Sep 01 08:13:57.008 INFO checking rust-htslib-0.21.0 against try#aa245a5862056b681d2ccdb178f58891108cd3a6 for pr-53831 Sep 01 08:13:57.008 INFO running: cargo +aa245a5862056b681d2ccdb178f58891108cd3a6-alt check --frozen --all --all-targets Sep 01 08:13:57.009 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-2/pr-53831/try#aa245a5862056b681d2ccdb178f58891108cd3a6:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-53831/worker-2/try#aa245a5862056b681d2ccdb178f58891108cd3a6:/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 +aa245a5862056b681d2ccdb178f58891108cd3a6-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "2G" "crater"` Sep 01 08:13:57.254 INFO blam! 9f4e35c8dc1cbfe2092f99a794b69cd5a0cf49c67ab7597a6a9f677bdd7370c3 Sep 01 08:13:57.256 INFO running `"docker" "start" "-a" "9f4e35c8dc1cbfe2092f99a794b69cd5a0cf49c67ab7597a6a9f677bdd7370c3"` Sep 01 08:13:58.163 INFO kablam! Compiling bindgen v0.36.1 Sep 01 08:13:58.167 INFO kablam! Checking linear-map v1.2.0 Sep 01 08:13:58.171 INFO kablam! Compiling clang-sys v0.22.0 Sep 01 08:13:58.173 INFO kablam! Compiling fs-utils v1.1.0 Sep 01 08:13:58.178 INFO kablam! Checking bio-types v0.2.0 Sep 01 08:14:33.701 INFO kablam! Compiling rust-htslib v0.21.0 (file:///source) Sep 01 08:14:57.063 INFO kablam! error: failed to run custom build command for `rust-htslib v0.21.0 (file:///source)` Sep 01 08:14:57.063 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-b1bed1a09275f5d9/build-script-build` (exit code: 101) Sep 01 08:14:57.063 INFO kablam! --- stdout Sep 01 08:14:57.063 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Sep 01 08:14:57.063 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Sep 01 08:14:57.063 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Sep 01 08:14:57.063 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Sep 01 08:14:57.063 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Sep 01 08:14:57.063 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Sep 01 08:14:57.063 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Sep 01 08:14:57.064 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Sep 01 08:14:57.064 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Sep 01 08:14:57.064 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Sep 01 08:14:57.064 INFO kablam! Sep 01 08:14:57.064 INFO kablam! --- stderr Sep 01 08:14:57.064 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Sep 01 08:14:57.064 INFO kablam! compilation terminated. Sep 01 08:14:57.064 INFO kablam! make: *** [cram/cram_io.o] Error 1 Sep 01 08:14:57.064 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:59:9 Sep 01 08:14:57.065 INFO kablam! stack backtrace: Sep 01 08:14:57.065 INFO kablam! 0: 0x556e309343fe - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::h9bce1f9a537b140d Sep 01 08:14:57.065 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Sep 01 08:14:57.065 INFO kablam! 1: 0x556e309235a6 - std::sys_common::backtrace::print::h7cc2650c15d0dddd Sep 01 08:14:57.065 INFO kablam! at libstd/sys_common/backtrace.rs:71 Sep 01 08:14:57.065 INFO kablam! at libstd/sys_common/backtrace.rs:59 Sep 01 08:14:57.065 INFO kablam! 2: 0x556e309218dd - std::panicking::default_hook::{{closure}}::hec52538d990412d0 Sep 01 08:14:57.065 INFO kablam! at libstd/panicking.rs:211 Sep 01 08:14:57.065 INFO kablam! 3: 0x556e30921650 - std::panicking::default_hook::h49c7c9d5f399092e Sep 01 08:14:57.065 INFO kablam! at libstd/panicking.rs:227 Sep 01 08:14:57.065 INFO kablam! 4: 0x556e30921f4c - std::panicking::rust_panic_with_hook::h56b934afa6264269 Sep 01 08:14:57.065 INFO kablam! at libstd/panicking.rs:477 Sep 01 08:14:57.065 INFO kablam! 5: 0x556e308720cf - std::panicking::begin_panic::hed787d2b7176e618 Sep 01 08:14:57.065 INFO kablam! at /checkout/src/libstd/panicking.rs:411 Sep 01 08:14:57.065 INFO kablam! 6: 0x556e30345458 - build_script_build::main::hd965fdf0bf783f7c Sep 01 08:14:57.065 INFO kablam! at /source/build.rs:59 Sep 01 08:14:57.065 INFO kablam! 7: 0x556e3034658f - std::rt::lang_start::{{closure}}::hca2ab22f8251d80a Sep 01 08:14:57.065 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 01 08:14:57.065 INFO kablam! 8: 0x556e309219e2 - std::panicking::try::do_call::h09be9541d3992dd3 Sep 01 08:14:57.065 INFO kablam! at libstd/rt.rs:59 Sep 01 08:14:57.065 INFO kablam! at libstd/panicking.rs:310 Sep 01 08:14:57.065 INFO kablam! 9: 0x556e30946079 - __rust_maybe_catch_panic Sep 01 08:14:57.065 INFO kablam! at libpanic_unwind/lib.rs:103 Sep 01 08:14:57.065 INFO kablam! 10: 0x556e3092ed95 - std::rt::lang_start_internal::h395b9eb1beda0e43 Sep 01 08:14:57.065 INFO kablam! at libstd/panicking.rs:289 Sep 01 08:14:57.065 INFO kablam! at libstd/panic.rs:392 Sep 01 08:14:57.065 INFO kablam! at libstd/rt.rs:58 Sep 01 08:14:57.065 INFO kablam! 11: 0x556e30346567 - std::rt::lang_start::h9ff219ebd2a5bf39 Sep 01 08:14:57.065 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 01 08:14:57.065 INFO kablam! 12: 0x556e30345929 - main Sep 01 08:14:57.065 INFO kablam! 13: 0x7f108c86f82f - __libc_start_main Sep 01 08:14:57.065 INFO kablam! 14: 0x556e30344ad8 - _start Sep 01 08:14:57.065 INFO kablam! 15: 0x0 - Sep 01 08:14:57.065 INFO kablam! Sep 01 08:14:57.065 INFO kablam! su: No module specific data is present Sep 01 08:14:57.681 INFO running `"docker" "rm" "-f" "9f4e35c8dc1cbfe2092f99a794b69cd5a0cf49c67ab7597a6a9f677bdd7370c3"` Sep 01 08:14:57.768 INFO blam! 9f4e35c8dc1cbfe2092f99a794b69cd5a0cf49c67ab7597a6a9f677bdd7370c3