[INFO] updating cached repository mal2017/tcq [INFO] running `"git" "fetch" "--all"` [INFO] [stdout] Fetching origin [INFO] [stderr] From git://github.com/mal2017/tcq [INFO] [stderr] * branch HEAD -> FETCH_HEAD [INFO] running `"git" "clone" "work/cache/sources/gh/mal2017/tcq" "work/ex/pr-62849/sources/master#435236b8877cdb98c82eaebfb7887782277265c5/gh/mal2017/tcq"` [INFO] [stderr] Cloning into 'work/ex/pr-62849/sources/master#435236b8877cdb98c82eaebfb7887782277265c5/gh/mal2017/tcq'... [INFO] [stderr] done. [INFO] running `"git" "clone" "work/cache/sources/gh/mal2017/tcq" "work/ex/pr-62849/sources/try#b5c7f157c20453dde8d47371abe73b32351b4e7f/gh/mal2017/tcq"` [INFO] [stderr] Cloning into 'work/ex/pr-62849/sources/try#b5c7f157c20453dde8d47371abe73b32351b4e7f/gh/mal2017/tcq'... [INFO] [stderr] done. [INFO] running `"git" "rev-parse" "HEAD"` [INFO] [stdout] 8f1d6f947f2d7e33eec738ba82cec4875b4e4f4f [INFO] sha for GitHub repo mal2017/tcq: 8f1d6f947f2d7e33eec738ba82cec4875b4e4f4f [INFO] validating manifest of mal2017/tcq on toolchain master#435236b8877cdb98c82eaebfb7887782277265c5 [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+435236b8877cdb98c82eaebfb7887782277265c5-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] validating manifest of mal2017/tcq on toolchain try#b5c7f157c20453dde8d47371abe73b32351b4e7f [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+b5c7f157c20453dde8d47371abe73b32351b4e7f-alt" "read-manifest" "--manifest-path" "Cargo.toml"` [INFO] started frobbing mal2017/tcq [INFO] finished frobbing mal2017/tcq [INFO] frobbed toml for mal2017/tcq written to work/ex/pr-62849/sources/master#435236b8877cdb98c82eaebfb7887782277265c5/gh/mal2017/tcq/Cargo.toml [INFO] started frobbing mal2017/tcq [INFO] finished frobbing mal2017/tcq [INFO] frobbed toml for mal2017/tcq written to work/ex/pr-62849/sources/try#b5c7f157c20453dde8d47371abe73b32351b4e7f/gh/mal2017/tcq/Cargo.toml [INFO] crate mal2017/tcq already has a lockfile, it will not be regenerated [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+435236b8877cdb98c82eaebfb7887782277265c5-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] running `"/mnt/big/crater/work/local/cargo-home/bin/cargo" "+b5c7f157c20453dde8d47371abe73b32351b4e7f-alt" "fetch" "--locked" "--manifest-path" "Cargo.toml"` [INFO] checking mal2017/tcq against try#b5c7f157c20453dde8d47371abe73b32351b4e7f for pr-62849 [INFO] running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-62849/worker-4/try#b5c7f157c20453dde8d47371abe73b32351b4e7f:/opt/crater/target:rw,Z" "-v" "/mnt/big/crater/work/ex/pr-62849/sources/try#b5c7f157c20453dde8d47371abe73b32351b4e7f/gh/mal2017/tcq:/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" "+b5c7f157c20453dde8d47371abe73b32351b4e7f-alt" "check" "--frozen" "--all" "--all-targets"` [INFO] [stdout] ec47c69454c790b788a9ce4ef258e62ece9da9d6f439b66a3b23d66568495406 [INFO] running `"docker" "start" "-a" "ec47c69454c790b788a9ce4ef258e62ece9da9d6f439b66a3b23d66568495406"` [INFO] [stderr] Compiling bindgen v0.49.0 [INFO] [stderr] Compiling ndarray v0.11.2 [INFO] [stderr] Compiling bzip2-sys v0.1.7 [INFO] [stderr] Compiling fs-utils v1.1.0 [INFO] [stderr] Compiling lzma-sys v0.1.14 [INFO] [stderr] Checking itertools v0.6.5 [INFO] [stderr] Compiling libz-sys v1.0.25 [INFO] [stderr] Compiling memchr v2.2.0 [INFO] [stderr] Compiling atty v0.2.11 [INFO] [stderr] Checking termios v0.3.1 [INFO] [stderr] Checking clicolors-control v1.0.0 [INFO] [stderr] Compiling libloading v0.5.0 [INFO] [stderr] Compiling hashbrown v0.1.8 [INFO] [stderr] Compiling backtrace v0.3.15 [INFO] [stderr] Compiling aho-corasick v0.7.3 [INFO] [stderr] Compiling nom v4.2.3 [INFO] [stderr] Compiling serde v1.0.90 [INFO] [stderr] Checking env_logger v0.5.13 [INFO] [stderr] Compiling clang-sys v0.28.0 [INFO] [stderr] Checking bio-types v0.5.1 [INFO] [stderr] Checking multimap v0.4.0 [INFO] [stderr] Checking serde_json v1.0.39 [INFO] [stderr] Checking csv v1.0.7 [INFO] [stderr] Checking bv v0.10.0 [INFO] [stderr] Checking vec_map v0.8.1 [INFO] [stderr] Checking console v0.7.5 [INFO] [stderr] Compiling failure v0.1.5 [INFO] [stderr] Compiling regex v1.1.6 [INFO] [stderr] Compiling cexpr v0.3.5 [INFO] [stderr] Checking clap v2.32.0 [INFO] [stderr] Checking tinytemplate v1.0.1 [INFO] [stderr] Compiling which v2.0.1 [INFO] [stderr] Checking indicatif v0.11.0 [INFO] [stderr] Checking bio v0.25.0 [INFO] [stderr] Compiling env_logger v0.6.1 [INFO] [stderr] Checking criterion v0.2.11 [INFO] [stderr] Compiling rust-htslib v0.22.1-alpha.0 (https://github.com/rust-bio/rust-htslib.git?rev=6a93aa473077c08aa52be0c2a89f1ee9d1c27609#6a93aa47) [INFO] [stderr] Checking tcq v0.5.0-alpha.1 (/opt/crater/workdir) [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:100:29 [INFO] [stderr] | [INFO] [stderr] 100 | rpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:101:29 [INFO] [stderr] | [INFO] [stderr] 101 | qpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:105:29 [INFO] [stderr] | [INFO] [stderr] 105 | qpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:108:33 [INFO] [stderr] | [INFO] [stderr] 108 | rpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:112:29 [INFO] [stderr] | [INFO] [stderr] 112 | qpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:116:29 [INFO] [stderr] | [INFO] [stderr] 116 | rpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:100:29 [INFO] [stderr] | [INFO] [stderr] 100 | rpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_parens)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:101:29 [INFO] [stderr] | [INFO] [stderr] 101 | qpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:105:29 [INFO] [stderr] | [INFO] [stderr] 105 | qpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:108:33 [INFO] [stderr] | [INFO] [stderr] 108 | rpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:112:29 [INFO] [stderr] | [INFO] [stderr] 112 | qpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unnecessary parentheses around assigned value [INFO] [stderr] --> src/spliced_read_utils.rs:116:29 [INFO] [stderr] | [INFO] [stderr] 116 | rpos += (l as i32); [INFO] [stderr] | ^^^^^^^^^^ help: remove these parentheses [INFO] [stderr] [INFO] [stderr] warning: unused variable: `is_r1` [INFO] [stderr] --> src/handler.rs:156:13 [INFO] [stderr] | [INFO] [stderr] 156 | let is_r1 = self.is_first_in_template() || !(self.is_paired()); [INFO] [stderr] | ^^^^^ help: consider prefixing with an underscore: `_is_r1` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: static variable `foo_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:53:24 [INFO] [stderr] | [INFO] [stderr] 53 | static ref foo_re: Regex = Regex::new(r"A").unwrap(); [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper case: `FOO_RE` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(non_upper_case_globals)]` on by default [INFO] [stderr] [INFO] [stderr] warning: static variable `bar_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:54:24 [INFO] [stderr] | [INFO] [stderr] 54 | static ref bar_re: Regex = Regex::new(r"T").unwrap(); [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper case: `BAR_RE` [INFO] [stderr] [INFO] [stderr] warning: static variable `forward_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:82:24 [INFO] [stderr] | [INFO] [stderr] 82 | static ref forward_re: Regex = Regex::new(r"T").unwrap(); [INFO] [stderr] | ^^^^^^^^^^ help: convert the identifier to upper case: `FORWARD_RE` [INFO] [stderr] [INFO] [stderr] warning: static variable `reverse_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:83:24 [INFO] [stderr] | [INFO] [stderr] 83 | static ref reverse_re: Regex = Regex::new(r"A").unwrap(); [INFO] [stderr] | ^^^^^^^^^^ help: convert the identifier to upper case: `REVERSE_RE` [INFO] [stderr] [INFO] [stderr] warning: static variable `re_perf` should have an upper case name [INFO] [stderr] --> src/expander.rs:13:20 [INFO] [stderr] | [INFO] [stderr] 13 | static ref re_perf: Regex = Regex::new(r"\d+").unwrap(); [INFO] [stderr] | ^^^^^^^ help: convert the identifier to upper case: `RE_PERF` [INFO] [stderr] [INFO] [stderr] warning: static variable `re_del` should have an upper case name [INFO] [stderr] --> src/expander.rs:45:20 [INFO] [stderr] | [INFO] [stderr] 45 | static ref re_del: Regex = Regex::new(r"\^\D+").unwrap(); [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper case: `RE_DEL` [INFO] [stderr] [INFO] [stderr] warning: unused variable: `is_r1` [INFO] [stderr] --> src/handler.rs:156:13 [INFO] [stderr] | [INFO] [stderr] 156 | let is_r1 = self.is_first_in_template() || !