[INFO] fetching crate hmmer-rs 0.2.0...
[INFO] testing hmmer-rs-0.2.0 against beta-2025-09-21 for beta-1.91-3
[INFO] extracting crate hmmer-rs 0.2.0 into /workspace/builds/worker-5-tc2/source
[INFO] started tweaking crates.io crate hmmer-rs 0.2.0
[INFO] finished tweaking crates.io crate hmmer-rs 0.2.0
[INFO] tweaked toml for crates.io crate hmmer-rs 0.2.0 written to /workspace/builds/worker-5-tc2/source/Cargo.toml
[INFO] validating manifest of crates.io crate hmmer-rs 0.2.0 on toolchain beta-2025-09-21
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2025-09-21" "metadata" "--manifest-path" "Cargo.toml" "--no-deps", kill_on_drop: false }`
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2025-09-21" "generate-lockfile" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] [stderr]     Updating crates.io index
[INFO] [stderr]      Locking 63 packages to latest compatible versions
[INFO] [stderr]       Adding libhmmer-sys v0.3.0 (available: v0.4.0)
[INFO] running `Command { std: CARGO_HOME="/workspace/cargo-home" RUSTUP_HOME="/workspace/rustup-home" "/workspace/cargo-home/bin/cargo" "+beta-2025-09-21" "fetch" "--manifest-path" "Cargo.toml", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2025-09-21" "metadata" "--no-deps" "--format-version=1", kill_on_drop: false }`
[INFO] [stdout] 22a44686bf38f0a9bc474305772d89fe9ca488a14533f5a4a93e4de08063b491
[INFO] running `Command { std: "docker" "start" "-a" "22a44686bf38f0a9bc474305772d89fe9ca488a14533f5a4a93e4de08063b491", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "inspect" "22a44686bf38f0a9bc474305772d89fe9ca488a14533f5a4a93e4de08063b491", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "22a44686bf38f0a9bc474305772d89fe9ca488a14533f5a4a93e4de08063b491", kill_on_drop: false }`
[INFO] [stdout] 22a44686bf38f0a9bc474305772d89fe9ca488a14533f5a4a93e4de08063b491
[INFO] running `Command { std: "docker" "create" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-tc2/target:/opt/rustwide/target:rw,Z" "-v" "/var/lib/crater-agent-workspace/builds/worker-5-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=warn" "-e" "RUSTDOCFLAGS=--cap-lints=warn" "-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:e90291280db7d1fac5b66fc6dad9f9662629e7365a55743daf9bdf73ebc4ea79" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2025-09-21" "build" "--frozen" "--message-format=json", kill_on_drop: false }`
[INFO] [stdout] 36b48d9ce4edfd2acef193bd09ce7b35fd70dbc618de7dc843287fb56174db0a
[INFO] running `Command { std: "docker" "start" "-a" "36b48d9ce4edfd2acef193bd09ce7b35fd70dbc618de7dc843287fb56174db0a", kill_on_drop: false }`
[INFO] [stderr]    Compiling proc-macro2 v1.0.101
[INFO] [stderr]    Compiling quote v1.0.41
[INFO] [stderr]    Compiling linux-raw-sys v0.4.15
[INFO] [stderr]    Compiling cfg-if v1.0.3
[INFO] [stderr]    Compiling bitflags v2.9.4
[INFO] [stderr]    Compiling rustix v0.38.44
[INFO] [stderr]    Compiling either v1.15.0
[INFO] [stderr]    Compiling log v0.4.28
[INFO] [stderr]    Compiling atty v0.2.14
[INFO] [stderr]    Compiling home v0.5.11
[INFO] [stderr]    Compiling num_cpus v1.17.0
[INFO] [stderr]    Compiling fs_extra v1.3.0
[INFO] [stderr]    Compiling libloading v0.8.9
[INFO] [stderr]    Compiling clap v2.34.0
[INFO] [stderr]    Compiling env_logger v0.9.3
[INFO] [stderr]    Compiling clang-sys v1.8.1
[INFO] [stderr]    Compiling which v4.4.2
[INFO] [stderr]    Compiling bindgen v0.59.2
[INFO] [stderr]    Compiling libhmmer-sys v0.3.0
[INFO] [stderr] error: failed to run custom build command for `libhmmer-sys v0.3.0`
[INFO] [stderr] note: To improve backtraces for build dependencies, set the CARGO_PROFILE_DEV_BUILD_OVERRIDE_DEBUG=true environment variable to enable debug information generation.
