Nov 27 16:39:18.822 INFO documenting natir/mapping2barcode against try#f5a0bd723553ea4b7556bd7087b9f0919cafb483 for pr-55318 Nov 27 16:39:18.824 INFO running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-55318/worker-3/try#f5a0bd723553ea4b7556bd7087b9f0919cafb483:/target:rw,Z" "-v" "/mnt/big/crater/work/local/test-source/worker-3/pr-55318/try#f5a0bd723553ea4b7556bd7087b9f0919cafb483:/source:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/source" "-e" "USER_ID=1000" "-e" "CMD=cargo +f5a0bd723553ea4b7556bd7087b9f0919cafb483-alt doc --frozen --no-deps --document-private-items" "-e" "CARGO_TARGET_DIR=/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTDOCFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/cargo-home" "-e" "RUSTUP_HOME=/rustup-home" "-m" "1536M" "--network" "none" "crater"` Nov 27 16:39:19.181 INFO [stdout] 886ae3f630ab3ecbf59af00949ed56ad7b39f1d113bbfeaeabaa3074f3ff0fa2 Nov 27 16:39:19.184 INFO running `"docker" "start" "-a" "886ae3f630ab3ecbf59af00949ed56ad7b39f1d113bbfeaeabaa3074f3ff0fa2"` Nov 27 16:39:21.473 INFO [stderr] usermod: no changes Nov 27 16:39:21.868 INFO [stderr] Compiling bindgen v0.36.1 Nov 27 16:39:21.870 INFO [stderr] Checking bytecount v0.3.2 Nov 27 16:39:21.870 INFO [stderr] Checking linear-map v1.2.0 Nov 27 16:39:21.871 INFO [stderr] Checking ieee754 v0.2.2 Nov 27 16:39:21.871 INFO [stderr] Checking ordermap v0.3.5 Nov 27 16:39:21.872 INFO [stderr] Compiling proc-macro2 v0.3.5 Nov 27 16:39:21.876 INFO [stderr] Compiling log v0.4.5 Nov 27 16:39:21.878 INFO [stderr] Compiling which v1.0.5 Nov 27 16:39:22.652 INFO [stderr] Compiling clang-sys v0.22.0 Nov 27 16:39:24.567 INFO [stderr] Compiling fs-utils v1.1.0 Nov 27 16:39:24.567 INFO [stderr] Compiling lzma-sys v0.1.11 Nov 27 16:39:24.567 INFO [stderr] Compiling libloading v0.5.0 Nov 27 16:39:24.567 INFO [stderr] Checking num-complex v0.1.43 Nov 27 16:39:24.627 INFO [stderr] Checking itertools-num v0.1.2 Nov 27 16:39:24.935 INFO [stderr] Checking num-integer v0.1.39 Nov 27 16:39:28.449 INFO [stderr] Compiling syn v0.15.14 Nov 27 16:39:28.455 INFO [stderr] Checking flate2 v1.0.4 Nov 27 16:39:28.483 INFO [stderr] Checking enum_primitive v0.1.1 Nov 27 16:39:28.525 INFO [stderr] Checking petgraph v0.4.13 Nov 27 16:39:28.571 INFO [stderr] Compiling regex v0.2.11 Nov 27 16:39:28.871 INFO [stderr] Compiling env_logger v0.5.13 Nov 27 16:39:30.231 INFO [stderr] Compiling quote v0.5.2 Nov 27 16:39:32.503 INFO [stderr] Checking ndarray v0.9.1 Nov 27 16:39:36.319 INFO [stderr] Checking xz2 v0.1.6 Nov 27 16:40:10.142 INFO [stderr] Compiling serde_derive v1.0.80 Nov 27 16:40:24.283 INFO [stderr] Compiling serde v1.0.80 Nov 27 16:40:35.163 INFO [stderr] Checking vec_map v0.8.1 Nov 27 16:40:35.163 INFO [stderr] Checking bio-types v0.4.0 Nov 27 16:40:35.163 INFO [stderr] Checking csv v1.0.2 Nov 27 16:40:35.163 INFO [stderr] Checking multimap v0.4.0 Nov 27 16:40:35.163 INFO [stderr] Checking bv v0.7.4 Nov 27 16:40:36.787 INFO [stderr] Checking clap v2.32.0 Nov 27 16:40:38.355 INFO [stderr] Checking bio v0.20.3 Nov 27 16:41:24.481 INFO [stderr] Compiling rust-htslib v0.21.0 Nov 27 16:41:52.307 INFO [stderr] error: failed to run custom build command for `rust-htslib v0.21.0` Nov 27 16:41:52.307 INFO [stderr] process didn't exit successfully: `/target/debug/build/rust-htslib-b36ac546ef685286/build-script-build` (exit code: 101) Nov 27 16:41:52.307 INFO [stderr] --- stdout Nov 27 16:41:52.307 INFO [stderr] echo '/* Default config.h generated by Makefile */' > config.h Nov 27 16:41:52.307 INFO [stderr] echo '#define HAVE_LIBBZ2 1' >> config.h Nov 27 16:41:52.307 INFO [stderr] echo '#define HAVE_LIBLZMA 1' >> config.h Nov 27 16:41:52.307 INFO [stderr] echo '#define HAVE_FSEEKO 1' >> config.h Nov 27 16:41:52.307 INFO [stderr] echo '#define HAVE_DRAND48 1' >> config.h Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Nov 27 16:41:52.307 INFO [stderr] echo '#define HTS_VERSION "1.6"' > version.h Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Nov 27 16:41:52.307 INFO [stderr] gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Nov 27 16:41:52.307 INFO [stderr] Makefile:120: recipe for target 'cram/cram_io.o' failed Nov 27 16:41:52.307 INFO [stderr] Nov 27 16:41:52.307 INFO [stderr] --- stderr Nov 27 16:41:52.307 INFO [stderr] cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Nov 27 16:41:52.307 INFO [stderr] compilation terminated. Nov 27 16:41:52.307 INFO [stderr] make: *** [cram/cram_io.o] Error 1 Nov 27 16:41:52.307 INFO [stderr] thread 'main' panicked at 'failed to build htslib', /cargo-home/registry/src/github.com-1ecc6299db9ec823/rust-htslib-0.21.0/build.rs:59:9 Nov 27 16:41:52.307 INFO [stderr] stack backtrace: Nov 27 16:41:52.307 INFO [stderr] 0: 0x556faf97af13 - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::hac358e6bc887c885 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Nov 27 16:41:52.307 INFO [stderr] 1: 0x556faf975678 - std::sys_common::backtrace::_print::h31be9c34e09c361a Nov 27 16:41:52.307 INFO [stderr] at src/libstd/sys_common/backtrace.rs:71 Nov 27 16:41:52.307 INFO [stderr] 2: 0x556faf979e82 - std::panicking::default_hook::{{closure}}::h0032c5b31994326d Nov 27 16:41:52.307 INFO [stderr] at src/libstd/sys_common/backtrace.rs:59 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/panicking.rs:211 Nov 27 16:41:52.307 INFO [stderr] 3: 0x556faf979bed - std::panicking::default_hook::h41e7a2981c218f63 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/panicking.rs:227 Nov 27 16:41:52.307 INFO [stderr] 4: 0x556faf97a590 - std::panicking::rust_panic_with_hook::hb140f4fdb6d9a2ce Nov 27 16:41:52.307 INFO [stderr] at src/libstd/panicking.rs:476 Nov 27 16:41:52.307 INFO [stderr] 5: 0x556faf8cef27 - std::panicking::begin_panic::h35d25eef232dc8c5 Nov 27 16:41:52.307 INFO [stderr] at /rustc/f5a0bd723553ea4b7556bd7087b9f0919cafb483/src/libstd/panicking.rs:410 Nov 27 16:41:52.307 INFO [stderr] 6: 0x556faf3740c9 - build_script_build::main::hf6d292eca7d76d27 Nov 27 16:41:52.307 INFO [stderr] at /cargo-home/registry/src/github.com-1ecc6299db9ec823/rust-htslib-0.21.0/build.rs:59 Nov 27 16:41:52.307 INFO [stderr] 7: 0x556faf3750cf - std::rt::lang_start::{{closure}}::h42db650bd5fb9e90 Nov 27 16:41:52.307 INFO [stderr] at /rustc/f5a0bd723553ea4b7556bd7087b9f0919cafb483/src/libstd/rt.rs:74 Nov 27 16:41:52.307 INFO [stderr] 8: 0x556faf979f92 - std::panicking::try::do_call::h555b51a0211e67f9 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/rt.rs:59 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/panicking.rs:310 Nov 27 16:41:52.307 INFO [stderr] 9: 0x556faf98e6e9 - __rust_maybe_catch_panic Nov 27 16:41:52.307 INFO [stderr] at src/libpanic_unwind/lib.rs:102 Nov 27 16:41:52.307 INFO [stderr] 10: 0x556faf97a963 - std::rt::lang_start_internal::hd813cfef8b4c7902 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/panicking.rs:289 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/panic.rs:398 Nov 27 16:41:52.307 INFO [stderr] at src/libstd/rt.rs:58 Nov 27 16:41:52.307 INFO [stderr] 11: 0x556faf3750a8 - std::rt::lang_start::h26cb65773a0d6131 Nov 27 16:41:52.307 INFO [stderr] at /rustc/f5a0bd723553ea4b7556bd7087b9f0919cafb483/src/libstd/rt.rs:74 Nov 27 16:41:52.307 INFO [stderr] 12: 0x556faf3745b9 - main Nov 27 16:41:52.307 INFO [stderr] 13: 0x7f37cacef82f - __libc_start_main Nov 27 16:41:52.308 INFO [stderr] 14: 0x556faf3736d8 - _start Nov 27 16:41:52.308 INFO [stderr] 15: 0x0 - Nov 27 16:41:52.308 INFO [stderr] Nov 27 16:41:52.308 INFO [stderr] su: No module specific data is present Nov 27 16:41:52.997 INFO running `"docker" "inspect" "886ae3f630ab3ecbf59af00949ed56ad7b39f1d113bbfeaeabaa3074f3ff0fa2"` Nov 27 16:41:53.239 INFO running `"docker" "rm" "-f" "886ae3f630ab3ecbf59af00949ed56ad7b39f1d113bbfeaeabaa3074f3ff0fa2"` Nov 27 16:41:53.621 INFO [stdout] 886ae3f630ab3ecbf59af00949ed56ad7b39f1d113bbfeaeabaa3074f3ff0fa2