Sep 10 10:45:39.338 INFO checking rust-htslib-0.21.0 against try#3a2610c2a16575649896925631bf8cec4f4b1961 for pr-54090 Sep 10 10:45:39.338 INFO running: cargo +3a2610c2a16575649896925631bf8cec4f4b1961-alt check --frozen --all --all-targets Sep 10 10:45:39.338 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-1/pr-54090/try#3a2610c2a16575649896925631bf8cec4f4b1961:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-54090/worker-1/try#3a2610c2a16575649896925631bf8cec4f4b1961:/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 +3a2610c2a16575649896925631bf8cec4f4b1961-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-m" "2G" "crater"` Sep 10 10:45:39.563 INFO blam! 9f5a4706757f67e4146ac2ccf1a7c5e06f152b8fda3f532d0ed5607033c91992 Sep 10 10:45:39.565 INFO running `"docker" "start" "-a" "9f5a4706757f67e4146ac2ccf1a7c5e06f152b8fda3f532d0ed5607033c91992"` Sep 10 10:45:40.458 INFO kablam! usermod: no changes Sep 10 10:45:40.778 INFO kablam! Compiling bindgen v0.36.1 Sep 10 10:45:40.778 INFO kablam! Checking linear-map v1.2.0 Sep 10 10:45:40.778 INFO kablam! Checking ieee754 v0.2.2 Sep 10 10:45:40.778 INFO kablam! Compiling clang-sys v0.22.0 Sep 10 10:45:40.779 INFO kablam! Compiling fs-utils v1.1.0 Sep 10 10:45:40.790 INFO kablam! Checking bio-types v0.2.0 Sep 10 10:46:12.265 INFO kablam! Compiling rust-htslib v0.21.0 (file:///source) Sep 10 10:46:33.142 INFO kablam! error: failed to run custom build command for `rust-htslib v0.21.0 (file:///source)` Sep 10 10:46:33.142 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-8b848f647083ab78/build-script-build` (exit code: 101) Sep 10 10:46:33.142 INFO kablam! --- stdout Sep 10 10:46:33.142 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Sep 10 10:46:33.142 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Sep 10 10:46:33.142 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Sep 10 10:46:33.142 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Sep 10 10:46:33.142 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Sep 10 10:46:33.142 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Sep 10 10:46:33.142 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Sep 10 10:46:33.143 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Sep 10 10:46:33.143 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Sep 10 10:46:33.143 INFO kablam! Sep 10 10:46:33.143 INFO kablam! --- stderr Sep 10 10:46:33.143 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Sep 10 10:46:33.143 INFO kablam! compilation terminated. Sep 10 10:46:33.143 INFO kablam! make: *** [cram/cram_io.o] Error 1 Sep 10 10:46:33.143 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:59:9 Sep 10 10:46:33.143 INFO kablam! stack backtrace: Sep 10 10:46:33.143 INFO kablam! 0: 0x563e178164be - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::h6fe5173ae235b38f Sep 10 10:46:33.143 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Sep 10 10:46:33.143 INFO kablam! 1: 0x563e17805596 - std::sys_common::backtrace::print::hb1efbd3d067eabc6 Sep 10 10:46:33.143 INFO kablam! at libstd/sys_common/backtrace.rs:71 Sep 10 10:46:33.143 INFO kablam! at libstd/sys_common/backtrace.rs:59 Sep 10 10:46:33.143 INFO kablam! 2: 0x563e1780396d - std::panicking::default_hook::{{closure}}::h109166af4c755142 Sep 10 10:46:33.143 INFO kablam! at libstd/panicking.rs:211 Sep 10 10:46:33.143 INFO kablam! 3: 0x563e178036e0 - std::panicking::default_hook::h992f159215e34f14 Sep 10 10:46:33.143 INFO kablam! at libstd/panicking.rs:227 Sep 10 10:46:33.143 INFO kablam! 4: 0x563e17803fdc - std::panicking::rust_panic_with_hook::h7d90dcad0bb485f2 Sep 10 10:46:33.143 INFO kablam! at libstd/panicking.rs:477 Sep 10 10:46:33.143 INFO kablam! 5: 0x563e1776b8af - std::panicking::begin_panic::h1582dd0e2985c847 Sep 10 10:46:33.143 INFO kablam! at /checkout/src/libstd/panicking.rs:411 Sep 10 10:46:33.143 INFO kablam! 6: 0x563e1722b364 - build_script_build::main::h3534e81df1e69c76 Sep 10 10:46:33.143 INFO kablam! at /source/build.rs:59 Sep 10 10:46:33.143 INFO kablam! 7: 0x563e1722c48f - std::rt::lang_start::{{closure}}::h86515879bcdf3a76 Sep 10 10:46:33.143 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 10 10:46:33.143 INFO kablam! 8: 0x563e17803a72 - std::panicking::try::do_call::h2ece1f76d9e135ca Sep 10 10:46:33.143 INFO kablam! at libstd/rt.rs:59 Sep 10 10:46:33.143 INFO kablam! at libstd/panicking.rs:310 Sep 10 10:46:33.143 INFO kablam! 9: 0x563e17828e59 - __rust_maybe_catch_panic Sep 10 10:46:33.143 INFO kablam! at libpanic_unwind/lib.rs:103 Sep 10 10:46:33.143 INFO kablam! 10: 0x563e17810e95 - std::rt::lang_start_internal::h72dcb4aefab2c171 Sep 10 10:46:33.143 INFO kablam! at libstd/panicking.rs:289 Sep 10 10:46:33.143 INFO kablam! at libstd/panic.rs:392 Sep 10 10:46:33.143 INFO kablam! at libstd/rt.rs:58 Sep 10 10:46:33.143 INFO kablam! 11: 0x563e1722c467 - std::rt::lang_start::h3fa9c49891235d7d Sep 10 10:46:33.143 INFO kablam! at /checkout/src/libstd/rt.rs:74 Sep 10 10:46:33.143 INFO kablam! 12: 0x563e1722b829 - main Sep 10 10:46:33.143 INFO kablam! 13: 0x7f3a5d97482f - __libc_start_main Sep 10 10:46:33.143 INFO kablam! 14: 0x563e1722aa18 - _start Sep 10 10:46:33.143 INFO kablam! 15: 0x0 - Sep 10 10:46:33.143 INFO kablam! Sep 10 10:46:33.145 INFO kablam! su: No module specific data is present Sep 10 10:46:33.848 INFO running `"docker" "rm" "-f" "9f5a4706757f67e4146ac2ccf1a7c5e06f152b8fda3f532d0ed5607033c91992"` Sep 10 10:46:33.957 INFO blam! 9f5a4706757f67e4146ac2ccf1a7c5e06f152b8fda3f532d0ed5607033c91992