[INFO] [stderr] 
[INFO] [stderr] Caused by:
[INFO] [stderr]   process didn't exit successfully: `/opt/rustwide/target/debug/build/libhmmer-sys-835fcda5ea69e687/build-script-build` (exit status: 101)
[INFO] [stderr]   --- stdout
[INFO] [stderr]   configure: Configuring HMMER3 for your system.
[INFO] [stderr]   checking build system type... x86_64-pc-linux-gnu
[INFO] [stderr]   checking host system type... x86_64-pc-linux-gnu
[INFO] [stderr]   checking whether to compile using MPI... no
[INFO] [stderr]   checking for gcc... gcc
[INFO] [stderr]   checking whether the C compiler works... yes
[INFO] [stderr]   checking for C compiler default output file name... a.out
[INFO] [stderr]   checking for suffix of executables... 
[INFO] [stderr]   checking whether we are cross compiling... no
[INFO] [stderr]   checking for suffix of object files... o
[INFO] [stderr]   checking whether the compiler supports GNU C... yes
[INFO] [stderr]   checking whether gcc accepts -g... yes
[INFO] [stderr]   checking for gcc option to enable C11 features... none needed
[INFO] [stderr]   checking how to run the C preprocessor... gcc -E
[INFO] [stderr]   checking for a BSD-compatible install... /usr/bin/install -c
[INFO] [stderr]   checking for strip... strip
[INFO] [stderr]   checking for ranlib... ranlib
[INFO] [stderr]   checking for ar... /usr/bin/ar
[INFO] [stderr]   checking whether ln -s works... yes
[INFO] [stderr]   checking for a sed that does not truncate output... /usr/bin/sed
[INFO] [stderr]   checking for grep that handles long lines and -e... /usr/bin/grep
[INFO] [stderr]   checking for egrep... /usr/bin/grep -E
[INFO] [stderr]   checking whether gcc is Clang... no
[INFO] [stderr]   checking whether pthreads work with -pthread... yes
[INFO] [stderr]   checking for joinable pthread attribute... PTHREAD_CREATE_JOINABLE
[INFO] [stderr]   checking whether more special flags are required for pthreads... no
[INFO] [stderr]   checking for PTHREAD_PRIO_INHERIT... yes
[INFO] [stderr]   checking whether gcc can compile our Altivec/VMX code... no
[INFO] [stderr]   checking whether gcc can compile our SSE code... yes
[INFO] [stderr]   configure: Activating Intel/AMD SSE vector DP implementation
[INFO] [stderr]   checking whether _MM_SET_FLUSH_ZERO_MODE is supported... yes
[INFO] [stderr]   checking compiler support --start-group... yes
[INFO] [stderr]   checking for gzip... /usr/bin/gzip
[INFO] [stderr]   checking for python3... yes
[INFO] [stderr]   checking for library containing clock_gettime... none required
[INFO] [stderr]   checking for stdio.h... yes
[INFO] [stderr]   checking for stdlib.h... yes
[INFO] [stderr]   checking for string.h... yes
[INFO] [stderr]   checking for inttypes.h... yes
[INFO] [stderr]   checking for stdint.h... yes
[INFO] [stderr]   checking for strings.h... yes
[INFO] [stderr]   checking for sys/stat.h... yes
[INFO] [stderr]   checking for sys/types.h... yes
[INFO] [stderr]   checking for unistd.h... yes
[INFO] [stderr]   checking for endian.h... yes
[INFO] [stderr]   checking for inttypes.h... (cached) yes
[INFO] [stderr]   checking for stdint.h... (cached) yes
[INFO] [stderr]   checking for unistd.h... (cached) yes
[INFO] [stderr]   checking for sys/types.h... (cached) yes
[INFO] [stderr]   checking for netinet/in.h... yes
[INFO] [stderr]   checking for sys/param.h... yes
[INFO] [stderr]   checking for sys/sysctl.h... no
[INFO] [stderr]   checking for uint8_t... yes
[INFO] [stderr]   checking for uint16_t... yes
