Sep 06 00:52:04.122 INFO checking rust-htslib-0.21.0 against try#51ff957df5095d92d1d3d4682207ee8b7ad408a8 for pr-53854 Sep 06 00:52:04.122 INFO running: cargo +51ff957df5095d92d1d3d4682207ee8b7ad408a8-alt check --frozen --all --all-targets Sep 06 00:52:04.122 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-1/pr-53854/try#51ff957df5095d92d1d3d4682207ee8b7ad408a8:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-53854/worker-1/try#51ff957df5095d92d1d3d4682207ee8b7ad408a8:/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=1000" "-e" "CMD=cargo +51ff957df5095d92d1d3d4682207ee8b7ad408a8-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "2G" "crater"` Sep 06 00:52:04.355 INFO blam! da5dc9a64b3fcb626778c40e2d1361cd91cc8d9832d467b6107c2aa56f95543b Sep 06 00:52:04.357 INFO running `"docker" "start" "-a" "da5dc9a64b3fcb626778c40e2d1361cd91cc8d9832d467b6107c2aa56f95543b"` Sep 06 00:52:06.034 INFO kablam! usermod: no changes Sep 06 00:52:06.258 INFO kablam! Compiling bindgen v0.36.1 Sep 06 00:52:06.259 INFO kablam! Checking custom_derive v0.1.7 Sep 06 00:52:06.269 INFO kablam! Checking linear-map v1.2.0 Sep 06 00:52:06.269 INFO kablam! Checking ieee754 v0.2.2 Sep 06 00:52:06.276 INFO kablam! Compiling clang-sys v0.22.0 Sep 06 00:52:06.277 INFO kablam! Compiling fs-utils v1.1.0 Sep 06 00:52:06.278 INFO kablam! Compiling newtype_derive v0.1.6 Sep 06 00:52:06.286 INFO kablam! Checking bio-types v0.2.0 Sep 06 00:52:35.542 INFO kablam! Compiling rust-htslib v0.21.0 (file:///source) Sep 06 00:52:57.331 INFO kablam! error: failed to run custom build command for `rust-htslib v0.21.0 (file:///source)` Sep 06 00:52:57.331 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-26760c141f704d74/build-script-build` (exit code: 101) Sep 06 00:52:57.331 INFO kablam! --- stdout Sep 06 00:52:57.331 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Sep 06 00:52:57.331 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Sep 06 00:52:57.331 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Sep 06 00:52:57.331 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Sep 06 00:52:57.331 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Sep 06 00:52:57.331 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Sep 06 00:52:57.331 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Sep 06 00:52:57.332 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Sep 06 00:52:57.332 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Sep 06 00:52:57.332 INFO kablam! Sep 06 00:52:57.332 INFO kablam! --- stderr Sep 06 00:52:57.332 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Sep 06 00:52:57.332 INFO kablam! compilation terminated. Sep 06 00:52:57.332 INFO kablam! make: *** [cram/cram_io.o] Error 1 Sep 06 00:52:57.332 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:59:9 Sep 06 00:52:57.332 INFO kablam! stack backtrace: Sep 06 00:52:57.332 INFO kablam! 0: 0x56262641dc2e - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::h8a3717aa058b4444 Sep 06 00:52:57.332 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Sep 06 00:52:57.332 INFO kablam! 1: 0x56262640cd46 - std::sys_common::backtrace::print::h617f5662cea50e67 Sep 06 00:52:57.332 INFO kablam! at libstd/sys_common/backtrace.rs:71 Sep 06 00:52:57.332 INFO kablam! at libstd/sys_common/backtrace.rs:59 Sep 06 00:52:57.332 INFO kablam! 2: 0x56262640b0cd - std::panicking::default_hook::{{closure}}::h45bb696cfc423488 Sep 06 00:52:57.332 INFO kablam! at libstd/panicking.rs:211 Sep 06 00:52:57.332 INFO kablam! 3: 0x56262640ae40 - std::panicking::default_hook::h4902fe318897fea2 Sep 06 00:52:57.332 INFO kablam! at libstd/panicking.rs:227 Sep 06 00:52:57.332 INFO kablam! 4: 0x56262640b73c - std::panicking::rust_panic_with_hook::h2d79c14c8c515345 Sep 06 00:52:57.332 INFO kablam! at libstd/panicking.rs:477 Sep 06 00:52:57.332 INFO kablam! 5: 0x5626261a2caf - std::panicking::begin_panic::h99986c78720873f7 Sep 06 00:52:57.332 INFO kablam! at /checkout/src/libstd/panicking.rs:411 Sep 06 00:52:57.332 INFO kablam! 6: 0x562625e32364 - build_script_build::main::h9af39d8f2989df73 Sep 06 00:52:57.332 INFO kablam! at /source/build.rs:59 Sep 06 00:52:57.332 INFO kablam! 7: 0x562625e3348f - std::rt::lang_start::{{closure}}::h315168e91c6fa851 Sep 06 00:52:57.332 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 06 00:52:57.332 INFO kablam! 8: 0x56262640b1d2 - std::panicking::try::do_call::hf986ca4f663b7a95 Sep 06 00:52:57.332 INFO kablam! at libstd/rt.rs:59 Sep 06 00:52:57.332 INFO kablam! at libstd/panicking.rs:310 Sep 06 00:52:57.332 INFO kablam! 9: 0x562626430349 - __rust_maybe_catch_panic Sep 06 00:52:57.332 INFO kablam! at libpanic_unwind/lib.rs:103 Sep 06 00:52:57.332 INFO kablam! 10: 0x5626264185b5 - std::rt::lang_start_internal::h1fa2095e36818e42 Sep 06 00:52:57.332 INFO kablam! at libstd/panicking.rs:289 Sep 06 00:52:57.332 INFO kablam! at libstd/panic.rs:392 Sep 06 00:52:57.332 INFO kablam! at libstd/rt.rs:58 Sep 06 00:52:57.332 INFO kablam! 11: 0x562625e33467 - std::rt::lang_start::hf5cf642d545ceb0f Sep 06 00:52:57.332 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 06 00:52:57.332 INFO kablam! 12: 0x562625e32829 - main Sep 06 00:52:57.332 INFO kablam! 13: 0x7f49cf0a582f - __libc_start_main Sep 06 00:52:57.332 INFO kablam! 14: 0x562625e31a18 - _start Sep 06 00:52:57.332 INFO kablam! 15: 0x0 - Sep 06 00:52:57.332 INFO kablam! Sep 06 00:52:57.332 INFO kablam! su: No module specific data is present Sep 06 00:52:58.283 INFO running `"docker" "rm" "-f" "da5dc9a64b3fcb626778c40e2d1361cd91cc8d9832d467b6107c2aa56f95543b"` Sep 06 00:52:58.358 INFO blam! da5dc9a64b3fcb626778c40e2d1361cd91cc8d9832d467b6107c2aa56f95543b