(self.is_paired()); [INFO] [stderr] | ^^^^^ help: consider prefixing with an underscore: `_is_r1` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: static variable `foo_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:53:24 [INFO] [stderr] | [INFO] [stderr] 53 | static ref foo_re: Regex = Regex::new(r"A").unwrap(); [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper case: `FOO_RE` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(non_upper_case_globals)]` on by default [INFO] [stderr] [INFO] [stderr] warning: static variable `bar_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:54:24 [INFO] [stderr] | [INFO] [stderr] 54 | static ref bar_re: Regex = Regex::new(r"T").unwrap(); [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper case: `BAR_RE` [INFO] [stderr] [INFO] [stderr] warning: static variable `forward_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:82:24 [INFO] [stderr] | [INFO] [stderr] 82 | static ref forward_re: Regex = Regex::new(r"T").unwrap(); [INFO] [stderr] | ^^^^^^^^^^ help: convert the identifier to upper case: `FORWARD_RE` [INFO] [stderr] [INFO] [stderr] warning: static variable `reverse_re` should have an upper case name [INFO] [stderr] --> src/handler.rs:83:24 [INFO] [stderr] | [INFO] [stderr] 83 | static ref reverse_re: Regex = Regex::new(r"A").unwrap(); [INFO] [stderr] | ^^^^^^^^^^ help: convert the identifier to upper case: `REVERSE_RE` [INFO] [stderr] [INFO] [stderr] warning: static variable `re_perf` should have an upper case name [INFO] [stderr] --> src/expander.rs:13:20 [INFO] [stderr] | [INFO] [stderr] 13 | static ref re_perf: Regex = Regex::new(r"\d+").unwrap(); [INFO] [stderr] | ^^^^^^^ help: convert the identifier to upper case: `RE_PERF` [INFO] [stderr] [INFO] [stderr] warning: static variable `re_del` should have an upper case name [INFO] [stderr] --> src/expander.rs:45:20 [INFO] [stderr] | [INFO] [stderr] 45 | static ref re_del: Regex = Regex::new(r"\^\D+").unwrap(); [INFO] [stderr] | ^^^^^^ help: convert the identifier to upper case: `RE_DEL` [INFO] [stderr] [INFO] [stderr] warning: unused import: `ArgGroup` [INFO] [stderr] --> src/main.rs:15:26 [INFO] [stderr] | [INFO] [stderr] 15 | use clap::{App, Arg, ArgGroup}; [INFO] [stderr] | ^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused import: `tcq::handler` [INFO] [stderr] --> src/main.rs:16:9 [INFO] [stderr] | [INFO] [stderr] 16 | use tcq::handler; [INFO] [stderr] | ^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `ArgGroup` [INFO] [stderr] --> src/main.rs:15:26 [INFO] [stderr] | [INFO] [stderr] 15 | use clap::{App, Arg, ArgGroup}; [INFO] [stderr] | ^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused import: `tcq::handler` [INFO] [stderr] --> src/main.rs:16:9 [INFO] [stderr] | [INFO] [stderr] 16 | use tcq::handler; [INFO] [stderr] | ^^^^^^^^^^^^ [INFO] [stderr] [INFO] [stderr] warning: unused import: `criterion::black_box` [INFO] [stderr] --> benches/tcq_benches.rs:7:5 [INFO] [stderr] | [INFO] [stderr] 7 | use criterion::black_box; [INFO] [stderr] | ^^^^^^^^^^^^^^^^^^^^ [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_imports)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `bampath` [INFO] [stderr] --> benches/tcq_benches.rs:25:9 [INFO] [stderr] | [INFO] [stderr] 25 | let bampath = Path::new("test/insertion_forward.r1s.myc.bam"); [INFO] [stderr] | ^^^^^^^ help: consider prefixing with an underscore: `_bampath` [INFO] [stderr] | [INFO] [stderr] = note: `#[warn(unused_variables)]` on by default [INFO] [stderr] [INFO] [stderr] warning: unused variable: `tcc` [INFO] [stderr] --> benches/tcq_benches.rs:32:9 [INFO] [stderr] | [INFO] [stderr] 32 | let tcc: Vec = bam [INFO] [stderr] | ^^^ help: consider prefixing with an underscore: `_tcc` [INFO] [stderr] [INFO] [stderr] Finished dev [unoptimized + debuginfo] target(s) in 2m 38s [INFO] running `"docker" "inspect" "ec47c69454c790b788a9ce4ef258e62ece9da9d6f439b66a3b23d66568495406"` [INFO] running `"docker" "rm" "-f" "ec47c69454c790b788a9ce4ef258e62ece9da9d6f439b66a3b23d66568495406"` [INFO] [stdout] ec47c69454c790b788a9ce4ef258e62ece9da9d6f439b66a3b23d66568495406