[INFO] [stderr]   checking for uint32_t... yes
[INFO] [stderr]   checking for uint64_t... yes
[INFO] [stderr]   checking for off_t... yes
[INFO] [stderr]   checking whether byte ordering is bigendian... no
[INFO] [stderr]   checking for __attribute__((noreturn))... yes
[INFO] [stderr]   checking for __attribute__((format))... yes
[INFO] [stderr]   checking for mkstemp... yes
[INFO] [stderr]   checking for popen... yes
[INFO] [stderr]   checking for putenv... yes
[INFO] [stderr]   checking for strcasecmp... yes
[INFO] [stderr]   checking for strsep... yes
[INFO] [stderr]   checking for times... yes
[INFO] [stderr]   checking for getpid... yes
[INFO] [stderr]   checking for sysctl... no
[INFO] [stderr]   checking for sysconf... yes
[INFO] [stderr]   checking for getcwd... yes
[INFO] [stderr]   checking for chmod... yes
[INFO] [stderr]   checking for stat... yes
[INFO] [stderr]   checking for fstat... yes
[INFO] [stderr]   checking for erfc... no
[INFO] [stderr]   checking for library containing ntohs... none required
[INFO] [stderr]   checking for library containing ntohl... none required
[INFO] [stderr]   checking for library containing htons... none required
[INFO] [stderr]   checking for library containing htonl... none required
[INFO] [stderr]   checking for library containing socket... none required
[INFO] [stderr]   checking for library containing inet_pton... none required
[INFO] [stderr]   checking for _LARGEFILE_SOURCE value needed for large files... no
[INFO] [stderr]   checking for special C compiler options needed for large files... no
[INFO] [stderr]   checking for _FILE_OFFSET_BITS value needed for large files... no
[INFO] [stderr]   configure: creating ./config.status
[INFO] [stderr]   config.status: creating Makefile
[INFO] [stderr]   config.status: creating src/Makefile
[INFO] [stderr]   config.status: creating testsuite/Makefile
[INFO] [stderr]   config.status: creating profmark/Makefile
[INFO] [stderr]   config.status: creating src/impl_sse/Makefile
[INFO] [stderr]   config.status: creating documentation/Makefile
[INFO] [stderr]   config.status: creating documentation/man/Makefile
[INFO] [stderr]   config.status: creating documentation/userguide/Makefile
[INFO] [stderr]   config.status: creating documentation/userguide/inclusions/Makefile
[INFO] [stderr]   config.status: creating libdivsufsort/Makefile
[INFO] [stderr]   config.status: creating easel/Makefile
[INFO] [stderr]   config.status: creating easel/miniapps/Makefile
[INFO] [stderr]   config.status: creating easel/testsuite/Makefile
[INFO] [stderr]   config.status: creating easel/documentation/Makefile
[INFO] [stderr]   config.status: creating documentation/userguide/titlepage.tex
[INFO] [stderr]   config.status: creating documentation/userguide/titlepage_daemon.tex
[INFO] [stderr]   config.status: creating documentation/userguide/copyright.tex
[INFO] [stderr]   config.status: creating documentation/man/alimask.man
[INFO] [stderr]   config.status: creating documentation/man/hmmalign.man
[INFO] [stderr]   config.status: creating documentation/man/hmmbuild.man
[INFO] [stderr]   config.status: creating documentation/man/hmmc2.man
[INFO] [stderr]   config.status: creating documentation/man/hmmconvert.man
[INFO] [stderr]   config.status: creating documentation/man/hmmemit.man
[INFO] [stderr]   config.status: creating documentation/man/hmmer.man
[INFO] [stderr]   config.status: creating documentation/man/hmmfetch.man
