[INFO] crate varlociraptor 1.1.1 is already in cache [INFO] extracting crate varlociraptor 1.1.1 into work/ex/beta-1.38-1/sources/1.37.0/reg/varlociraptor/1.1.1 [INFO] extracting crate varlociraptor 1.1.1 into work/ex/beta-1.38-1/sources/beta-2019-08-13/reg/varlociraptor/1.1.1 [INFO] validating manifest of varlociraptor-1.1.1 on toolchain 1.37.0 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+1.37.0" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] validating manifest of varlociraptor-1.1.1 on toolchain beta-2019-08-13 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+beta-2019-08-13" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started frobbing varlociraptor-1.1.1 [INFO] finished frobbing varlociraptor-1.1.1 [INFO] frobbed toml for varlociraptor-1.1.1 written to work/ex/beta-1.38-1/sources/1.37.0/reg/varlociraptor/1.1.1/Cargo.toml [INFO] started frobbing varlociraptor-1.1.1 [INFO] finished frobbing varlociraptor-1.1.1 [INFO] frobbed toml for varlociraptor-1.1.1 written to work/ex/beta-1.38-1/sources/beta-2019-08-13/reg/varlociraptor/1.1.1/Cargo.toml [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+1.37.0" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+beta-2019-08-13" "generate-lockfile" "--manifest-path" "Cargo.toml" "-Zno-index-update"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+1.37.0" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+beta-2019-08-13" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] testing varlociraptor-1.1.1 against 1.37.0 for beta-1.38-1 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/beta-1.38-1/worker-5/1.37.0:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/beta-1.38-1/sources/1.37.0/reg/varlociraptor/1.1.1:/opt/crater/workdir:ro,Z" "-v" "/mnt/big/crater/work/local/cargo-home:/opt/crater/cargo-home:ro,Z" "-v" "/mnt/big/crater/work/local/rustup-home:/opt/crater/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/opt/crater/workdir" "-e" "MAP_USER_ID=1000" "-e" "CARGO_TARGET_DIR=/opt/crater/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "-e" "CARGO_HOME=/opt/crater/cargo-home" "-e" "RUSTUP_HOME=/opt/crater/rustup-home" "-w" "/opt/crater/workdir" "-m" "1536M" "--network" "none" "rustops/crates-build-env" "/opt/crater/cargo-home/bin/cargo" "+1.37.0" "build" "--frozen"` [INFO] [stdout] 73bb8861eb61588fc86856c362b7da2f4f6ca7efe438294b6e6333c0d910171c [INFO] running `"docker" "start" "-a" "73bb8861eb61588fc86856c362b7da2f4f6ca7efe438294b6e6333c0d910171c"` [INFO] [stderr] Compiling bindgen v0.51.0 [INFO] [stderr] Compiling ucd-trie v0.1.2 [INFO] [stderr] Compiling feature-probe v0.1.1 [INFO] [stderr] Compiling askama_escape v0.2.0 [INFO] [stderr] Compiling bio v0.28.2 [INFO] [stderr] Compiling ndarray v0.6.10 [INFO] [stderr] Compiling bytecount v0.3.2 [INFO] [stderr] Compiling strum v0.13.0 [INFO] [stderr] Compiling ieee754 v0.2.6 [INFO] [stderr] Compiling c_vec v1.0.12 [INFO] [stderr] Compiling custom_derive v0.1.7 [INFO] [stderr] Compiling linear-map v1.2.0 [INFO] [stderr] Compiling cached v0.7.0 [INFO] [stderr] Compiling bzip2-sys v0.1.7 [INFO] [stderr] Compiling fs-utils v1.1.1 [INFO] [stderr] Compiling lzma-sys v0.1.14 [INFO] [stderr] Compiling GSL v1.1.0 [INFO] [stderr] Compiling itertools v0.5.10 [INFO] [stderr] Compiling newtype_derive v0.1.6 [INFO] [stderr] Compiling bv v0.10.0 [INFO] [stderr] Compiling nom v4.2.3 [INFO] [stderr] Compiling syn v0.15.44 [INFO] [stderr] Compiling approx v0.3.2 [INFO] [stderr] Compiling itertools-num v0.1.3 [INFO] [stderr] Compiling counter v0.4.3 [INFO] [stderr] Compiling fern v0.4.4 [INFO] [stderr] Compiling derive-new v0.5.8 [INFO] [stderr] Compiling statrs v0.9.0 [INFO] [stderr] Compiling pest v2.1.1 [INFO] [stderr] Compiling ndarray v0.12.1 [INFO] [stderr] Compiling vec_map v0.8.1 [INFO] [stderr] Compiling multimap v0.4.0 [INFO] [stderr] Compiling bio-types v0.5.1 [INFO] [stderr] Compiling bio-types v0.4.0 [INFO] [stderr] Compiling serde_yaml v0.8.9 [INFO] [stderr] Compiling rulinalg v0.2.2 [INFO] [stderr] Compiling cexpr v0.3.5 [INFO] [stderr] Compiling askama_shared v0.8.0 [INFO] [stderr] Compiling pest_meta v2.1.1 [INFO] [stderr] Compiling eval v0.4.3 [INFO] [stderr] Compiling clap v2.33.0 [INFO] [stderr] Compiling rusty-machine v0.4.4 [INFO] [stderr] Compiling darling_core v0.9.0 [INFO] [stderr] Compiling askama_derive v0.8.0 [INFO] [stderr] Compiling strum_macros v0.13.0 [INFO] [stderr] Compiling pest_generator v2.1.0 [INFO] [stderr] Compiling structopt-derive v0.2.18 [INFO] [stderr] Compiling getset v0.0.7 [INFO] [stderr] Compiling pest_derive v2.1.0 [INFO] [stderr] Compiling structopt v0.2.18 [INFO] [stderr] Compiling darling_macro v0.9.0 [INFO] [stderr] Compiling darling v0.9.0 [INFO] [stderr] Compiling askama v0.8.0 [INFO] [stderr] Compiling derive_builder_core v0.5.0 [INFO] [stderr] Compiling derive_builder v0.7.2 [INFO] [stderr] Compiling rust-htslib v0.23.0 [INFO] [stderr] Compiling varlociraptor v1.1.1 (/opt/crater/workdir) [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call.rs:94:73 [INFO] [stderr] | [INFO] [stderr] 94 | pub fn reference>(self, path: P) -> Result> { [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/call.rs:100:77 [INFO] [stderr] | [INFO] [stderr] 100 | pub fn inbcf>(self, path: Option

) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call.rs:162:78 [INFO] [stderr] | [INFO] [stderr] 162 | pub fn outbcf>(self, path: Option

) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call.rs:259:46 [INFO] [stderr] | [INFO] [stderr] 259 | pub fn call(&mut self) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call.rs:283:61 [INFO] [stderr] | [INFO] [stderr] 283 | fn write_call(&mut self, call: &Call) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call.rs:425:35 [INFO] [stderr] | [INFO] [stderr] 425 | ) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:63:27 [INFO] [stderr] | [INFO] [stderr] 63 | ) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:154:46 [INFO] [stderr] | [INFO] [stderr] 154 | pub fn call(&mut self) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:214:36 [INFO] [stderr] | [INFO] [stderr] 214 | let mean_depth = |filter: &Fn(&Call) -> u32| { [INFO] [stderr] | ^^^^^^^^^^^^^^^^ help: use `dyn`: `dyn Fn(&Call) -> u32` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:312:25 [INFO] [stderr] | [INFO] [stderr] 312 | ) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:533:11 [INFO] [stderr] | [INFO] [stderr] 533 | hmm: &hmm::Model, [INFO] [stderr] | ^^^^^^^^^^^^^ help: use `dyn`: `dyn hmm::Model` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:546:11 [INFO] [stderr] | [INFO] [stderr] 