Sep 19 21:08:48.612 INFO checking rust-htslib-0.21.0 against master#1e21c9a297a9fe668d62887a3a6a4add8e717b17 for pr-54352 Sep 19 21:08:48.612 INFO running: cargo +1e21c9a297a9fe668d62887a3a6a4add8e717b17-alt check --frozen --all --all-targets Sep 19 21:08:48.612 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-5/pr-54352/master#1e21c9a297a9fe668d62887a3a6a4add8e717b17:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-54352/worker-5/master#1e21c9a297a9fe668d62887a3a6a4add8e717b17:/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 +1e21c9a297a9fe668d62887a3a6a4add8e717b17-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "1536M" "crater"` Sep 19 21:08:48.868 INFO blam! 005c3d7a26b200541295bd9227f660a99ebdaf6b504162f924d8e4d98f8c2cde Sep 19 21:08:48.870 INFO running `"docker" "start" "-a" "005c3d7a26b200541295bd9227f660a99ebdaf6b504162f924d8e4d98f8c2cde"` Sep 19 21:08:50.282 INFO kablam! usermod: no changes Sep 19 21:08:50.518 INFO kablam! Compiling bindgen v0.36.1 Sep 19 21:08:50.518 INFO kablam! Checking linear-map v1.2.0 Sep 19 21:08:50.526 INFO kablam! Checking ieee754 v0.2.2 Sep 19 21:08:50.534 INFO kablam! Compiling clang-sys v0.22.0 Sep 19 21:08:50.534 INFO kablam! Compiling fs-utils v1.1.0 Sep 19 21:08:50.565 INFO kablam! Checking bio-types v0.3.0 Sep 19 21:09:21.501 INFO kablam! Compiling rust-htslib v0.21.0 (/source) Sep 19 21:09:43.741 INFO kablam! error: failed to run custom build command for `rust-htslib v0.21.0 (/source)` Sep 19 21:09:43.741 INFO kablam! process didn't exit successfully: `/target/debug/build/rust-htslib-dad952341ca2273c/build-script-build` (exit code: 101) Sep 19 21:09:43.741 INFO kablam! --- stdout Sep 19 21:09:43.741 INFO kablam! echo '/* Default config.h generated by Makefile */' > config.h Sep 19 21:09:43.741 INFO kablam! echo '#define HAVE_LIBBZ2 1' >> config.h Sep 19 21:09:43.741 INFO kablam! echo '#define HAVE_LIBLZMA 1' >> config.h Sep 19 21:09:43.741 INFO kablam! echo '#define HAVE_FSEEKO 1' >> config.h Sep 19 21:09:43.741 INFO kablam! echo '#define HAVE_DRAND48 1' >> config.h Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kfunc.o kfunc.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o knetfile.o knetfile.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o kstring.o kstring.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bcf_sr_sort.o bcf_sr_sort.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o bgzf.o bgzf.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o errmod.o errmod.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o faidx.o faidx.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile.o hfile.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hfile_net.o hfile_net.c Sep 19 21:09:43.741 INFO kablam! echo '#define HTS_VERSION "1.6"' > version.h Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts.o hts.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o hts_os.o hts_os.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o md5.o md5.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o multipart.o multipart.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o probaln.o probaln.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o realn.o realn.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o regidx.o regidx.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o sam.o sam.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o synced_bcf_reader.o synced_bcf_reader.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf_sweep.o vcf_sweep.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o tbx.o tbx.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o textutils.o textutils.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o thread_pool.o thread_pool.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcf.o vcf.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o vcfutils.o vcfutils.