[INFO] updating cached repository https://github.com/PlasmaPower/kmer-counter [INFO] running `"git" "-c" "credential.helper=" "-c" "credential.helper=/big/crater/work/cargo-home/bin/git-credential-null" "-c" "remote.origin.fetch=refs/heads/*:refs/heads/*" "fetch" "origin" "--force" "--prune"` [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] 2c45214e26574202f848066e0a991ef5274443d0 [INFO] testing PlasmaPower/kmer-counter against beta-2019-09-28 for beta-1.39-1 [INFO] running `"git" "clone" "work/cache/git-repos/https%3A%2F%2Fgithub.com%2FPlasmaPower%2Fkmer-counter" "work/builds/worker-10/source"` [INFO] [stderr] Cloning into 'work/builds/worker-10/source'... [INFO] [stderr] done. [INFO] validating manifest of git repo https://github.com/PlasmaPower/kmer-counter on toolchain beta-2019-09-28 [INFO] running `"/big/crater/work/cargo-home/bin/cargo" "+beta-2019-09-28" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started tweaking git repo https://github.com/PlasmaPower/kmer-counter [INFO] finished tweaking git repo https://github.com/PlasmaPower/kmer-counter [INFO] tweaked toml for git repo https://github.com/PlasmaPower/kmer-counter written to work/builds/worker-10/source/Cargo.toml [INFO] crate git repo https://github.com/PlasmaPower/kmer-counter already has a lockfile, it will not be regenerated [INFO] running `"/big/crater/work/cargo-home/bin/cargo" "+beta-2019-09-28" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"docker" "create" "-v" "/big/crater/work/builds/worker-10/target:/opt/rustwide/target:rw,Z" "-v" "/big/crater/work/builds/worker-10/source:/opt/rustwide/workdir:ro,Z" "-v" "/big/crater/work/cargo-home:/opt/rustwide/cargo-home:ro,Z" "-v" "/big/crater/work/rustup-home:/opt/rustwide/rustup-home:ro,Z" "-e" "SOURCE_DIR=/opt/rustwide/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/rustwide/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/rustwide/cargo-home" "-e" "RUSTUP_HOME=/opt/rustwide/rustup-home" "-w" "/opt/rustwide/workdir" "-m" "1610612736" "--network" "none" "rustops/crates-build-env" "/opt/rustwide/cargo-home/bin/cargo" "+beta-2019-09-28" "build" "--frozen"` [INFO] [stdout] 6532bb0d5b4a729d8ce57d18b13f9d24de7e3243dad0290dce48fdf810921814 [INFO] running `"docker" "start" "-a" "6532bb0d5b4a729d8ce57d18b13f9d24de7e3243dad0290dce48fdf810921814"` [INFO] [stderr] Blocking waiting for file lock on package cache [INFO] [stderr] Compiling libc v0.2.17 [INFO] [stderr] Compiling gcc v0.3.38 [INFO] [stderr] Compiling backtrace v0.3.0 [INFO] [stderr] Compiling strsim v0.5.2 [INFO] [stderr] Compiling thread-id v2.0.0 [INFO] [stderr] Compiling memchr v0.1.11 [INFO] [stderr] Compiling term_size v0.2.1 [INFO] [stderr] Compiling rand v0.3.15 [INFO] [stderr] Compiling memmap v0.5.0 [INFO] [stderr] Compiling thread_local v0.2.7 [INFO] [stderr] Compiling clap v2.19.0 [INFO] [stderr] Compiling aho-corasick v0.5.3 [INFO] [stderr] Compiling backtrace-sys v0.1.5 [INFO] [stderr] Compiling regex v0.1.80 [INFO] [stderr] Compiling jobsteal v0.5.1 [INFO] [stderr] Compiling error-chain v0.7.1 [INFO] [stderr] Compiling env_logger v0.3.5 [INFO] [stderr] Compiling kmer-counter v0.1.0 (/opt/rustwide/workdir) [INFO] [stderr] warning: use of deprecated item 'try': use the `?` operator instead [INFO] [stderr] --> src/get_kmers.rs:38:25 [INFO] [stderr] | [INFO] [stderr] 38 | let n: u8 = try!(n).into(); [INFO] [stderr] | ^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(deprecated)]` on by default [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'try': use the `?` operator instead [INFO] [stderr] --> src/runner.rs:45:22 [INFO] [stderr] | [INFO] [stderr] 45 | let mut inputs = try!(inputs.into_iter() [INFO] [stderr] | ^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'try': use the `?` operator instead [INFO] [stderr] --> src/runner.rs:107:18 [INFO] [stderr] | [INFO] [stderr] 107 | let counts = try!(input_counts.into_inner() [INFO] [stderr] | ^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'try': use the `?` operator instead [INFO] [stderr] --> src/runner.rs:112:18 [INFO] [stderr] | [INFO] [stderr] 112 | let counts = try!