[INFO] [stderr]   config.status: creating documentation/man/hmmlogo.man
[INFO] [stderr]   config.status: creating documentation/man/hmmpgmd.man
[INFO] [stderr]   config.status: creating documentation/man/hmmpgmd_shard.man
[INFO] [stderr]   config.status: creating documentation/man/hmmpress.man
[INFO] [stderr]   config.status: creating documentation/man/hmmscan.man
[INFO] [stderr]   config.status: creating documentation/man/hmmsearch.man
[INFO] [stderr]   config.status: creating documentation/man/hmmsim.man
[INFO] [stderr]   config.status: creating documentation/man/hmmstat.man
[INFO] [stderr]   config.status: creating documentation/man/jackhmmer.man
[INFO] [stderr]   config.status: creating documentation/man/makehmmerdb.man
[INFO] [stderr]   config.status: creating documentation/man/nhmmer.man
[INFO] [stderr]   config.status: creating documentation/man/nhmmscan.man
[INFO] [stderr]   config.status: creating documentation/man/phmmer.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-afetch.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alimanip.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alimap.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alimask.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alimerge.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alipid.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alirev.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-alistat.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-compalign.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-compstruct.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-construct.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-histplot.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-mask.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-mixdchlet.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-reformat.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-selectn.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-seqrange.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-seqstat.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-sfetch.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-shuffle.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-ssdraw.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-translate.man
[INFO] [stderr]   config.status: creating easel/miniapps/esl-weight.man
[INFO] [stderr]   config.status: creating easel/decoy_config.h
[INFO] [stderr]   config.status: creating src/p7_config.h
[INFO] [stderr]   config.status: creating easel/esl_config.h
[INFO] [stderr]   config.status: creating libdivsufsort/divsufsort.h
[INFO] [stderr]   config.status: linking src/impl_sse to src/impl
[INFO] [stderr] 
[INFO] [stderr] 
[INFO] [stderr]   HMMER configuration:
[INFO] [stderr]      compiler:             gcc -O3   -pthread 
[INFO] [stderr]      host:                 x86_64-pc-linux-gnu
[INFO] [stderr]      linker:               
[INFO] [stderr]      libraries:              
[INFO] [stderr]      DP implementation:    sse
[INFO] [stderr] 
[INFO] [stderr]   Now do 'make'  to build HMMER, and optionally:
[INFO] [stderr]          'make check'  to run self tests,
[INFO] [stderr]          'make install'  to install programs and man pages,
[INFO] [stderr]          '(cd easel; make install)'  to install Easel tools.
[INFO] [stderr] 
[INFO] [stderr]        CC build.o
[INFO] [stderr]        CC cachedb.o
[INFO] [stderr]        CC cachedb_shard.o
