[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=end=2015,2024 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-tc2/source", kill_on_drop: false }`
[INFO] [stderr] Cloning into '/workspace/builds/worker-5-tc2/source'...
[INFO] [stderr] done.
[INFO] removed /workspace/builds/worker-5-tc2/source/.cargo/config.toml
[INFO] removed /workspace/builds/worker-5-tc2/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-tc2/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]     Blocking waiting for file lock on package cache
[INFO] [stderr]     Blocking waiting for file lock on package cache
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/source:/opt/rustwide/workdir:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/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] 1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c
[INFO] running `Command { std: "docker" "start" "1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c", 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" "1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c" "/opt/rustwide/cargo-home/bin/cargo" "+622891a4e29178280638a6b63a8908bde2c0c854" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c", 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" "1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c" "/opt/rustwide/cargo-home/bin/cargo" "+622891a4e29178280638a6b63a8908bde2c0c854" "fix" "--allow-no-vcs" "--allow-dirty" "--frozen" "--all" "--all-targets" "--message-format=json" "-Zfix-edition=end=2015,2024", kill_on_drop: false }`
[INFO] [stderr] crater-edition-check: migrating to next edition
[INFO] [stderr]    Migrating bwa-mem3-sys/Cargo.toml from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs/Cargo.toml from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs-cli/Cargo.toml from 2021 edition to 2024
[INFO] [stderr]    Compiling quote v1.0.45
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[INFO] [stderr]    Compiling prettyplease v0.2.37
[INFO] [stderr]    Compiling libc v0.2.186
[INFO] [stderr]    Compiling rustix v0.38.44
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[INFO] [stderr]    Compiling minimal-lexical v0.2.1
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[INFO] [stderr]    Compiling linux-raw-sys v0.4.15
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[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]    Migrating bwa-mem3-sys/build.rs from 2021 edition to 2024
[INFO] [stderr]        Fixed bwa-mem3-sys/build.rs (1 fix)
[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]    Migrating bwa-mem3-sys/src/lib.rs from 2021 edition to 2024
[INFO] [stderr]        Fixed /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs (27 fixes)
[INFO] [stderr]     Checking bwa-mem3-rs v0.1.2 (/opt/rustwide/workdir/bwa-mem3-rs)
[INFO] [stderr]    Migrating bwa-mem3-rs/src/lib.rs from 2021 edition to 2024
[INFO] [stderr]     Checking bwa-mem3-rs-cli v0.1.2 (/opt/rustwide/workdir/bwa-mem3-rs-cli)
[INFO] [stderr]    Migrating bwa-mem3-rs/tests/index_load.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs-cli/tests/e2e.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs/tests/align_smoke.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs-cli/tests/flag_parity.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs/tests/concurrency.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs-cli/tests/phix_seq.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs-cli/src/main.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs/tests/shm_lifecycle.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs/tests/phase_split.rs from 2021 edition to 2024
[INFO] [stderr]    Migrating bwa-mem3-rs/tests/cli_parity.rs from 2021 edition to 2024
[INFO] [stderr]     Finished `dev` profile [unoptimized + debuginfo] target(s) in 1m 08s
[INFO] [stderr] crater-edition-check: bwa-mem3-sys v0.1.2 (/opt/rustwide/workdir/bwa-mem3-sys) updating edition from 2021 to 2024
[INFO] [stderr] crater-edition-check: bwa-mem3-rs v0.1.2 (/opt/rustwide/workdir/bwa-mem3-rs) updating edition from 2021 to 2024
[INFO] [stderr] crater-edition-check: bwa-mem3-rs-cli v0.1.2 (/opt/rustwide/workdir/bwa-mem3-rs-cli) updating edition from 2021 to 2024
[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] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:15757
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... , 1) ; s . assume_init () } } } extern "C" { pub fn bwa_shim_opts_new () -> * mut mem_opt_t ; } extern "C" { pub fn bwa_shim_opts...
[INFO] [stdout]   |                                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:15821
[INFO] [stdout]   |
[INFO] [stdout] 3 | ..._new () -> * mut mem_opt_t ; } extern "C" { pub fn bwa_shim_opts_free (opts : * mut mem_opt_t) ; } extern "C" { pub fn bwa_shim_op...
