Aug 30 05:10:04.237 INFO checking rust-htslib-0.21.0 against try#2d477f9981361618ac78253c28051a66b6cea125 for pr-53707 Aug 30 05:10:04.237 INFO running: cargo +2d477f9981361618ac78253c28051a66b6cea125-alt check --frozen --all --all-targets Aug 30 05:10:04.238 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-2/pr-53707/try#2d477f9981361618ac78253c28051a66b6cea125:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-53707/worker-2/try#2d477f9981361618ac78253c28051a66b6cea125:/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 +2d477f9981361618ac78253c28051a66b6cea125-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "2G" "crater"` Aug 30 05:10:04.479 INFO blam! 8dcb6fda7b64cb4c3f31c25cdb40d5539bf358433610773e90a39d1166b717d8 Aug 30 05:10:04.482 INFO running `"docker" "start" "-a" "8dcb6fda7b64cb4c3f31c25cdb40d5539bf358433610773e90a39d1166b717d8"` Aug 30 05:10:05.413 INFO kablam! Checking ieee754 v0.2.2 Aug 30 05:10:05.413 INFO kablam! Checking linear-map v1.2.0 Aug 30 05:10:05.417 INFO kablam! Compiling fs-utils v1.1.0 Aug 30 05:10:05.427 INFO kablam! Checking bio-types v0.2.0 Aug 30 05:10:07.460 INFO kablam! Compiling rust-htslib v0.21.0 (file:///source) Aug 30 05:10:29.614 INFO kablam! error: failed to run custom build command for `rust-htslib v0.21.0 (file:///source)` Aug 30 05:10:29.614 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-da279750ad5ea494/build-script-build` (exit code: 101) Aug 30 05:10:29.614 INFO kablam! --- stdout Aug 30 05:10:29.614 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Aug 30 05:10:29.614 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Aug 30 05:10:29.614 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Aug 30 05:10:29.614 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Aug 30 05:10:29.614 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Aug 30 05:10:29.614 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Aug 30 05:10:29.614 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Aug 30 05:10:29.615 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Aug 30 05:10:29.615 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Aug 30 05:10:29.615 INFO kablam! Aug 30 05:10:29.615 INFO kablam! --- stderr Aug 30 05:10:29.615 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Aug 30 05:10:29.615 INFO kablam! compilation terminated. Aug 30 05:10:29.615 INFO kablam! make: *** [cram/cram_io.o] Error 1 Aug 30 05:10:29.615 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:59:9 Aug 30 05:10:29.615 INFO kablam! stack backtrace: Aug 30 05:10:29.615 INFO kablam! 0: 0x564fa31ee83e - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::h8f71f310d118facb Aug 30 05:10:29.615 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Aug 30 05:10:29.615 INFO kablam! 1: 0x564fa31dd9c6 - std::sys_common::backtrace::print::hfdcfd1f104fe4840 Aug 30 05:10:29.615 INFO kablam! at libstd/sys_common/backtrace.rs:71 Aug 30 05:10:29.615 INFO kablam! at libstd/sys_common/backtrace.rs:59 Aug 30 05:10:29.615 INFO kablam! 2: 0x564fa31dbcfd - std::panicking::default_hook::{{closure}}::heac6c2569094f14c Aug 30 05:10:29.615 INFO kablam! at libstd/panicking.rs:211 Aug 30 05:10:29.615 INFO kablam! 3: 0x564fa31dba70 - std::panicking::default_hook::h172730ec656eb3f4 Aug 30 05:10:29.615 INFO kablam! at libstd/panicking.rs:227 Aug 30 05:10:29.615 INFO kablam! 4: 0x564fa31dc36c - std::panicking::rust_panic_with_hook::h4baee0ff6b4c8d5f Aug 30 05:10:29.615 INFO kablam! at libstd/panicking.rs:477 Aug 30 05:10:29.615 INFO kablam! 5: 0x564fa3191aff - std::panicking::begin_panic::heb445105c05617a1 Aug 30 05:10:29.615 INFO kablam! at /checkout/src/libstd/panicking.rs:411 Aug 30 05:10:29.615 INFO kablam! 6: 0x564fa2bff488 - build_script_build::main::ha321ffa4f975410a Aug 30 05:10:29.615 INFO kablam! at /source/build.rs:59 Aug 30 05:10:29.615 INFO kablam! 7: 0x564fa2c005bf - std::rt::lang_start::{{closure}}::h5fceaa8c0c062598 Aug 30 05:10:29.615 INFO kablam! at /checkout/src/libstd/rt.rs:74 Aug 30 05:10:29.615 INFO kablam! 8: 0x564fa31dbe02 - std::panicking::try::do_call::h09d1819b0274af73 Aug 30 05:10:29.615 INFO kablam! at libstd/rt.rs:59 Aug 30 05:10:29.616 INFO kablam! at libstd/panicking.rs:310 Aug 30 05:10:29.616 INFO kablam! 9: 0x564fa3200a39 - __rust_maybe_catch_panic Aug 30 05:10:29.616 INFO kablam! at libpanic_unwind/lib.rs:102 Aug 30 05:10:29.616 INFO kablam! 10: 0x564fa31e91c5 - std::rt::lang_start_internal::hf36d29744825ff5e Aug 30 05:10:29.616 INFO kablam! at libstd/panicking.rs:289 Aug 30 05:10:29.616 INFO kablam! at libstd/panic.rs:392 Aug 30 05:10:29.616 INFO kablam! at libstd/rt.rs:58 Aug 30 05:10:29.616 INFO kablam! 11: 0x564fa2c00597 - std::rt::lang_start::hef6b43ea18f95ca8 Aug 30 05:10:29.616 INFO kablam! at /checkout/src/libstd/rt.rs:74 Aug 30 05:10:29.616 INFO kablam! 12: 0x564fa2bff959 - main Aug 30 05:10:29.616 INFO kablam! 13: 0x7f9a202c682f - __libc_start_main Aug 30 05:10:29.616 INFO kablam! 14: 0x564fa2bfeb08 - _start Aug 30 05:10:29.616 INFO kablam! 15: 0x0 - Aug 30 05:10:29.616 INFO kablam! Aug 30 05:10:29.616 INFO kablam! su: No module specific data is present Aug 30 05:10:30.021 INFO running `"docker" "rm" "-f" "8dcb6fda7b64cb4c3f31c25cdb40d5539bf358433610773e90a39d1166b717d8"` Aug 30 05:10:30.121 INFO blam! 8dcb6fda7b64cb4c3f31c25cdb40d5539bf358433610773e90a39d1166b717d8