[INFO] [stderr]        CC emit.o
[INFO] [stderr]        CC errors.o
[INFO] [stderr]        CC evalues.o
[INFO] [stderr]        CC generic_decoding.o
[INFO] [stderr]        CC eweight.o
[INFO] [stderr]        CC generic_fwdback_chk.o
[INFO] [stderr]        CC generic_fwdback.o
[INFO] [stderr]        CC generic_fwdback_banded.o
[INFO] [stderr]        CC generic_msv.o
[INFO] [stderr]        CC generic_optacc.o
[INFO] [stderr]        CC generic_stotrace.o
[INFO] [stderr]        CC generic_null2.o
[INFO] [stderr]        CC generic_viterbi.o
[INFO] [stderr]        CC generic_vtrace.o
[INFO] [stderr]        CC h2_io.o
[INFO] [stderr]        CC heatmap.o
[INFO] [stderr]        CC hmmdmstr.o
[INFO] [stderr]        CC hmmdmstr_shard.o
[INFO] [stderr]        CC hmmd_search_status.o
[INFO] [stderr]        CC hmmdwrkr.o
[INFO] [stderr]        CC hmmdwrkr_shard.o
[INFO] [stderr]        CC hmmdutils.o
[INFO] [stderr]        CC hmmer.o
[INFO] [stderr]        CC logsum.o
[INFO] [stderr]        CC modelconfig.o
[INFO] [stderr]        CC modelstats.o
[INFO] [stderr]        CC mpisupport.o
[INFO] [stderr]        CC seqmodel.o
[INFO] [stderr]        CC tracealign.o
[INFO] [stderr]        CC p7_alidisplay.o
[INFO] [stderr]        CC p7_bg.o
[INFO] [stderr]        CC p7_builder.o
[INFO] [stderr]        CC p7_domain.o
[INFO] [stderr]        CC p7_domaindef.o
[INFO] [stderr]        CC p7_gbands.o
[INFO] [stderr]        CC p7_gmx.o
[INFO] [stderr]        CC p7_gmxb.o
[INFO] [stderr]        CC p7_gmxchk.o
[INFO] [stderr]        CC p7_hit.o
[INFO] [stderr]        CC p7_hmm.o
[INFO] [stderr]        CC p7_hmmcache.o
[INFO] [stderr]        CC p7_hmmd_search_stats.o
[INFO] [stderr]        CC p7_hmmfile.o
[INFO] [stderr]        CC p7_hmmwindow.o
[INFO] [stderr]        CC p7_pipeline.o
[INFO] [stderr]        CC p7_profile.o
[INFO] [stderr]        CC p7_prior.o
[INFO] [stderr]        CC p7_spensemble.o
[INFO] [stderr]        CC p7_tophits.o
[INFO] [stderr]        CC p7_trace.o
[INFO] [stderr]        CC p7_scoredata.o
[INFO] [stderr]        CC hmmpgmd2msa.o
[INFO] [stderr]        CC fm_alphabet.o
[INFO] [stderr]        CC fm_general.o
[INFO] [stderr]        CC fm_sse.o
[INFO] [stderr]        CC fm_ssv.o
[INFO] [stderr]        AR libhmmer-src.stamp
[INFO] [stderr]        SUBDIR impl_sse
[INFO] [stderr]        CC decoding.o
[INFO] [stderr]        CC fwdback.o
[INFO] [stderr]        CC io.o
[INFO] [stderr]        CC ssvfilter.o
[INFO] [stderr]        CC msvfilter.o
[INFO] [stderr]        CC optacc.o
[INFO] [stderr]        CC stotrace.o
[INFO] [stderr]        CC null2.o
[INFO] [stderr]        CC vitfilter.o
[INFO] [stderr]        CC p7_oprofile.o
[INFO] [stderr]        CC mpi.o
[INFO] [stderr]        CC p7_omx.o
[INFO] [stderr]        AR libhmmer-impl.stamp
[INFO] [stderr]        CC easel.o
[INFO] [stderr]        CC esl_alloc.o
[INFO] [stderr]        CC esl_alphabet.o
[INFO] [stderr]        CC esl_arr2.o
[INFO] [stderr]        CC esl_arr3.o
[INFO] [stderr]        CC esl_bitfield.o
[INFO] [stderr]        CC esl_buffer.o
[INFO] [stderr]        CC esl_cluster.o
[INFO] [stderr]        CC esl_composition.o
[INFO] [stderr]        CC esl_cpu.o
[INFO] [stderr]        CC esl_dirichlet.o
[INFO] [stderr]        CC esl_distance.o
[INFO] [stderr]        CC esl_dmatrix.o
[INFO] [stderr]        CC esl_dsqdata.o
[INFO] [stderr]        CC esl_exponential.o
[INFO] [stderr]        CC esl_fileparser.o
[INFO] [stderr]        CC esl_gamma.o