[INFO] [stdout]   |                                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:15889
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_opts_set_int (opts : * mut mem_opt_t , key : * const :: std :: os :: raw :: c_char , value : :: std :: os :: raw :: c_int) -> :: std :: os :: raw :: c_int ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16077
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...std :: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_pestat_zero () -> * mut mem_pestat_t ; } extern "C" { pub fn bwa_shim_p...
[INFO] [stdout]   |                                  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16147
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...) -> * mut mem_pestat_t ; } extern "C" { pub fn bwa_shim_pestat_free (pestat : * mut mem_pestat_t) ; } extern "C" { pub fn bwa_shi...
[INFO] [stdout]   |                                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16222
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...tat_t) ; } extern "C" { pub fn bwa_shim_idx_load (prefix : * const :: std :: os :: raw :: c_char) -> * mut BwaIndex ; } extern "C"...
[INFO] [stdout]   |               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16331
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...:: c_char) -> * mut BwaIndex ; } extern "C" { pub fn bwa_shim_idx_free (idx : * mut BwaIndex) ; } extern "C" { pub fn bwa_shim_idx...
[INFO] [stdout]   |                                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16396
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...dx : * mut BwaIndex) ; } extern "C" { pub fn bwa_shim_idx_n_contigs (idx : * const BwaIndex) -> usize ; } extern "C" { pub fn bwa_...
[INFO] [stdout]   |                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16477
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_idx_contig_name (idx : * const BwaIndex , i : usize) -> * const :: std :: os :: raw :: c_char ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16604
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... raw :: c_char ; } extern "C" { pub fn bwa_shim_idx_contig_len (idx : * const BwaIndex , i : usize) -> i64 ; } extern "C" { pub fn...
[INFO] [stdout]   |                       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:15757
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... , 1) ; s . assume_init () } } } extern "C" { pub fn bwa_shim_opts_new () -> * mut mem_opt_t ; } extern "C" { pub fn bwa_shim_opts...
[INFO] [stdout]   |                                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16696
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_seed_batch (idx : * const BwaIndex , opts : * const mem_opt_t , pairs : * const BwaReadPair , n_pairs : usize) -> * mut BwaSeeds ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16858
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...: usize) -> * mut BwaSeeds ; } extern "C" { pub fn bwa_shim_seeds_free (seeds : * mut BwaSeeds) ; } extern "C" { pub fn bwa_shim_e...
[INFO] [stdout]   |                                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:15821
[INFO] [stdout]   |
[INFO] [stdout] 3 | ..._new () -> * mut mem_opt_t ; } extern "C" { pub fn bwa_shim_opts_free (opts : * mut mem_opt_t) ; } extern "C" { pub fn bwa_shim_op...
[INFO] [stdout]   |                                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16927
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_extend_batch (idx : * const BwaIndex , opts : * const mem_opt_t , seeds : * mut BwaSeeds , pairs : * const BwaReadPair , n_pairs : usize , pestat_in : * const mem_pestat_t , pestat_out : * mut mem_pestat_t) -> * mut BwaBatch ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17185
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_align_batch (idx : * const BwaIndex , opts : * const mem_opt_t , pairs : * const BwaReadPair , n_pairs : usize , pestat_in : * const mem_pestat_t , pestat_out : * mut mem_pestat_t) -> * mut BwaBatch ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:15889
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_opts_set_int (opts : * mut mem_opt_t , key : * const :: std :: os :: raw :: c_char , value : :: std :: os :: raw :: c_int) -> :: std :: os :: raw :: c_int ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17417
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_estimate_pestat (idx : * const BwaIndex , opts : * const mem_opt_t , pairs : * const BwaReadPair , n_pairs : usize , pestat_out : * mut mem_pestat_t) -> :: std :: os :: raw :: c_int ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16077
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...std :: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_pestat_zero () -> * mut mem_pestat_t ; } extern "C" { pub fn bwa_shim_p...
[INFO] [stdout]   |                                  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17632
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_batch_n_records (b : * const BwaBatch) -> usize ; } extern "C" { pub fn bwa_...