(counts.chain_err(|| "Encountered an error during k-mer counting")); [INFO] [stderr] | ^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'try': use the `?` operator instead [INFO] [stderr] --> src/readers/mmap.rs:51:16 [INFO] [stderr] | [INFO] [stderr] 51 | let mmap = try!(Mmap::open_path(path, memmap::Protection::Read) [INFO] [stderr] | ^^^ [INFO] [stderr] [INFO] [stderr] warning: use of deprecated item 'try': use the `?` operator instead [INFO] [stderr] --> src/readers/file.rs:21:16 [INFO] [stderr] | [INFO] [stderr] 21 | let file = try!(File::open(path).chain_err(|| "Failed to open input file")); [INFO] [stderr] | ^^^ [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/error_string.rs:26:32 [INFO] [stderr] | [INFO] [stderr] 26 | fn cause(&self) -> Option<&Error> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(bare_trait_objects)]` on by default [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/runner.rs:49:53 [INFO] [stderr] | [INFO] [stderr] 49 | Box::new(it.map(Ok)) as Box> + Send + Sync> [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: use `dyn`: `dyn Iterator> + Send + Sync` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/runner.rs:53:51 [INFO] [stderr] | [INFO] [stderr] 53 | .map(|it| Box::new(it) as Box> + Send + Sync>) [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: use `dyn`: `dyn Iterator> + Send + Sync` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/runner.rs:61:28 [INFO] [stderr] | [INFO] [stderr] 61 | as Box> + Send + Sync>); [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: use `dyn`: `dyn Iterator> + Send + Sync` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/kmer_tree.rs:42:24 [INFO] [stderr] | [INFO] [stderr] 42 | while let Some(mut count) = self.counts.get_mut(self.index) { [INFO] [stderr] | ----^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_mut)]` on by default [INFO] [stderr] [INFO] [stderr] error: linking with `cc` failed: exit code: 1 [INFO] [stderr] | [INFO] [stderr] = note: "cc" "-Wl,--as-needed" "-Wl,-z,noexecstack" "-m64" "-L" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.0.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.1.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.10.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.11.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.12.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.13.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.14.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.15.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.2.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.3.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.4.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.5.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.6.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.7.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.8.rcgu.o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.kmer_counter.1otncybh-cgu.9.rcgu.o" "-o" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1" "/opt/rustwide/target/debug/deps/kmer_counter-1ae2396811fc90f1.5e95oggakldkiz6d.rcgu.o" "-Wl,--gc-sections" "-pie" "-Wl,-zrelro" "-Wl,-znow" "-nodefaultlibs" "-L" "/opt/rustwide/target/debug/deps" "-L" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib" "-Wl,-Bstatic" "/opt/rustwide/target/debug/deps/liberror_chain-dc8bf57962f65fa0.rlib" "/opt/rustwide/target/debug/deps/libbacktrace-a077a7eced40da9b.rlib" "/opt/rustwide/target/debug/deps/libbacktrace_sys-ba096185fbb54469.rlib" "/opt/rustwide/target/debug/deps/librustc_demangle-ab61bcfc78ca3f72.rlib" "/opt/rustwide/target/debug/deps/libcfg_if-74a8da7eb87e7425.rlib" "/opt/rustwide/target/debug/deps/libdbghelp-12ada7abe4f2a2f8.rlib" "/opt/rustwide/target/debug/deps/libwinapi-7e701baf38e52a01.rlib" "/opt/rustwide/target/debug/deps/libkernel32-599f52907835aafd.rlib" "/opt/rustwide/target/debug/deps/libenv_logger-ee5ae88638b6d15e.rlib" "/opt/rustwide/target/debug/deps/libregex-16bf937a4de3ff30.rlib" "/opt/rustwide/target/debug/deps/libutf8_ranges-90f52effbe3e1836.rlib" "/opt/rustwide/target/debug/deps/libregex_syntax-7ca80216cc8c8385.rlib