546 | hmm: &hmm::Model, [INFO] [stderr] | ^^^^^^^^^^^^^ help: use `dyn`: `dyn hmm::Model` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/call_cnvs.rs:587:70 [INFO] [stderr] | [INFO] [stderr] 587 | pub fn new(record: &mut bcf::Record) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/cli.rs:311:50 [INFO] [stderr] | [INFO] [stderr] 311 | pub fn run(opt: Varlociraptor) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/cli.rs:685:38 [INFO] [stderr] | [INFO] [stderr] 685 | ) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/conversion/decode_phred.rs:9:41 [INFO] [stderr] | [INFO] [stderr] 9 | pub fn decode_phred() -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/estimation/alignment_properties.rs:74:68 [INFO] [stderr] | [INFO] [stderr] 74 | pub fn estimate(bam: &mut R) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/estimation/alignment_properties.rs:154:33 [INFO] [stderr] | [INFO] [stderr] 154 | ) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/filtration/fdr.rs:40:21 [INFO] [stderr] | [INFO] [stderr] 40 | ) -> Result<(), Box> [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/filtration/posterior_odds.rs:23:21 [INFO] [stderr] | [INFO] [stderr] 23 | ) -> Result<(), Box> [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/fragments.rs:58:89 [INFO] [stderr] | [INFO] [stderr] 58 | pub fn estimate_insert_size(left: &bam::Record, right: &bam::Record) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/fragments.rs:62:68 [INFO] [stderr] | [INFO] [stderr] 62 | let aln = |rec: &bam::Record, cigar| -> Result<(u32, u32), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/fragments.rs:143:41 [INFO] [stderr] | [INFO] [stderr] 143 | ) -> Result<(LogProb, LogProb), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/reads.rs:37:49 [INFO] [stderr] | [INFO] [stderr] 37 | ) -> Result, Box>; [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/reads.rs:77:49 [INFO] [stderr] | [INFO] [stderr] 77 | ) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/reads.rs:123:49 [INFO] [stderr] | [INFO] [stderr] 123 | ) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/evidence/reads.rs:214:49 [INFO] [stderr] | [INFO] [stderr] 214 | ) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:77:82 [INFO] [stderr] | [INFO] [stderr] 77 | pub fn fill(&mut self, chrom: &[u8], start: u32, end: u32) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:192:60 [INFO] [stderr] | [INFO] [stderr] 192 | ) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:274:29 [INFO] [stderr] | [INFO] [stderr] 274 | ) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:475:42 [INFO] [stderr] | [INFO] [stderr] 475 | ) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:476:34 [INFO] [stderr] | [INFO] [stderr] 476 | let mut evidence: RefMut = match variant { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: use `dyn`: `dyn evidence::reads::AbstractReadEvidence` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:538:42 [INFO] [stderr] | [INFO] [stderr] 538 | ) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/model/sample.rs:541:44 [INFO] [stderr] | [INFO] [stderr] 541 | -> Result<(LogProb, LogProb), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/testcase.rs:75:72 [INFO] [stderr] | [INFO] [stderr] 75 | pub fn reference(self, path: impl AsRef) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/testcase.rs:79:73 [INFO] [stderr] | [INFO] [stderr] 79 | pub fn candidates(self, path: impl AsRef) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/testcase.rs:83:57 [INFO] [stderr] | [INFO] [stderr] 83 | pub fn locus(self, locus: &str) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/testcase.rs:126:60 [INFO] [stderr] | [INFO] [stderr] 126 | fn variants(&mut self) -> Result, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/testcase.rs:155:47 [INFO] [stderr] | [INFO] [stderr] 155 | pub fn write(&mut self) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:81:46 [INFO] [stderr] | [INFO] [stderr] 81 | ) -> Result>, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:282:62 [INFO] [stderr] | [INFO] [stderr] 282 | pub fn seq(&mut self, chrom: &[u8]) -> Result<&[u8], Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:310:39 [INFO] [stderr] | [INFO] [stderr] 310 | ) -> Result>, Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:363:35 [INFO] [stderr] | [INFO] [stderr] 363 | ) -> Result>, Box> [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:407:21 [INFO] [stderr] | [INFO] [stderr] 407 | ) -> Result<(), Box> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:436:47 [INFO] [stderr] | [INFO] [stderr] 436 | F: Fn(&mut bcf::Record) -> Result>, [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:434:21 [INFO] [stderr] | [INFO] [stderr] 434 | ) -> Result<(), Box> [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/utils.rs:489:30 [INFO] [stderr] | [INFO] [stderr] 489 | ) -> Result> { [INFO] [stderr] | ^^^^^ help: use `dyn`: `dyn Error` [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/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.0.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.1.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.10.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.11.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.12.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.13.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.14.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.15.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.2.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.3.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.4.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.5.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.6.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.7.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.8.rcgu.o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.varlociraptor.c88b1gs8-cgu.9.rcgu.o" "-o" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494" "/opt/crater/target/debug/deps/varlociraptor-1ef39b4a643fa494.awju8552k8tsjuy.rcgu.o" "-Wl,--gc-sections" "-pie" "-Wl,-zrelro" "-Wl,-znow" "-nodefaultlibs" "-L" "/opt/crater/target/debug/deps" "-L" "/opt/crater/target/debug/build/rust-htslib-11a55cb128bf0ace/out" "-L" "/opt/crater/target/debug/build/bzip2-sys-166dd9cb46ba2d46/out/lib" "-L" "/usr/lib/x86_64-linux-gnu" "-L" "/usr/lib/x86_64-linux-gnu" "-L" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib" "-Wl,-Bstatic" "/opt/crater/target/debug/deps/libfern-c97734a035e9d810.rlib" "/opt/crater/target/debug/deps/libvarlociraptor-5ab3a0728b401e07.rlib" "/opt/crater/target/debug/deps/libcounter-3afbd37ab9c7476c.rlib" "/opt/crater/target/debug/deps/libserde_json-cc7d2cf7e5d933a8.rlib" "/opt/crater/target/debug/deps/libbio_types-4af4143745b1c905.rlib" "/opt/crater/target/debug/deps/libpest-8ba2921a77887f56.rlib" "/opt/crater/target/debug/deps/libucd_trie-1906036d5e33116d.rlib" "/opt/crater/target/debug/deps/librusty_machine-1ec1c8e5807a6aa6.rlib" "/opt/crater/target/debug/deps/librulinalg-3eaef38412f28963.rlib" "/opt/crater/target/debug/deps/libnum-5caa7dd009747390.rlib" "/opt/crater/target/debug/deps/libnum_iter-710c4cd4b54241c7.rlib" "/opt/crater/target/debug/deps/libcustom_error-54450033ea8cb53a.rlib" "/opt/crater/target/debug/deps/libserde_yaml-c5cece7b9a8c0d2e.rlib" "/opt/crater/target/debug/deps/libyaml_rust-c0c4d81140b1e9e6.rlib" "/opt/crater/target/debug/deps/liblinked_hash_map-3e4fdc964a0eef39.rlib" "/opt/crater/target/debug/deps/libdtoa-8ca04c299b5dbe41.rlib" "/opt/crater/target/debug/deps/librgsl-a7f7441cd4a6d0c4.rlib" "/opt/crater/target/debug/deps/libc_vec-c46479f165841a49.rlib" "/opt/crater/target/debug/deps/librayon-4d831b3581b44bbb.rlib" "/opt/crater/target/debug/deps/librayon_core-b12ecf1af06f12e4.rlib" "/opt/crater/target/debug/deps/libnum_cpus-509d1090a02489e2.rlib" "/opt/crater/target/debug/deps/libcrossbeam_queue-f6668dbd335cb278.rlib" "/opt/crater/target/debug/deps/libcrossbeam_deque-552fdccb28a3ea8c.rlib" "/opt/crater/target/debug/deps/libcrossbeam_epoch-9b111a0846dc7592.rlib" "/opt/crater/target/debug/deps/libscopeguard-9b5b548023a82ae4.rlib" "/opt/crater/target/debug/deps/libmemoffset-e64a831d4be8abfc.rlib" "/opt/crater/target/debug/deps/libcrossbeam_utils-c7636b44f63f0536.rlib" "/opt/crater/target/debug/deps/libarrayvec-ec8906360acdff5b.rlib" "/opt/crater/target/debug/deps/libnodrop-844425db77ee9480.rlib" "/opt/crater/target/debug/deps/librust_htslib-2bec4071c8cd01ca.rlib" "/opt/crater/target/debug/deps/liblzma_sys-e43742c8272ba0e0.rlib" "/opt/crater/target/debug/deps/libbzip2_sys-aef0b0f83774411c.rlib" "/opt/crater/target/debug/deps/liblibz_sys-631c038fc3a494d7.rlib" "/opt/crater/target/debug/deps/liblinear_map-31e0c38b4542191e.rlib" "/opt/crater/target/debug/deps/liburl-ebaefb0ef9c8c191.rlib" "/opt/crater/target/debug/deps/libpercent_encoding-7ae675a5263db170.rlib" "/opt/crater/target/debug/deps/libidna-52fbc9ef9e77809d.rlib" "/opt/crater/target/debug/deps/libunicode_normalization-3ac46972447058ab.rlib" "/opt/crater/target/debug/deps/libsmallvec-8ab4c1b4228c68ef.rlib" "/opt/crater/target/debug/deps/libunicode_bidi-ad8beb3a11009df0.rlib" "/opt/crater/target/debug/deps/libmatches-5962f64d87545c04.rlib" "/opt/crater/target/debug/deps/libieee754-16ce206999f53c71.rlib" "/opt/crater/target/debug/deps/libbitflags-f034fe9ef0b445a7.rlib" "/opt/crater/target/debug/deps/libitertools-e323d3d249ca43ce.rlib" "/opt/crater/target/debug/deps/libbio-bbea6c1f50ed62e4.rlib" "/opt/crater/target/debug/deps/libstrum-88a05b60b3ac5d86.rlib" "/opt/crater/target/debug/deps/libitertools_num-ba54e3bf1033baa1.rlib" "/opt/crater/target/debug/deps/libstatrs-be706738068e3813.rlib" "/opt/crater/target/debug/deps/librand-c5856808b7d2d058.rlib" "/opt/crater/target/debug/deps/librand-a2977b71a5d1a0ed.rlib" "/opt/crater/target/debug/deps/libordered_float-7f1462d7c3b622aa.rlib" "/opt/crater/target/debug/deps/libndarray-82305ed6162e788a.rlib" "/opt/crater/target/debug/deps/libnum_complex-ec46009aecfaac81.rlib" "/opt/crater/target/debug/deps/libmatrixmultiply-073e3445d983e7bf.rlib" "/opt/crater/target/debug/deps/librawpointer-21fcc3474eb85ebb.rlib" "/opt/crater/target/debug/deps/libmultimap-44e0a3c945509878.rlib" "/opt/crater/target/debug/deps/libitertools-3ae7559e255cf35e.rlib" "/opt/crater/target/debug/deps/libeither-dfa9c429720c7162.rlib" "/opt/crater/target/debug/deps/libcsv-45f445339fb0e0f0.rlib" "/opt/crater/target/debug/deps/libryu-be578719e5bf2327.rlib" "/opt/crater/target/debug/deps/libitoa-d35f0a89557c3310.rlib" "/opt/crater/target/debug/deps/libcsv_core-e5b94b5295baa107.rlib" "/opt/crater/target/debug/deps/libbstr-3b453dbcf5e119d1.rlib" "/opt/crater/target/debug/deps/libregex_automata-d03d5aa94020daca.rlib" "/opt/crater/target/debug/deps/libnum_integer-e8e7d1ec85b23cb1.rlib" "/opt/crater/target/debug/deps/libbv-308526f5655933ae.rlib" "/opt/crater/target/debug/deps/libbytecount-db3599011cb71c3f.rlib" "/opt/crater/target/debug/deps/libbit_set-7ac8ae4e843c6512.rlib" "/opt/crater/target/debug/deps/libbit_vec-3f7469548bf35617.rlib" "/opt/crater/target/debug/deps/libbio_types-e832a466ab8bc856.rlib" "/opt/crater/target/debug/deps/libregex-fca4779986bcf058.rlib" "/opt/crater/target/debug/deps/libregex_syntax-74b9e606898eafee.rlib" "/opt/crater/target/debug/deps/libthread_local-1801494cfc15e4c0.rlib" "/opt/crater/target/debug/deps/libaho_corasick-2003abaea84451c2.rlib" "/opt/crater/target/debug/deps/libmemchr-3fd81741466e29b2.rlib" "/opt/crater/target/debug/deps/libfxhash-15428931b358fc81.rlib" "/opt/crater/target/debug/deps/libbyteorder-585fd2581aa01382.rlib" "/opt/crater/target/debug/deps/libpetgraph-29a5dca902fd7c75.rlib" "/opt/crater/target/debug/deps/libordermap-d026bcb16cd59152.rlib" "/opt/crater/target/debug/deps/libfixedbitset-ec794605dfdff74a.rlib" "/opt/crater/target/debug/deps/libnewtype_derive-84f60c382c3a19f4.rlib" "/opt/crater/target/debug/deps/liblazy_static-eb33edc716f69401.rlib" "/opt/crater/target/debug/deps/libcustom_derive-9aa13b58de859316.rlib" "/opt/crater/target/debug/deps/libaskama-a98df04df21eb3f9.rlib" "/opt/crater/target/debug/deps/libaskama_shared-442f974fc13c0555.rlib" "/opt/crater/target/debug/deps/libhumansize-f13bd5501fd9c91a.rlib" "/opt/crater/target/debug/deps/libaskama_escape-6b670a016c1eeb75.rlib" "/opt/crater/target/debug/deps/libtoml-e3f7b88804ec4784.rlib" "/opt/crater/target/debug/deps/liblazy_static-0c9d1899e9eae559.rlib" "/opt/crater/target/debug/deps/libquick_error-a2165722eb49e44c.rlib" "/opt/crater/target/debug/deps/libapprox-f00b219f5ca22a13.rlib" "/opt/crater/target/debug/deps/libnum_traits-d11dcc7883adaecb.rlib" "/opt/crater/target/debug/deps/liblog-5ad476e9af8f39be.rlib" "/opt/crater/target/debug/deps/liblog-55cfa8f7ed258bff.rlib" "/opt/crater/target/debug/deps/libcfg_if-3028bdd7b8e15bb5.rlib" "/opt/crater/target/debug/deps/libstructopt-f39b94a653bc233d.rlib" "/opt/crater/target/debug/deps/libclap-e9649f2fda469d89.rlib" "/opt/crater/target/debug/deps/libyaml_rust-c79c5c8050dad054.rlib" "/opt/crater/target/debug/deps/libvec_map-446f24e8ec4355b7.rlib" "/opt/crater/target/debug/deps/libserde-dd12c9a5c23ee338.rlib" "/opt/crater/target/debug/deps/libtextwrap-98d6d8750