[INFO] updating cached repository natir/yacrd [INFO] running `"git" "fetch" "--all"` [INFO] [stdout] Fetching origin [INFO] [stderr] From git://github.com/natir/yacrd [INFO] [stderr] * branch HEAD -> FETCH_HEAD [INFO] running `"git" "clone" "work/cache/sources/gh/natir/yacrd" "work/ex/pr-63565/sources/master#c43d03a19f326f4a323569328cc501e86eb6d22e/gh/natir/yacrd"` [INFO] [stderr] Cloning into 'work/ex/pr-63565/sources/master#c43d03a19f326f4a323569328cc501e86eb6d22e/gh/natir/yacrd'... [INFO] [stderr] done. [INFO] running `"git" "clone" "work/cache/sources/gh/natir/yacrd" "work/ex/pr-63565/sources/try#75eff020d0923c035c2fe220db4a0465cd847048/gh/natir/yacrd"` [INFO] [stderr] Cloning into 'work/ex/pr-63565/sources/try#75eff020d0923c035c2fe220db4a0465cd847048/gh/natir/yacrd'... [INFO] [stderr] done. [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] a6169851ec970e35be4b44f8d23e150ef20a41ea [INFO] sha for GitHub repo natir/yacrd: a6169851ec970e35be4b44f8d23e150ef20a41ea [INFO] validating manifest of natir/yacrd on toolchain master#c43d03a19f326f4a323569328cc501e86eb6d22e [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c43d03a19f326f4a323569328cc501e86eb6d22e-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] validating manifest of natir/yacrd on toolchain try#75eff020d0923c035c2fe220db4a0465cd847048 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+75eff020d0923c035c2fe220db4a0465cd847048-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started frobbing natir/yacrd [INFO] finished frobbing natir/yacrd [INFO] frobbed toml for natir/yacrd written to work/ex/pr-63565/sources/master#c43d03a19f326f4a323569328cc501e86eb6d22e/gh/natir/yacrd/Cargo.toml [INFO] started frobbing natir/yacrd [INFO] finished frobbing natir/yacrd [INFO] frobbed toml for natir/yacrd written to work/ex/pr-63565/sources/try#75eff020d0923c035c2fe220db4a0465cd847048/gh/natir/yacrd/Cargo.toml [INFO] crate natir/yacrd already has a lockfile, it will not be regenerated [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+c43d03a19f326f4a323569328cc501e86eb6d22e-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+75eff020d0923c035c2fe220db4a0465cd847048-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] checking natir/yacrd against master#c43d03a19f326f4a323569328cc501e86eb6d22e for pr-63565 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-63565/worker-3/master#c43d03a19f326f4a323569328cc501e86eb6d22e:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/pr-63565/sources/master#c43d03a19f326f4a323569328cc501e86eb6d22e/gh/natir/yacrd:/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=forbid" "-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" "+c43d03a19f326f4a323569328cc501e86eb6d22e-alt" "check" "--frozen" "--all" "--all-targets"` [INFO] [stdout] 39c5f024d783cfd44bc47d5ac913fe697cb75c38d8b07eec171167b10757b198 [INFO] running `"docker" "start" "-a" "39c5f024d783cfd44bc47d5ac913fe697cb75c38d8b07eec171167b10757b198"` [INFO] [stderr] Compiling bzip2-sys v0.1.6 [INFO] [stderr] Checking flate2 v1.0.3 [INFO] [stderr] Checking serde v1.0.79 [INFO] [stderr] Checking xz2 v0.1.5 [INFO] [stderr] Checking bzip2 v0.3.3 [INFO] [stderr] Checking vec_map v0.8.1 [INFO] [stderr] Checking bv v0.7.4 [INFO] [stderr] Checking multimap v0.4.0 [INFO] [stderr] Checking csv v1.0.2 [INFO] [stderr] Checking serde_json v1.0.32 [INFO] [stderr] Checking clap v2.32.0 [INFO] [stderr] Checking bio v0.21.0 [INFO] [stderr] Checking yacrd v0.5.1 (/opt/crater/workdir) [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:45:44 [INFO] [stderr] | [INFO] [stderr] 45 | pub fn get_input(input_name: &str) -> (Box, CompressionFormat) { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [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/file.rs:54:52 [INFO] [stderr] | [INFO] [stderr] 54 | pub fn get_readable_file(input_name: &str) -> (Box, CompressionFormat) { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:78:46 [INFO] [stderr] | [INFO] [stderr] 78 | pub fn get_readable(input_name: &str) -> Box { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:87:39 [INFO] [stderr] | [INFO] [stderr] 87 | fn get_compression(mut in_stream: Box) -> CompressionFormat { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:114:72 [INFO] [stderr] | [INFO] [stderr] 114 | pub fn get_output(output_name: &str, format: CompressionFormat) -> Box { [INFO] [stderr] | ^^^^^^^^^ help: use `dyn`: `dyn io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:148:43 [INFO] [stderr] | [INFO] [stderr] 148 | fn get_writable(output_name: &str) -> Box { [INFO] [stderr] | ^^^^^^^^^ help: use `dyn`: `dyn io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/main.rs:242:33 [INFO] [stderr] | [INFO] [stderr] 242 | let mut inputs: Vec> = Vec::new(); [INFO] [stderr] | ^^^^^^^^^^^^^ help: use `dyn`: `dyn std::io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/main.rs:255:29 [INFO] [stderr] | [INFO] [stderr] 255 | let mut output: Box = file::get_output( [INFO] [stderr] | ^^^^^^^^^^^^^^ help: use `dyn`: `dyn std::io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/main.rs:336:29 [INFO] [stderr] | [INFO] [stderr] 336 | let mut report: Box = file::get_output( [INFO] [stderr] | ^^^^^^^^^^^^^^ help: use `dyn`: `dyn std::io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:45:44 [INFO] [stderr] | [INFO] [stderr] 45 | pub fn get_input(input_name: &str) -> (Box, CompressionFormat) { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [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/file.rs:54:52 [INFO] [stderr] | [INFO] [stderr] 54 | pub fn get_readable_file(input_name: &str) -> (Box, CompressionFormat) { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:78:46 [INFO] [stderr] | [INFO] [stderr] 78 | pub fn get_readable(input_name: &str) -> Box { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:87:39 [INFO] [stderr] | [INFO] [stderr] 87 | fn get_compression(mut in_stream: Box) -> CompressionFormat { [INFO] [stderr] | ^^^^^^^^ help: use `dyn`: `dyn io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:114:72 [INFO] [stderr] | [INFO] [stderr] 114 | pub fn get_output(output_name: &str, format: CompressionFormat) -> Box { [INFO] [stderr] | ^^^^^^^^^ help: use `dyn`: `dyn io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/file.rs:148:43 [INFO] [stderr] | [INFO] [stderr] 148 | fn get_writable(output_name: &str) -> Box { [INFO] [stderr] | ^^^^^^^^^ help: use `dyn`: `dyn io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/main.rs:242:33 [INFO] [stderr] | [INFO] [stderr] 242 | let mut inputs: Vec> = Vec::new(); [INFO] [stderr] | ^^^^^^^^^^^^^ help: use `dyn`: `dyn std::io::Read` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/main.rs:255:29 [INFO] [stderr] | [INFO] [stderr] 255 | let mut output: Box = file::get_output( [INFO] [stderr] | ^^^^^^^^^^^^^^ help: use `dyn`: `dyn std::io::Write` [INFO] [stderr] [INFO] [stderr] warning: trait objects without an explicit `dyn` are deprecated [INFO] [stderr] --> src/main.rs:336:29 [INFO] [stderr] | [INFO] [stderr] 336 | let mut report: Box = file::get_output( [INFO] [stderr] | ^^^^^^^^^^^^^^ help: use `dyn`: `dyn std::io::Write` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/main.rs:322:13 [INFO] [stderr] | [INFO] [stderr] 322 | let mut format = [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] warning: variable does not need to be mutable [INFO] [stderr] --> src/main.rs:325:13 [INFO] [stderr] | [INFO] [stderr] 325 | let mut raw_path = scrubbing_matches.value_of("sequence").unwrap(); [INFO] [stderr] | ----^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/main.rs:326:13 [INFO] [stderr] | [INFO] [stderr] 326 | let mut scrubbed_path = scrubbing_matches.value_of("scrubbed").unwrap(); [INFO] [stderr] | ----^^^^^^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: variant is never constructed: `Check` [INFO] [stderr] --> src/chimera.rs:79:5 [INFO] [stderr] | [INFO] [stderr] 79 | Check, [INFO] [stderr] | ^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `get_sequence_formats` [INFO] [stderr] --> src/utils.rs:56:1 [INFO] [stderr] | [INFO] [stderr] 56 | pub fn get_sequence_formats(matches: &clap::ArgMatches, formats: &mut Vec) { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `get_sequence_format` [INFO] [stderr] --> src/utils.rs:83:1 [INFO] [stderr] | [INFO] [stderr] 83 | pub fn get_sequence_format(filename: &str) -> Option { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/main.rs:322:13 [INFO] [stderr] | [INFO] [stderr] 322 | let mut format = [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] warning: variable does not need to be mutable [INFO] [stderr] --> src/main.rs:325:13 [INFO] [stderr] | [INFO] [stderr] 325 | let mut raw_path = scrubbing_matches.value_of("sequence").unwrap(); [INFO] [stderr] | ----^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: variable does not need to be mutable [INFO] [stderr] --> src/main.rs:326:13 [INFO] [stderr] | [INFO] [stderr] 326 | let mut scrubbed_path = scrubbing_matches.value_of("scrubbed").unwrap(); [INFO] [stderr] | ----^^^^^^^^^^^^^ [INFO] [stderr] | | [INFO] [stderr] | help: remove this `mut` [INFO] [stderr] [INFO] [stderr] warning: variant is never constructed: `Check` [INFO] [stderr] --> src/chimera.rs:79:5 [INFO] [stderr] | [INFO] [stderr] 79 | Check, [INFO] [stderr] | ^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(dead_code)]` on by default [INFO] [stderr] [INFO] [stderr] warning: function is never used: `get_sequence_formats` [INFO] [stderr] --> src/utils.rs:56:1 [INFO] [stderr] | [INFO] [stderr] 56 | pub fn get_sequence_formats(matches: &clap::ArgMatches, formats: &mut Vec) { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: function is never used: `get_sequence_format` [INFO] [stderr] --> src/utils.rs:83:1 [INFO] [stderr] | [INFO] [stderr] 83 | pub fn get_sequence_format(filename: &str) -> Option { [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 34.03s [INFO] running `"docker" "inspect" "39c5f024d783cfd44bc47d5ac913fe697cb75c38d8b07eec171167b10757b198"` [INFO] running `"docker" "rm" "-f" "39c5f024d783cfd44bc47d5ac913fe697cb75c38d8b07eec171167b10757b198"` [INFO] [stdout] 39c5f024d783cfd44bc47d5ac913fe697cb75c38d8b07eec171167b10757b198