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_codecs.o cram/cram_codecs.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_decode.o cram/cram_decode.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_encode.o cram/cram_encode.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_external.o cram/cram_external.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_index.o cram/cram_index.c Sep 19 21:09:43.741 INFO kablam! gcc -g -Wall -O2 -fPIC -I. -c -o cram/cram_io.o cram/cram_io.c Sep 19 21:09:43.741 INFO kablam! Makefile:120: recipe for target 'cram/cram_io.o' failed Sep 19 21:09:43.741 INFO kablam! Sep 19 21:09:43.741 INFO kablam! --- stderr Sep 19 21:09:43.741 INFO kablam! cram/cram_io.c:57:19: fatal error: bzlib.h: No such file or directory Sep 19 21:09:43.741 INFO kablam! compilation terminated. Sep 19 21:09:43.741 INFO kablam! make: *** [cram/cram_io.o] Error 1 Sep 19 21:09:43.741 INFO kablam! thread 'main' panicked at 'failed to build htslib', build.rs:59:9 Sep 19 21:09:43.741 INFO kablam! stack backtrace: Sep 19 21:09:43.741 INFO kablam! 0: 0x5631fb70898e - std::sys::unix::backtrace::tracing::imp::unwind_backtrace::hf109cffeb5c37bed Sep 19 21:09:43.741 INFO kablam! at libstd/sys/unix/backtrace/tracing/gcc_s.rs:49 Sep 19 21:09:43.741 INFO kablam! 1: 0x5631fb6f7a26 - std::sys_common::backtrace::print::h4afa12dd16372edf Sep 19 21:09:43.741 INFO kablam! at libstd/sys_common/backtrace.rs:71 Sep 19 21:09:43.741 INFO kablam! at libstd/sys_common/backtrace.rs:59 Sep 19 21:09:43.741 INFO kablam! 2: 0x5631fb6f5dfd - std::panicking::default_hook::{{closure}}::ha3565edfa2d8a8f7 Sep 19 21:09:43.741 INFO kablam! at libstd/panicking.rs:211 Sep 19 21:09:43.741 INFO kablam! 3: 0x5631fb6f5b70 - std::panicking::default_hook::h68592964d2f4a1f7 Sep 19 21:09:43.741 INFO kablam! at libstd/panicking.rs:227 Sep 19 21:09:43.741 INFO kablam! 4: 0x5631fb6f646c - std::panicking::rust_panic_with_hook::h33d0ce8157f9a0b5 Sep 19 21:09:43.741 INFO kablam! at libstd/panicking.rs:477 Sep 19 21:09:43.741 INFO kablam! 5: 0x5631fb532bef - std::panicking::begin_panic::hbb612309c529f03d Sep 19 21:09:43.741 INFO kablam! at libstd/panicking.rs:411 Sep 19 21:09:43.741 INFO kablam! 6: 0x5631fb117174 - build_script_build::main::hfc793e523071d7dd Sep 19 21:09:43.742 INFO kablam! at /source/build.rs:59 Sep 19 21:09:43.742 INFO kablam! 7: 0x5631fb11829f - std::rt::lang_start::{{closure}}::h98eb50fa811e276c Sep 19 21:09:43.742 INFO kablam! at libstd/rt.rs:74 Sep 19 21:09:43.742 INFO kablam! 8: 0x5631fb6f5f02 - std::panicking::try::do_call::h7aef401f0d6f2817 Sep 19 21:09:43.742 INFO kablam! at libstd/rt.rs:59 Sep 19 21:09:43.742 INFO kablam! at libstd/panicking.rs:310 Sep 19 21:09:43.742 INFO kablam! 9: 0x5631fb71b249 - __rust_maybe_catch_panic Sep 19 21:09:43.742 INFO kablam! at libpanic_unwind/lib.rs:102 Sep 19 21:09:43.742 INFO kablam! 10: 0x5631fb7030a5 - std::rt::lang_start_internal::hd57f65710f093de9 Sep 19 21:09:43.742 INFO kablam! at libstd/panicking.rs:289 Sep 19 21:09:43.742 INFO kablam! at libstd/panic.rs:392 Sep 19 21:09:43.742 INFO kablam! at libstd/rt.rs:58 Sep 19 21:09:43.742 INFO kablam! 11: 0x5631fb118277 - std::rt::lang_start::h66deacaff57468d2 Sep 19 21:09:43.742 INFO kablam! at libstd/rt.rs:74 Sep 19 21:09:43.742 INFO kablam! 12: 0x5631fb117639 - main Sep 19 21:09:43.742 INFO kablam! 13: 0x7f581960a82f - __libc_start_main Sep 19 21:09:43.742 INFO kablam! 14: 0x5631fb116828 - _start Sep 19 21:09:43.742 INFO kablam! 15: 0x0 - Sep 19 21:09:43.742 INFO kablam! Sep 19 21:09:43.746 INFO kablam! su: No module specific data is present Sep 19 21:09:44.395 INFO running `"docker" "rm" "-f" "005c3d7a26b200541295bd9227f660a99ebdaf6b504162f924d8e4d98f8c2cde"` Sep 19 21:09:44.492 INFO blam! 005c3d7a26b200541295bd9227f660a99ebdaf6b504162f924d8e4d98f8c2cde