[INFO] [stderr]        CC esl_gencode.o
[INFO] [stderr]        CC esl_getopts.o
[INFO] [stderr]        CC esl_gev.o
[INFO] [stderr]        CC esl_graph.o
[INFO] [stderr]        CC esl_gumbel.o
[INFO] [stderr]        CC esl_heap.o
[INFO] [stderr]        CC esl_histogram.o
[INFO] [stderr]        CC esl_hmm.o
[INFO] [stderr]        CC esl_huffman.o
[INFO] [stderr]        CC esl_hyperexp.o
[INFO] [stderr]        CC esl_json.o
[INFO] [stderr]        CC esl_keyhash.o
[INFO] [stderr]        CC esl_matrixops.o
[INFO] [stderr]        CC esl_mem.o
[INFO] [stderr]        CC esl_minimizer.o
[INFO] [stderr]        CC esl_mixdchlet.o
[INFO] [stderr]        CC esl_mixgev.o
[INFO] [stderr]        CC esl_mpi.o
[INFO] [stderr]        CC esl_msa.o
[INFO] [stderr]        CC esl_msacluster.o
[INFO] [stderr]        CC esl_msafile.o
[INFO] [stderr]        CC esl_msafile2.o
[INFO] [stderr]        CC esl_msafile_a2m.o
[INFO] [stderr]        CC esl_msafile_afa.o
[INFO] [stderr]        CC esl_msafile_clustal.o
[INFO] [stderr]        CC esl_msafile_phylip.o
[INFO] [stderr]        CC esl_msafile_psiblast.o
[INFO] [stderr]        CC esl_msafile_selex.o
[INFO] [stderr]        CC esl_msafile_stockholm.o
[INFO] [stderr]        CC esl_msashuffle.o
[INFO] [stderr]        CC esl_msaweight.o
[INFO] [stderr]        CC esl_normal.o
[INFO] [stderr]        CC esl_paml.o
[INFO] [stderr]        CC esl_quicksort.o
[INFO] [stderr]        CC esl_random.o
[INFO] [stderr]        CC esl_rand64.o
[INFO] [stderr]        CC esl_randomseq.o
[INFO] [stderr]        CC esl_ratematrix.o
[INFO] [stderr]        CC esl_recorder.o
[INFO] [stderr]        CC esl_red_black.o
[INFO] [stderr]        CC esl_regexp.o
[INFO] [stderr]        CC esl_rootfinder.o
[INFO] [stderr]        CC esl_scorematrix.o
[INFO] [stderr]        CC esl_sq.o
[INFO] [stderr]        CC esl_sqio.o
[INFO] [stderr]        CC esl_sqio_ascii.o
[INFO] [stderr]        CC esl_sqio_ncbi.o
[INFO] [stderr]        CC esl_ssi.o
[INFO] [stderr]        CC esl_stack.o
[INFO] [stderr]        CC esl_stats.o
[INFO] [stderr]        CC esl_stretchexp.o
[INFO] [stderr]        CC esl_stopwatch.o
[INFO] [stderr]        CC esl_subcmd.o
[INFO] [stderr]        CC esl_threads.o
[INFO] [stderr]        CC esl_tree.o
[INFO] [stderr]        CC esl_varint.o
[INFO] [stderr]        CC esl_vectorops.o
[INFO] [stderr]        CC esl_weibull.o
[INFO] [stderr]        CC esl_workqueue.o
[INFO] [stderr]        CC esl_wuss.o
[INFO] [stderr]        CC esl_sse.o
[INFO] [stderr]        CC esl_avx.o
[INFO] [stderr]        CC esl_avx512.o
[INFO] [stderr]        CC esl_neon.o
[INFO] [stderr]        CC esl_vmx.o
[INFO] [stderr]        AR libeasel.a
[INFO] [stderr] 
[INFO] [stderr]   --- stderr
[INFO] [stderr]   configure.ac:238: warning: The macro `AC_PROG_CC_STDC' is obsolete.
[INFO] [stderr]   configure.ac:238: You should run autoupdate.
[INFO] [stderr]   ./lib/autoconf/c.m4:1666: AC_PROG_CC_STDC is expanded from...
[INFO] [stderr]   configure.ac:238: the top level
[INFO] [stderr]   configure.ac:278: warning: $as_echo is obsolete; use AS_ECHO(["message"]) instead
[INFO] [stderr]   lib/m4sugar/m4sh.m4:692: _AS_IF_ELSE is expanded from...
[INFO] [stderr]   lib/m4sugar/m4sh.m4:699: AS_IF is expanded from...
[INFO] [stderr]   ./lib/autoconf/general.m4:2249: AC_CACHE_VAL is expanded from...
[INFO] [stderr]   ./lib/autoconf/general.m4:2270: AC_CACHE_CHECK is expanded from...
[INFO] [stderr]   easel/m4/ax_pthread.m4:88: AX_PTHREAD is expanded from...
