Aug 01 23:35:14.757 INFO checking rust-htslib-0.20.0 against 1.27.2 for lazy_static-1 Aug 01 23:35:14.757 INFO running: cargo +1.27.2 check --frozen --all --all-targets Aug 01 23:35:14.757 INFO creating container for: cargo +1.27.2 check --frozen --all --all-targets Aug 01 23:35:14.758 INFO running `"docker" "create" "-v" "/tmp/crater.k9FAWCcTT6AV:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/lazy_static-1/worker-1/1.27.2:/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" "-v" "/home/ec2-user/crater/./work/local/cargo-home/git:/cargo-home/git:rw,Z" "-e" "USER_ID=500" "-e" "CMD=cargo +1.27.2 check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "crater"` Aug 01 23:35:15.015 INFO blam! 86bc7a8d4f6fda8dd56ec324ca142e0d56d29a295f026053d49c7f522a04f378 Aug 01 23:35:15.017 INFO running `"docker" "start" "-a" "86bc7a8d4f6fda8dd56ec324ca142e0d56d29a295f026053d49c7f522a04f378"` Aug 01 23:35:16.354 INFO kablam! Compiling bindgen v0.36.1 Aug 01 23:35:16.357 INFO kablam! Checking linear-map v1.2.0 Aug 01 23:35:16.359 INFO kablam! Checking ieee754 v0.2.2 Aug 01 23:35:16.361 INFO kablam! Compiling clang-sys v0.22.0 Aug 01 23:35:16.364 INFO kablam! Compiling fs-utils v1.1.0 Aug 01 23:35:16.367 INFO kablam! Compiling quote v0.5.2 Aug 01 23:36:15.075 INFO kablam! Compiling rust-htslib v0.20.0 (file:///source) Aug 01 23:36:50.355 INFO kablam! error: failed to run custom build command for `rust-htslib v0.20.0 (file:///source)` Aug 01 23:36:50.355 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-8ff4a494244587c3/build-script-build` (exit code: 101) Aug 01 23:36:50.355 INFO kablam! --- stdout Aug 01 23:36:50.355 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Aug 01 23:36:50.355 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Aug 01 23:36:50.356 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Aug 01 23:36:50.356 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Aug 01 23:36:50.356 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Aug 01 23:36:50.356 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Aug 01 23:36:50.356 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Aug 01 23:36:50.357 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Aug 01 23:36:50.357 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Aug 01 23:36:50.357 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Aug 01 23:36:50.357 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Aug 01 23:36:50.357 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Aug 01 23:36:50.357 INFO kablam! Aug 01 23:36:50.357 INFO kablam! --- stderr Aug 01 23:36:50.357 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Aug 01 23:36:50.357 INFO kablam! compilation terminated. Aug 01 23:36:50.357 INFO kablam! make: *** [cram/cram_io.o] Error 1 Aug 01 23:36:50.357 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:30:9 Aug 01 23:36:50.357 INFO kablam! stack backtrace: Aug 01 23:36:50.357 INFO kablam! 0: 0x55ebf4045e5e - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::hd95e7c7781a77231 Aug 01 23:36:50.357 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Aug 01 23:36:50.357 INFO kablam! 1: 0x55ebf404e7b6 - std::sys_common::backtrace::print::h5c2c751288aab677 Aug 01 23:36:50.357 INFO kablam! at libstd/sys_common/backtrace.rs:71 Aug 01 23:36:50.357 INFO kablam! at libstd/sys_common/backtrace.rs:59 Aug 01 23:36:50.357 INFO kablam! 2: 0x55ebf4033edb - std::panicking::default_hook::{{closure}}::h613226a9bb10326e Aug 01 23:36:50.357 INFO kablam! at libstd/panicking.rs:211 Aug 01 23:36:50.357 INFO kablam! 3: 0x55ebf4033bb3 - std::panicking::default_hook::h8250355a3b9c55df Aug 01 23:36:50.357 INFO kablam! at libstd/panicking.rs:227 Aug 01 23:36:50.357 INFO kablam! 4: 0x55ebf40344fe - std::panicking::rust_panic_with_hook::h6617a62274b53c0e Aug 01 23:36:50.357 INFO kablam! at libstd/panicking.rs:463 Aug 01 23:36:50.357 INFO kablam! 5: 0x55ebf3f7e01f - std::panicking::begin_panic::h501ff82ffc3bce16 Aug 01 23:36:50.357 INFO kablam! at /checkout/src/libstd/panicking.rs:397 Aug 01 23:36:50.357 INFO kablam! 6: 0x55ebf3a771a6 - build_script_build::main::hb597005035f54b88 Aug 01 23:36:50.357 INFO kablam! at /source/build.rs:30 Aug 01 23:36:50.357 INFO kablam! 7: 0x55ebf3a76baf - std::rt::lang_start::{{closure}}::hcb52a1bf445424ed Aug 01 23:36:50.357 INFO kablam! at /checkout/src/libstd/rt.rs:74 Aug 01 23:36:50.357 INFO kablam! 8: 0x55ebf4033fe2 - std::panicking::try::do_call::h64129d2b0e54f3b8 Aug 01 23:36:50.357 INFO kablam! at libstd/rt.rs:59 Aug 01 23:36:50.358 INFO kablam! at libstd/panicking.rs:310 Aug 01 23:36:50.358 INFO kablam! 9: 0x55ebf4055839 - __rust_maybe_catch_panic Aug 01 23:36:50.358 INFO kablam! at libpanic_unwind/lib.rs:105 Aug 01 23:36:50.358 INFO kablam! 10: 0x55ebf403cfd5 - std::rt::lang_start_internal::h6264a91317866dd6 Aug 01 23:36:50.358 INFO kablam! at libstd/panicking.rs:289 Aug 01 23:36:50.358 INFO kablam! at libstd/panic.rs:374 Aug 01 23:36:50.358 INFO kablam! at libstd/rt.rs:58 Aug 01 23:36:50.358 INFO kablam! 11: 0x55ebf3a76b87 - std::rt::lang_start::hc08a5a470950bf86 Aug 01 23:36:50.358 INFO kablam! at /checkout/src/libstd/rt.rs:74 Aug 01 23:36:50.358 INFO kablam! 12: 0x55ebf3a774ac - main Aug 01 23:36:50.358 INFO kablam! 13: 0x7f864128582f - __libc_start_main Aug 01 23:36:50.358 INFO kablam! 14: 0x55ebf3a73ea8 - _start Aug 01 23:36:50.358 INFO kablam! 15: 0x0 - Aug 01 23:36:50.358 INFO kablam! Aug 01 23:36:50.358 INFO kablam! su: No module specific data is present Aug 01 23:36:50.873 INFO running `"docker" "rm" "-f" "86bc7a8d4f6fda8dd56ec324ca142e0d56d29a295f026053d49c7f522a04f378"` Aug 01 23:36:51.038 INFO blam! 86bc7a8d4f6fda8dd56ec324ca142e0d56d29a295f026053d49c7f522a04f378