638b4d6.rlib" "/opt/crater/target/debug/deps/libunicode_width-70ef077428dd4d3c.rlib" "/opt/crater/target/debug/deps/libstrsim-7aece6a3d121dad3.rlib" "/opt/crater/target/debug/deps/libbitflags-bcd34e8f74846360.rlib" "/opt/crater/target/debug/deps/libatty-eb5da56e70a939cc.rlib" "/opt/crater/target/debug/deps/liblibc-d019039477cac03b.rlib" "/opt/crater/target/debug/deps/libansi_term-ab3d266e25626249.rlib" "-Wl,--start-group" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libstd-4a76ff35a356aedf.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libpanic_unwind-e11c7b3b3225afe2.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libbacktrace-13217ede3d276f16.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libbacktrace_sys-621a9ee22da6caa1.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_demangle-546c844e8071bbeb.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libhashbrown-be9569e4d599746f.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_std_workspace_alloc-47d8845cef2a3bc5.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libunwind-017511bce73a530c.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcfg_if-be7979c57a08057b.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/liblibc-d6459c4f0817c67c.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/liballoc-580035dd98451925.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/librustc_std_workspace_core-aee5c24fff305dea.rlib" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcore-8a55a4098920125a.rlib" "-Wl,--end-group" "/opt/crater/rustup-home/toolchains/1.37.0-x86_64-unknown-linux-gnu/lib/rustlib/x86_64-unknown-linux-gnu/lib/libcompiler_builtins-9fc4b5be2ba5cc19.rlib" "-Wl,-Bdynamic" "-llzma" "-lz" "-lutil" "-lutil" "-ldl" "-lrt" "-lpthread" "-lgcc_s" "-lc" "-lm" "-lrt" "-lpthread" "-lutil" "-lutil" [INFO] [stderr] = note: /opt/crater/target/debug/deps/librgsl-a7f7441cd4a6d0c4.rlib(rgsl-a7f7441cd4a6d0c4.rgsl.cwwin1d1-cgu.11.rcgu.o): In function `rgsl::randist::gaussian::ugaussian_P': [INFO] [stderr] /opt/crater/cargo-home/registry/src/github.com-1ecc6299db9ec823/GSL-1.1.0/src/randist/gaussian.rs:73: undefined reference to `gsl_cdf_ugaussian_P' [INFO] [stderr] /opt/crater/target/debug/deps/librgsl-a7f7441cd4a6d0c4.rlib(rgsl-a7f7441cd4a6d0c4.rgsl.cwwin1d1-cgu.13.rcgu.o): In function `rgsl::randist::binomial::binomial_pdf': [INFO] [stderr] /opt/crater/cargo-home/registry/src/github.com-1ecc6299db9ec823/GSL-1.1.0/src/randist/binomial.rs:19: undefined reference to `gsl_ran_binomial_pdf' [INFO] [stderr] /opt/crater/target/debug/deps/librgsl-a7f7441cd4a6d0c4.rlib(rgsl-a7f7441cd4a6d0c4.rgsl.cwwin1d1-cgu.6.rcgu.o): In function `rgsl::randist::poisson::poisson_pdf': [INFO] [stderr] /opt/crater/cargo-home/registry/src/github.com-1ecc6299db9ec823/GSL-1.1.0/src/randist/poisson.rs:19: undefined reference to `gsl_ran_poisson_pdf' [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 `varlociraptor`. [INFO] [stderr] [INFO] [stderr] To learn more, run the command again with --verbose. [INFO] running `"docker" "inspect" "73bb8861eb61588fc86856c362b7da2f4f6ca7efe438294b6e6333c0d910171c"` [INFO] running `"docker" "rm" "-f" "73bb8861eb61588fc86856c362b7da2f4f6ca7efe438294b6e6333c0d910171c"` [INFO] [stdout] 73bb8861eb61588fc86856c362b7da2f4f6ca7efe438294b6e6333c0d910171c