[INFO] [stderr]   configure.ac:278: the top level
[INFO] [stderr]   In file included from /usr/include/string.h:548,
[INFO] [stderr]                    from hmmdmstr.c:10:
[INFO] [stderr]   In function 'memset',
[INFO] [stderr]       inlined from 'destroy_worker' at hmmdmstr.c:948:5,
[INFO] [stderr]       inlined from 'update_workers' at hmmdmstr.c:285:7,
[INFO] [stderr]       inlined from 'update_workers' at hmmdmstr.c:240:1:
[INFO] [stderr]   /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: argument 1 null where non-null expected [-Wnonnull]
[INFO] [stderr]      59 |   return __builtin___memset_chk (__dest, __ch, __len,
[INFO] [stderr]         |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr]      60 |                                  __glibc_objsize0 (__dest));
[INFO] [stderr]         |                                  ~~~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr]   /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: note: in a call to built-in function '__builtin_memset'
[INFO] [stderr]   In file included from /usr/include/string.h:548,
[INFO] [stderr]                    from hmmdmstr_shard.c:10:
[INFO] [stderr]   In function 'memset',
[INFO] [stderr]       inlined from 'destroy_worker' at hmmdmstr_shard.c:987:5,
[INFO] [stderr]       inlined from 'update_workers' at hmmdmstr_shard.c:306:7,
[INFO] [stderr]       inlined from 'update_workers' at hmmdmstr_shard.c:260:1:
[INFO] [stderr]   /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: warning: argument 1 null where non-null expected [-Wnonnull]
[INFO] [stderr]      59 |   return __builtin___memset_chk (__dest, __ch, __len,
[INFO] [stderr]         |          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr]      60 |                                  __glibc_objsize0 (__dest));
[INFO] [stderr]         |                                  ~~~~~~~~~~~~~~~~~~~~~~~~~~
[INFO] [stderr]   /usr/include/x86_64-linux-gnu/bits/string_fortified.h:59:10: note: in a call to built-in function '__builtin_memset'
[INFO] [stderr] 
[INFO] [stderr]   thread 'main' (333) panicked at /opt/rustwide/cargo-home/registry/src/index.crates.io-1949cf8c6b5b557f/bindgen-0.59.2/src/ir/ty.rs:1135:22:
[INFO] [stderr]   Not able to resolve vector element?: Continue
[INFO] [stderr]   stack backtrace:
[INFO] [stderr]      0:     0x63778c1383c2 - std::backtrace_rs::backtrace::libunwind::trace::hcab59e1e990fdc24
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/../../backtrace/src/backtrace/libunwind.rs:117:9
[INFO] [stderr]      1:     0x63778c1383c2 - std::backtrace_rs::backtrace::trace_unsynchronized::he24cc57f3d2f47b7
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/../../backtrace/src/backtrace/mod.rs:66:14
[INFO] [stderr]      2:     0x63778c1383c2 - std::sys::backtrace::_print_fmt::hf8d65ede198eeb54
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/sys/backtrace.rs:66:9
[INFO] [stderr]      3:     0x63778c1383c2 - <std::sys::backtrace::BacktraceLock::print::DisplayBacktrace as core::fmt::Display>::fmt::h67edf0e4d33c343c
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/sys/backtrace.rs:39:26
[INFO] [stderr]      4:     0x63778c1495ef - core::fmt::rt::Argument::fmt::hef94184842aeafdd
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/core/src/fmt/rt.rs:173:76
[INFO] [stderr]      5:     0x63778c1495ef - core::fmt::write::hcf0c66b48a8fa606
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/core/src/fmt/mod.rs:1468:25
[INFO] [stderr]      6:     0x63778c1093c1 - std::io::default_write_fmt::h1ecb8c7cfa7da481
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/io/mod.rs:639:11
[INFO] [stderr]      7:     0x63778c1093c1 - std::io::Write::write_fmt::h051fe4a9e4fdbf48
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/io/mod.rs:1954:13
[INFO] [stderr]      8:     0x63778c115692 - std::sys::backtrace::BacktraceLock::print::h07e5435aa717b414
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/sys/backtrace.rs:42:9
[INFO] [stderr]      9:     0x63778c1182cf - std::panicking::default_hook::{{closure}}::h91001850288db5f7
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:301:27
[INFO] [stderr]     10:     0x63778c118129 - std::panicking::default_hook::h2346dbb704ef5512
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:328:9
[INFO] [stderr]     11:     0x63778c118955 - std::panicking::panic_with_hook::hd2b063a6090d23a4
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:834:13
