~~~
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/fastmap.cpp:1371:21: note: call to 'void free(void*)' here
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:  1371 |                 free(ko);
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:       |                 ~~~~^~~~
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/bwamem.cpp:2017: warning: "_get_pac" redefined
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:  2017 | #define _get_pac(pac, l) ((pac)[(l)>>2]>>((~(l)&3)<<1)&3)
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:       |
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: In file included from /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/bwamem.h:35,
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:                  from /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/bwamem.cpp:31:
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2: /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/build/bwa-mem3/src/bntseq.h:78: note: this is the location of the previous definition
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:    78 | #define _get_pac(pac, l) ((((pac)[(l) >> 2]) >> ((~(l) & 3) << 1)) & 3)
[INFO] [stderr] warning: bwa-mem3-sys@0.1.2:       |
[INFO] [stderr]     Checking bwa-mem3-rs v0.1.2 (/opt/rustwide/workdir/bwa-mem3-rs)
[INFO] [stderr]     Checking bwa-mem3-rs-cli v0.1.2 (/opt/rustwide/workdir/bwa-mem3-rs-cli)
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 01s
[INFO] [stderr] crater-edition-check: all finished
[INFO] running `Command { std: "docker" "inspect" "36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d", kill_on_drop: false }`
[INFO] [stdout] 36d1d6cae5b8d13c16bff31b34f9a915ccad53dd2aa19f72942711c1dba12b9d