[INFO] [stdout]   |                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17713
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...tch) -> usize ; } extern "C" { pub fn bwa_shim_batch_pair_idx (b : * const BwaBatch , rec : usize) -> usize ; } extern "C" { pub f...
[INFO] [stdout]   |                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16147
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...) -> * mut mem_pestat_t ; } extern "C" { pub fn bwa_shim_pestat_free (pestat : * mut mem_pestat_t) ; } extern "C" { pub fn bwa_shi...
[INFO] [stdout]   |                                ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17807
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...) -> usize ; } extern "C" { pub fn bwa_shim_batch_record_ptr (b : * const BwaBatch , rec : usize) -> * const u8 ; } extern "C" { p...
[INFO] [stdout]   |                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16222
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...tat_t) ; } extern "C" { pub fn bwa_shim_idx_load (prefix : * const :: std :: os :: raw :: c_char) -> * mut BwaIndex ; } extern "C"...
[INFO] [stdout]   |               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17908
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...> * const u8 ; } extern "C" { pub fn bwa_shim_batch_record_len (b : * const BwaBatch , rec : usize) -> usize ; } extern "C" { pub ...
[INFO] [stdout]   |                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16331
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...:: c_char) -> * mut BwaIndex ; } extern "C" { pub fn bwa_shim_idx_free (idx : * mut BwaIndex) ; } extern "C" { pub fn bwa_shim_idx...
[INFO] [stdout]   |                                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18004
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...atch , rec : usize) -> usize ; } extern "C" { pub fn bwa_shim_batch_free (b : * mut BwaBatch) ; } extern "C" { pub fn bwa_shim_las...
[INFO] [stdout]   |                                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16396
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...dx : * mut BwaIndex) ; } extern "C" { pub fn bwa_shim_idx_n_contigs (idx : * const BwaIndex) -> usize ; } extern "C" { pub fn bwa_...
[INFO] [stdout]   |                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18069
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... * mut BwaBatch) ; } extern "C" { pub fn bwa_shim_last_error () -> * const :: std :: os :: raw :: c_char ; } extern "C" { pub fn b...
[INFO] [stdout]   |                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18157
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... :: raw :: c_char ; } extern "C" { pub fn bwa_shim_set_verbosity (level : :: std :: os :: raw :: c_int) ; } extern "C" { pub fn bw...
[INFO] [stdout]   |                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18243
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...; } extern "C" { pub fn bwa_shim_shm_test (prefix : * const :: std :: os :: raw :: c_char) -> :: std :: os :: raw :: c_int ; } ext...
[INFO] [stdout]   |        ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18366
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_shm_stage (prefix : * const :: std :: os :: raw :: c_char) -> :: std :: os :: raw :: c_int ; } ext...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18490
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_shm_destroy () -> :: std :: os :: raw :: c_int ; } extern "C" { pub fn bwa_s...
[INFO] [stdout]   |                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16477
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_idx_contig_name (idx : * const BwaIndex , i : usize) -> * const :: std :: os :: raw :: c_char ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18570
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... :: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_shm_list () -> :: std :: os :: raw :: c_int ; } extern "C" { pub fn bwa_sh...
[INFO] [stdout]   |                               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16604
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... raw :: c_char ; } extern "C" { pub fn bwa_shim_idx_contig_len (idx : * const BwaIndex , i : usize) -> i64 ; } extern "C" { pub fn...
[INFO] [stdout]   |                       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18647
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... :: raw :: c_int ; } extern "C" { pub fn bwa_shim_set_rg_id (id : * const :: std :: os :: raw :: c_char) ; }
[INFO] [stdout]   |                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16696
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_seed_batch (idx : * const BwaIndex , opts : * const mem_opt_t , pairs : * const BwaReadPair , n_pairs : usize) -> * mut BwaSeeds ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16858
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...: usize) -> * mut BwaSeeds ; } extern "C" { pub fn bwa_shim_seeds_free (seeds : * mut BwaSeeds) ; } extern "C" { pub fn bwa_shim_e...
[INFO] [stdout]   |                                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:16927
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_extend_batch (idx : * const BwaIndex , opts : * const mem_opt_t , seeds : * mut BwaSeeds , pairs : * const BwaReadPair , n_pairs : usize , pestat_in : * const mem_pestat_t , pestat_out : * mut mem_pestat_t) -> * mut BwaBatch ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17185
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_align_batch (idx : * const BwaIndex , opts : * const mem_opt_t , pairs : * const BwaReadPair , n_pairs : usize , pestat_in : * const mem_pestat_t , pestat_out : * mut mem_pestat_t) -> * mut BwaBatch ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17417
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_estimate_pestat (idx : * const BwaIndex , opts : * const mem_opt_t , pairs : * const BwaReadPair , n_pairs : usize , pestat_out : * mut mem_pestat_t) -> :: std :: os :: raw :: c_int ; } ex...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17632
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_batch_n_records (b : * const BwaBatch) -> usize ; } extern "C" { pub fn bwa_...
[INFO] [stdout]   |                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17713
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...tch) -> usize ; } extern "C" { pub fn bwa_shim_batch_pair_idx (b : * const BwaBatch , rec : usize) -> usize ; } extern "C" { pub f...
[INFO] [stdout]   |                      ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17807
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...) -> usize ; } extern "C" { pub fn bwa_shim_batch_record_ptr (b : * const BwaBatch , rec : usize) -> * const u8 ; } extern "C" { p...
[INFO] [stdout]   |                   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:17908
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...> * const u8 ; } extern "C" { pub fn bwa_shim_batch_record_len (b : * const BwaBatch , rec : usize) -> usize ; } extern "C" { pub ...
[INFO] [stdout]   |                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18004
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...atch , rec : usize) -> usize ; } extern "C" { pub fn bwa_shim_batch_free (b : * mut BwaBatch) ; } extern "C" { pub fn bwa_shim_las...
[INFO] [stdout]   |                                     ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18069
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... * mut BwaBatch) ; } extern "C" { pub fn bwa_shim_last_error () -> * const :: std :: os :: raw :: c_char ; } extern "C" { pub fn b...
[INFO] [stdout]   |                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18157
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... :: raw :: c_char ; } extern "C" { pub fn bwa_shim_set_verbosity (level : :: std :: os :: raw :: c_int) ; } extern "C" { pub fn bw...
[INFO] [stdout]   |                          ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18243
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...; } extern "C" { pub fn bwa_shim_shm_test (prefix : * const :: std :: os :: raw :: c_char) -> :: std :: os :: raw :: c_int ; } ext...
[INFO] [stdout]   |        ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18366
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... } extern "C" { pub fn bwa_shim_shm_stage (prefix : * const :: std :: os :: raw :: c_char) -> :: std :: os :: raw :: c_int ; } ext...
[INFO] [stdout]   |       ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18490
[INFO] [stdout]   |
[INFO] [stdout] 3 | ...: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_shm_destroy () -> :: std :: os :: raw :: c_int ; } extern "C" { pub fn bwa_s...
[INFO] [stdout]   |                             ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18570
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... :: os :: raw :: c_int ; } extern "C" { pub fn bwa_shim_shm_list () -> :: std :: os :: raw :: c_int ; } extern "C" { pub fn bwa_sh...
[INFO] [stdout]   |                               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[INFO] [stdout] error: extern blocks must be unsafe
[INFO] [stdout]  --> /opt/rustwide/target/debug/build/bwa-mem3-sys-18df9896c67d2707/out/bindings.rs:3:18647
[INFO] [stdout]   |
[INFO] [stdout] 3 | ... :: raw :: c_int ; } extern "C" { pub fn bwa_shim_set_rg_id (id : * const :: std :: os :: raw :: c_char) ; }
[INFO] [stdout]   |                         ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
[INFO] [stdout] 
[INFO] [stdout] 
[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] error: could not compile `bwa-mem3-sys` (lib) due to 27 previous errors
[INFO] [stderr] warning: build failed, waiting for other jobs to finish...
[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] error: could not compile `bwa-mem3-sys` (lib test) due to 27 previous errors
[INFO] running `Command { std: "docker" "inspect" "1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c", kill_on_drop: false }`
[INFO] [stdout] 1e690b8026b476fe595c60e419e05b10acf85761eb51451cb4e417966900b75c