[INFO] [stderr]     12:     0x63778c1187ea - std::panicking::panic_handler::{{closure}}::he666d95f139a333e
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:707:13
[INFO] [stderr]     13:     0x63778c1157c9 - std::sys::backtrace::__rust_end_short_backtrace::h631ad224854ebee5
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/sys/backtrace.rs:174:18
[INFO] [stderr]     14:     0x63778c0fd29d - __rustc[1d67440d6e82e4f]::rust_begin_unwind
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:698:5
[INFO] [stderr]     15:     0x63778c153780 - core::panicking::panic_fmt::h420ddb7fd73daf53
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/core/src/panicking.rs:75:14
[INFO] [stderr]     16:     0x63778c1529b6 - core::result::unwrap_failed::hdde076be853d034f
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/core/src/result.rs:1855:5
[INFO] [stderr]     17:     0x63778bcf2475 - core::result::Result<T,E>::expect::h75450484d04f6bef
[INFO] [stderr]     18:     0x63778bd055e6 - bindgen::ir::ty::Type::from_clang_ty::h1a7daf8531e0696d
[INFO] [stderr]     19:     0x63778bd66293 - <bindgen::ir::item::Item as bindgen::parse::ClangItemParser>::from_ty_with_id::h7ee155b8f80c3985
[INFO] [stderr]     20:     0x63778bd69ab8 - <bindgen::ir::item::Item as bindgen::parse::ClangItemParser>::from_ty::h4b7cb4c6a4bc3190
[INFO] [stderr]     21:     0x63778bd81b9f - bindgen::ir::context::BindgenContext::resolve_typerefs::h3372f0487fcc0f91
[INFO] [stderr]     22:     0x63778bd8c0da - bindgen::ir::context::BindgenContext::gen::hc5809a8906d1d9e6
[INFO] [stderr]     23:     0x63778bd5539d - bindgen::codegen::codegen::h3eb5b01bc5abd8ad
[INFO] [stderr]     24:     0x63778bc5dc2f - bindgen::Bindings::generate::h8a92876c74c28e18
[INFO] [stderr]     25:     0x63778bc5874b - bindgen::Builder::generate::h8460a136adaee351
[INFO] [stderr]     26:     0x63778bc2edb3 - build_script_build::main::ha297c45dc16eb69d
[INFO] [stderr]     27:     0x63778bc30d53 - core::ops::function::FnOnce::call_once::hbc916cee55e78682
[INFO] [stderr]     28:     0x63778bc30486 - std::sys::backtrace::__rust_begin_short_backtrace::hb45e11ec8991a4c8
[INFO] [stderr]     29:     0x63778bc30409 - std::rt::lang_start::{{closure}}::h8a61563ca753a627
[INFO] [stderr]     30:     0x63778c10af20 - core::ops::function::impls::<impl core::ops::function::FnOnce<A> for &F>::call_once::h4967fb77e0dfb65c
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/core/src/ops/function.rs:287:21
[INFO] [stderr]     31:     0x63778c10af20 - std::panicking::catch_unwind::do_call::hf7e87675c3e14c23
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:590:40
[INFO] [stderr]     32:     0x63778c10af20 - std::panicking::catch_unwind::h26f0e342004b5114
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:553:19
[INFO] [stderr]     33:     0x63778c10af20 - std::panic::catch_unwind::h9ee33ca17775d897
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panic.rs:359:14
[INFO] [stderr]     34:     0x63778c10af20 - std::rt::lang_start_internal::{{closure}}::h243ba3495fa13cf8
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/rt.rs:175:24
[INFO] [stderr]     35:     0x63778c10af20 - std::panicking::catch_unwind::do_call::h819db0a7788e7259
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:590:40
[INFO] [stderr]     36:     0x63778c10af20 - std::panicking::catch_unwind::h23e08fb4a7b9f405
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panicking.rs:553:19
[INFO] [stderr]     37:     0x63778c10af20 - std::panic::catch_unwind::h7ca3d9eabb6135ff
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/panic.rs:359:14
[INFO] [stderr]     38:     0x63778c10af20 - std::rt::lang_start_internal::h06ad7395f4fda8d7
[INFO] [stderr]                                  at /rustc/bb624dcb4c8ab987e10c0808d92d76f3b84dd117/library/std/src/rt.rs:171:5
[INFO] [stderr]     39:     0x63778bc303f1 - std::rt::lang_start::h691c4f7daea8dc0d
[INFO] [stderr]     40:     0x63778bc380b5 - main
[INFO] [stderr]     41:     0x7baca00001ca - <unknown>
[INFO] [stderr]     42:     0x7baca000028b - __libc_start_main
[INFO] [stderr]     43:     0x63778bc2d875 - _start
[INFO] [stderr]     44:                0x0 - <unknown>
[INFO] running `Command { std: "docker" "inspect" "36b48d9ce4edfd2acef193bd09ce7b35fd70dbc618de7dc843287fb56174db0a", kill_on_drop: false }`
[INFO] running `Command { std: "docker" "rm" "-f" "36b48d9ce4edfd2acef193bd09ce7b35fd70dbc618de7dc843287fb56174db0a", kill_on_drop: false }`
[INFO] [stdout] 36b48d9ce4edfd2acef193bd09ce7b35fd70dbc618de7dc843287fb56174db0a