" "/opt/rustwide/target/debug/deps/libthread_local-4643e63d1f97617f.rlib" "/opt/rustwide/target/debug/deps/libthread_id-b1bd8999d2f44933.rlib" "/opt/rustwide/target/debug/deps/libaho_corasick-d4b8dee6e5dbc662.rlib" "/opt/rustwide/target/debug/deps/liblog-75ad2277dd237681.rlib" "/opt/rustwide/target/debug/deps/libjobsteal-fc5f50fa5cd3a949.rlib" "/opt/rustwide/target/debug/deps/librand-cd5082967a90811f.rlib" "/opt/rustwide/target/debug/deps/libcrossbeam-9f9d501e0795965b.rlib" "/opt/rustwide/target/debug/deps/libmemchr-5c1967c776062f02.rlib" "/opt/rustwide/target/debug/deps/libmemmap-6522f1a1e1f2e953.rlib" "/opt/rustwide/target/debug/deps/libclap-836a9e45b3a3e351.rlib" "/opt/rustwide/target/debug/deps/libunicode_segmentation-b8f66b12f0afa12c.rlib" "/opt/rustwide/target/debug/deps/libterm_size-36033922e791db68.rlib" "/opt/rustwide/target/debug/deps/libvec_map-7fac5c257551f07b.rlib" "/opt/rustwide/target/debug/deps/libbitflags-cfca1255836e7478.rlib" "/opt/rustwide/target/debug/deps/libunicode_width-9e145835182e89b6.rlib" "/opt/rustwide/target/debug/deps/liblibc-339f3d25fc3363a4.rlib" "/opt/rustwide/target/debug/deps/libansi_term-2c3bc4e3c7ee568d.rlib" "/opt/rustwide/target/debug/deps/libstrsim-b2fad2915b37d38e.rlib" "-Wl,--start-group" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libstd-db812c66f862af4c.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libpanic_unwind-e7871a21575d5ff7.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libhashbrown-2f2c581bc0d759e6.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_std_workspace_alloc-35731cabc05dc8a0.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libbacktrace-36477394541292db.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libbacktrace_sys-8b706b170c1272d8.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_demangle-801dbb3043ccf581.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libunwind-a32aa66ce6f72b21.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcfg_if-d00ea3bfb2bb6c00.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/liblibc-d2c6ebe88c3e113c.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/liballoc-df74f62f6bb60621.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_std_workspace_core-2170473575daeedb.rlib" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcore-1a08089bbddc4f51.rlib" "-Wl,--end-group" "/opt/rustwide/rustup-home/toolchains/beta-2019-09-28-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcompiler_builtins-f8f562e5472ad5c3.rlib" "-Wl,-Bdynamic" "-lutil" "-ldl" "-lrt" "-lpthread" "-lgcc_s" "-lc" "-lm" "-lrt" "-lpthread" "-lutil" "-lutil" [INFO] [stderr] = note: /opt/rustwide/target/debug/deps/libbacktrace-a077a7eced40da9b.rlib(backtrace-a077a7eced40da9b.backtrace.cp1b7q2v-cgu.6.rcgu.o): In function `backtrace::symbolize::libbacktrace::init_state::{{closure}}': [INFO] [stderr] /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/backtrace-0.3.0/src/symbolize/libbacktrace.rs:156: undefined reference to `backtrace_create_state' [INFO] [stderr] /opt/rustwide/target/debug/deps/libbacktrace-a077a7eced40da9b.rlib(backtrace-a077a7eced40da9b.backtrace.cp1b7q2v-cgu.6.rcgu.o): In function `backtrace::symbolize::libbacktrace::resolve': [INFO] [stderr] /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/backtrace-0.3.0/src/symbolize/libbacktrace.rs:173: undefined reference to `backtrace_pcinfo' [INFO] [stderr] /opt/rustwide/cargo-home/registry/src/github.com-1ecc6299db9ec823/backtrace-0.3.0/src/symbolize/libbacktrace.rs:177: undefined reference to `backtrace_syminfo' [INFO] [stderr] collect2: error: ld returned 1 exit status [INFO] [stderr] [INFO] [stderr] [INFO] [stderr] error: aborting due to previous error [INFO] [stderr] [INFO] [stderr] error: could not compile `kmer-counter`. [INFO] [stderr] [INFO] [stderr] To learn more, run the command again with --verbose. [INFO] running `"docker" "inspect" "6532bb0d5b4a729d8ce57d18b13f9d24de7e3243dad0290dce48fdf810921814"` [INFO] running `"docker" "rm" "-f" "6532bb0d5b4a729d8ce57d18b13f9d24de7e3243dad0290dce48fdf810921814"` [INFO] [stdout] 6532bb0d5b4a729d8ce57d18b13f9d24de7e3243dad0290dce48fdf810921814