Jul 11 23:19:54.325 INFO checking rust-htslib-0.20.0 against master#ae5b629efd79de78e6ba7ef493c32857bd7f9cf9 for pr-52234 Jul 11 23:19:54.326 INFO running: cargo +ae5b629efd79de78e6ba7ef493c32857bd7f9cf9-alt check --frozen --all --all-targets Jul 11 23:19:54.326 INFO creating container for: cargo +ae5b629efd79de78e6ba7ef493c32857bd7f9cf9-alt check --frozen --all --all-targets Jul 11 23:19:54.326 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-7/pr-52234/master#ae5b629efd79de78e6ba7ef493c32857bd7f9cf9:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-52234/worker-7/master#ae5b629efd79de78e6ba7ef493c32857bd7f9cf9:/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 +ae5b629efd79de78e6ba7ef493c32857bd7f9cf9-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "crater"` Jul 11 23:19:54.596 INFO blam! cd03458e0ef39da6af36d9da6617dfe14daf89b4b66bce99cf33af96166d6175 Jul 11 23:19:54.599 INFO running `"docker" "start" "-a" "cd03458e0ef39da6af36d9da6617dfe14daf89b4b66bce99cf33af96166d6175"` Jul 11 23:19:55.703 INFO kablam! Checking linear-map v1.2.0 Jul 11 23:19:55.706 INFO kablam! Checking custom_derive v0.1.7 Jul 11 23:19:55.709 INFO kablam! Checking ieee754 v0.2.2 Jul 11 23:19:55.724 INFO kablam! Compiling fs-utils v1.1.0 Jul 11 23:19:55.729 INFO kablam! Compiling newtype_derive v0.1.6 Jul 11 23:20:00.132 INFO kablam! Compiling rust-htslib v0.20.0 (file:///source) Jul 11 23:20:40.641 INFO kablam! error: failed to run custom build command for `rust-htslib v0.20.0 (file:///source)` Jul 11 23:20:40.641 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-e5634e3a4af35ed7/build-script-build` (exit code: 101) Jul 11 23:20:40.641 INFO kablam! --- stdout Jul 11 23:20:40.642 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Jul 11 23:20:40.642 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Jul 11 23:20:40.642 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Jul 11 23:20:40.642 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Jul 11 23:20:40.642 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Jul 11 23:20:40.642 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Jul 11 23:20:40.642 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Jul 11 23:20:40.643 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Jul 11 23:20:40.643 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Jul 11 23:20:40.643 INFO kablam! Jul 11 23:20:40.643 INFO kablam! --- stderr Jul 11 23:20:40.643 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Jul 11 23:20:40.643 INFO kablam! compilation terminated. Jul 11 23:20:40.643 INFO kablam! make: *** [cram/cram_io.o] Error 1 Jul 11 23:20:40.643 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:30:9 Jul 11 23:20:40.643 INFO kablam! stack backtrace: Jul 11 23:20:40.643 INFO kablam! 0: 0x55b1c987188e - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::h384ae355f7caea4e Jul 11 23:20:40.643 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Jul 11 23:20:40.643 INFO kablam! 1: 0x55b1c987cff6 - std::sys_common::backtrace::print::h4bb52e1bee024bba Jul 11 23:20:40.643 INFO kablam! at libstd/sys_common/backtrace.rs:71 Jul 11 23:20:40.643 INFO kablam! at libstd/sys_common/backtrace.rs:59 Jul 11 23:20:40.644 INFO kablam! 2: 0x55b1c987642d - std::panicking::default_hook::{{closure}}::hb7ba413df06fc0fe Jul 11 23:20:40.644 INFO kablam! at libstd/panicking.rs:211 Jul 11 23:20:40.644 INFO kablam! 3: 0x55b1c98761a0 - std::panicking::default_hook::h0d2752b2f723ae1b Jul 11 23:20:40.644 INFO kablam! at libstd/panicking.rs:227 Jul 11 23:20:40.644 INFO kablam! 4: 0x55b1c9876a9c - std::panicking::rust_panic_with_hook::h5ab246e6d52e753b Jul 11 23:20:40.644 INFO kablam! at libstd/panicking.rs:475 Jul 11 23:20:40.644 INFO kablam! 5: 0x55b1c96a193f - std::panicking::begin_panic::h3762165b37f8ca54 Jul 11 23:20:40.644 INFO kablam! at /checkout/src/libstd/panicking.rs:409 Jul 11 23:20:40.644 INFO kablam! 6: 0x55b1c92a1b46 - build_script_build::main::h5996dab7d61475d1 Jul 11 23:20:40.644 INFO kablam! at /source/build.rs:30 Jul 11 23:20:40.644 INFO kablam! 7: 0x55b1c92a148f - std::rt::lang_start::{{closure}}::h8a85d19400b43eef Jul 11 23:20:40.644 INFO kablam! at /checkout/src/libstd/rt.rs:74 Jul 11 23:20:40.644 INFO kablam! 8: 0x55b1c9876532 - std::panicking::try::do_call::he078c96f91c45734 Jul 11 23:20:40.644 INFO kablam! at libstd/rt.rs:59 Jul 11 23:20:40.644 INFO kablam! at libstd/panicking.rs:310 Jul 11 23:20:40.644 INFO kablam! 9: 0x55b1c98883a9 - __rust_maybe_catch_panic Jul 11 23:20:40.644 INFO kablam! at libpanic_unwind/lib.rs:105 Jul 11 23:20:40.644 INFO kablam! 10: 0x55b1c986b585 - std::rt::lang_start_internal::he059594c0b5de843 Jul 11 23:20:40.644 INFO kablam! at libstd/panicking.rs:289 Jul 11 23:20:40.644 INFO kablam! at libstd/panic.rs:392 Jul 11 23:20:40.644 INFO kablam! at libstd/rt.rs:58 Jul 11 23:20:40.644 INFO kablam! 11: 0x55b1c92a1467 - std::rt::lang_start::h51205759d6a476a2 Jul 11 23:20:40.644 INFO kablam! at /checkout/src/libstd/rt.rs:74 Jul 11 23:20:40.644 INFO kablam! 12: 0x55b1c92a1e49 - main Jul 11 23:20:40.644 INFO kablam! 13: 0x7f9ae1e6582f - __libc_start_main Jul 11 23:20:40.645 INFO kablam! 14: 0x55b1c92a01f8 - _start Jul 11 23:20:40.645 INFO kablam! 15: 0x0 - Jul 11 23:20:40.645 INFO kablam! Jul 11 23:20:40.645 INFO kablam! su: No module specific data is present Jul 11 23:20:41.195 INFO running `"docker" "rm" "-f" "cd03458e0ef39da6af36d9da6617dfe14daf89b4b66bce99cf33af96166d6175"` Jul 11 23:20:41.357 INFO blam! cd03458e0ef39da6af36d9da6617dfe14daf89b4b66bce99cf33af96166d6175