Sep 04 08:04:41.155 INFO checking rust-htslib-0.21.0 against master#2687112ea6a8701cbf36e6dd4d77d64694cf93d8 for pr-53913 Sep 04 08:04:41.155 INFO running: cargo +2687112ea6a8701cbf36e6dd4d77d64694cf93d8-alt check --frozen --all --all-targets Sep 04 08:04:41.156 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-0/pr-53913/master#2687112ea6a8701cbf36e6dd4d77d64694cf93d8:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-53913/worker-0/master#2687112ea6a8701cbf36e6dd4d77d64694cf93d8:/target:rw,Z" "-v" "/home/ec2-user/crater/./work/local/cargo-home:/cargo-home:ro,Z" "-v" "/home/ec2-user/crater/./work/local/rustup-home:/rustup-home:ro,Z" "-e" "USER_ID=500" "-e" "CMD=cargo +2687112ea6a8701cbf36e6dd4d77d64694cf93d8-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "2G" "crater"` Sep 04 08:04:41.367 INFO blam! 50f027dfbb6c2622b2efc58aab3b91789c621d6025fab184daab76a060b4b32a Sep 04 08:04:41.370 INFO running `"docker" "start" "-a" "50f027dfbb6c2622b2efc58aab3b91789c621d6025fab184daab76a060b4b32a"` Sep 04 08:04:42.380 INFO kablam! Checking ieee754 v0.2.2 Sep 04 08:04:42.380 INFO kablam! Checking linear-map v1.2.0 Sep 04 08:04:42.380 INFO kablam! Compiling fs-utils v1.1.0 Sep 04 08:04:42.385 INFO kablam! Checking bio-types v0.2.0 Sep 04 08:04:43.531 INFO kablam! Compiling rust-htslib v0.21.0 (file:///source) Sep 04 08:05:04.831 INFO kablam! error: failed to run custom build command for `rust-htslib v0.21.0 (file:///source)` Sep 04 08:05:04.831 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-52a782f36f26e711/build-script-build` (exit code: 101) Sep 04 08:05:04.831 INFO kablam! --- stdout Sep 04 08:05:04.831 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Sep 04 08:05:04.831 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Sep 04 08:05:04.831 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Sep 04 08:05:04.831 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Sep 04 08:05:04.831 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Sep 04 08:05:04.831 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Sep 04 08:05:04.831 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Sep 04 08:05:04.832 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Sep 04 08:05:04.832 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Sep 04 08:05:04.832 INFO kablam! Sep 04 08:05:04.832 INFO kablam! --- stderr Sep 04 08:05:04.832 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Sep 04 08:05:04.832 INFO kablam! compilation terminated. Sep 04 08:05:04.832 INFO kablam! make: *** [cram/cram_io.o] Error 1 Sep 04 08:05:04.832 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:59:9 Sep 04 08:05:04.832 INFO kablam! stack backtrace: Sep 04 08:05:04.832 INFO kablam! 0: 0x560b06525cee - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::he41721e5d0bd3faa Sep 04 08:05:04.832 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Sep 04 08:05:04.832 INFO kablam! 1: 0x560b06514e16 - std::sys_common::backtrace::print::h27d79f31b374d779 Sep 04 08:05:04.832 INFO kablam! at libstd/sys_common/backtrace.rs:71 Sep 04 08:05:04.832 INFO kablam! at libstd/sys_common/backtrace.rs:59 Sep 04 08:05:04.832 INFO kablam! 2: 0x560b0651319d - std::panicking::default_hook::{{closure}}::h4c06e4d4f39d0ae6 Sep 04 08:05:04.832 INFO kablam! at libstd/panicking.rs:211 Sep 04 08:05:04.832 INFO kablam! 3: 0x560b06512f10 - std::panicking::default_hook::hf063f386db7b68b7 Sep 04 08:05:04.832 INFO kablam! at libstd/panicking.rs:227 Sep 04 08:05:04.832 INFO kablam! 4: 0x560b0651380c - std::panicking::rust_panic_with_hook::h3b35cb326944f60c Sep 04 08:05:04.832 INFO kablam! at libstd/panicking.rs:477 Sep 04 08:05:04.832 INFO kablam! 5: 0x560b0647974f - std::panicking::begin_panic::hc59024ac51c7bc51 Sep 04 08:05:04.833 INFO kablam! at /checkout/src/libstd/panicking.rs:411 Sep 04 08:05:04.833 INFO kablam! 6: 0x560b05f39424 - build_script_build::main::h55514caf70b7670b Sep 04 08:05:04.833 INFO kablam! at /source/build.rs:59 Sep 04 08:05:04.833 INFO kablam! 7: 0x560b05f3a54f - std::rt::lang_start::{{closure}}::hf562aae76501bd4a Sep 04 08:05:04.833 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 04 08:05:04.833 INFO kablam! 8: 0x560b065132a2 - std::panicking::try::do_call::h1a26d0ebba7bf7c2 Sep 04 08:05:04.833 INFO kablam! at libstd/rt.rs:59 Sep 04 08:05:04.833 INFO kablam! at libstd/panicking.rs:310 Sep 04 08:05:04.833 INFO kablam! 9: 0x560b065389c9 - __rust_maybe_catch_panic Sep 04 08:05:04.833 INFO kablam! at libpanic_unwind/lib.rs:103 Sep 04 08:05:04.833 INFO kablam! 10: 0x560b06520675 - std::rt::lang_start_internal::h8b333a0a439d0823 Sep 04 08:05:04.833 INFO kablam! at libstd/panicking.rs:289 Sep 04 08:05:04.833 INFO kablam! at libstd/panic.rs:392 Sep 04 08:05:04.833 INFO kablam! at libstd/rt.rs:58 Sep 04 08:05:04.833 INFO kablam! 11: 0x560b05f3a527 - std::rt::lang_start::h05fbf133ad0415db Sep 04 08:05:04.833 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 04 08:05:04.833 INFO kablam! 12: 0x560b05f398e9 - main Sep 04 08:05:04.833 INFO kablam! 13: 0x7f67f2dff82f - __libc_start_main Sep 04 08:05:04.833 INFO kablam! 14: 0x560b05f38ad8 - _start Sep 04 08:05:04.833 INFO kablam! 15: 0x0 - Sep 04 08:05:04.833 INFO kablam! Sep 04 08:05:04.835 INFO kablam! su: No module specific data is present Sep 04 08:05:05.267 INFO running `"docker" "rm" "-f" "50f027dfbb6c2622b2efc58aab3b91789c621d6025fab184daab76a060b4b32a"` Sep 04 08:05:05.385 INFO blam! 50f027dfbb6c2622b2efc58aab3b91789c621d6025fab184daab76a060b4b32a