Oct 11 04:04:40.894 INFO testing TuBieJun/consensus against master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513 for rustdoc-test-static-cling Oct 11 04:04:40.894 INFO running: cargo +0e07c4281c343e9e15a0a8fca79538ad1a8eb513-alt build --frozen Oct 11 04:04:40.894 INFO running `"docker" "create" "-v" "/mnt/big/crater/./work/local/test-source/worker-4/rustdoc-test-static-cling/master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513:/source:ro,Z" "-v" "/mnt/big/crater/./work/local/target-dirs/rustdoc-test-static-cling/worker-4/master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513:/target:rw,Z" "-v" "/mnt/big/crater/./work/local/cargo-home:/cargo-home:ro,Z" "-v" "/mnt/big/crater/./work/local/rustup-home:/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "CMD=cargo +0e07c4281c343e9e15a0a8fca79538ad1a8eb513-alt build --frozen" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "1536M" "--network" "none" "crater"` Oct 11 04:04:41.409 INFO blam! f85a386174987673ea024bf3e2d94027e69cc209344f25988d132ebf3ec7b98f Oct 11 04:04:41.411 INFO running `"docker" "start" "-a" "f85a386174987673ea024bf3e2d94027e69cc209344f25988d132ebf3ec7b98f"` Oct 11 04:04:43.528 INFO kablam! usermod: no changes Oct 11 04:04:43.749 INFO kablam! Compiling fs-utils v1.0.0 Oct 11 04:04:43.780 INFO kablam! Compiling itertools v0.6.5 Oct 11 04:04:45.324 INFO kablam! Compiling rust-htslib v0.15.0 Oct 11 04:05:16.617 INFO kablam! Compiling consensus v0.1.0 (/source) Oct 11 04:05:19.015 INFO kablam! warning: unused import: `std::env` Oct 11 04:05:19.015 INFO kablam! --> src/main.rs:12:5 Oct 11 04:05:19.015 INFO kablam! | Oct 11 04:05:19.016 INFO kablam! 12 | use std::env; Oct 11 04:05:19.016 INFO kablam! | ^^^^^^^^ Oct 11 04:05:19.016 INFO kablam! | Oct 11 04:05:19.017 INFO kablam! = note: #[warn(unused_imports)] on by default Oct 11 04:05:19.017 INFO kablam! Oct 11 04:05:19.017 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Oct 11 04:05:19.018 INFO kablam! --> src/main.rs:16:5 Oct 11 04:05:19.018 INFO kablam! | Oct 11 04:05:19.018 INFO kablam! 16 | use rust_htslib::prelude::*; Oct 11 04:05:19.018 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.019 INFO kablam! Oct 11 04:05:19.019 INFO kablam! warning: unused import: `std::io` Oct 11 04:05:19.019 INFO kablam! --> src/main.rs:21:5 Oct 11 04:05:19.020 INFO kablam! | Oct 11 04:05:19.020 INFO kablam! 21 | use std::io; Oct 11 04:05:19.020 INFO kablam! | ^^^^^^^ Oct 11 04:05:19.021 INFO kablam! Oct 11 04:05:19.021 INFO kablam! warning: unused import: `PathBuf` Oct 11 04:05:19.021 INFO kablam! --> src/main.rs:25:23 Oct 11 04:05:19.023 INFO kablam! | Oct 11 04:05:19.023 INFO kablam! 25 | use std::path::{Path, PathBuf}; Oct 11 04:05:19.023 INFO kablam! | ^^^^^^^ Oct 11 04:05:19.023 INFO kablam! Oct 11 04:05:19.024 INFO kablam! warning: unused import: `SubCommand` Oct 11 04:05:19.024 INFO kablam! --> src/main.rs:26:22 Oct 11 04:05:19.024 INFO kablam! | Oct 11 04:05:19.025 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Oct 11 04:05:19.025 INFO kablam! | ^^^^^^^^^^ Oct 11 04:05:19.025 INFO kablam! Oct 11 04:05:19.026 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 11 04:05:19.026 INFO kablam! --> src/main.rs:218:20 Oct 11 04:05:19.026 INFO kablam! | Oct 11 04:05:19.026 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Oct 11 04:05:19.027 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 11 04:05:19.028 INFO kablam! | Oct 11 04:05:19.028 INFO kablam! = note: #[warn(unused_parens)] on by default Oct 11 04:05:19.029 INFO kablam! Oct 11 04:05:19.029 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 11 04:05:19.029 INFO kablam! --> src/main.rs:239:16 Oct 11 04:05:19.029 INFO kablam! | Oct 11 04:05:19.030 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Oct 11 04:05:19.030 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 11 04:05:19.030 INFO kablam! Oct 11 04:05:19.180 INFO kablam! warning: unused import: `std::io::prelude` Oct 11 04:05:19.180 INFO kablam! --> src/main.rs:22:5 Oct 11 04:05:19.180 INFO kablam! | Oct 11 04:05:19.180 INFO kablam! 22 | use std::io::prelude::*; Oct 11 04:05:19.180 INFO kablam! | ^^^^^^^^^^^^^^^^ Oct 11 04:05:19.180 INFO kablam! Oct 11 04:05:19.196 INFO kablam! warning: unused variable: `consensus_base` Oct 11 04:05:19.197 INFO kablam! --> src/main.rs:139:9 Oct 11 04:05:19.197 INFO kablam! | Oct 11 04:05:19.197 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Oct 11 04:05:19.197 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Oct 11 04:05:19.197 INFO kablam! | Oct 11 04:05:19.197 INFO kablam! = note: #[warn(unused_variables)] on by default Oct 11 04:05:19.197 INFO kablam! Oct 11 04:05:19.197 INFO kablam! warning: unused variable: `consensus_source_reads` Oct 11 04:05:19.197 INFO kablam! --> src/main.rs:144:13 Oct 11 04:05:19.197 INFO kablam! | Oct 11 04:05:19.197 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 11 04:05:19.197 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Oct 11 04:05:19.197 INFO kablam! Oct 11 04:05:19.197 INFO kablam! warning: unused variable: `chrom` Oct 11 04:05:19.197 INFO kablam! --> src/main.rs:283:121 Oct 11 04:05:19.197 INFO kablam! | Oct 11 04:05:19.197 INFO kablam! 283 | fn block_consensus(pd:& mut HashMap, Vec, Vec, CigarStringView, bool)>>>, chrom: i32, use_check:bool, min_t_s: &u32, min_t_p: &f32, o_r1: & mut File, o_r2: & mut File, need_trim:bool) { Oct 11 04:05:19.197 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Oct 11 04:05:19.197 INFO kablam! Oct 11 04:05:19.197 INFO kablam! warning: value assigned to `new_seq_b` is never read Oct 11 04:05:19.197 INFO kablam! --> src/main.rs:370:21 Oct 11 04:05:19.197 INFO kablam! | Oct 11 04:05:19.197 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Oct 11 04:05:19.197 INFO kablam! | ^^^^^^^^^ Oct 11 04:05:19.197 INFO kablam! | Oct 11 04:05:19.197 INFO kablam! = note: #[warn(unused_assignments)] on by default Oct 11 04:05:19.200 INFO kablam! Oct 11 04:05:19.206 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.206 INFO kablam! --> src/main.rs:74:9 Oct 11 04:05:19.206 INFO kablam! | Oct 11 04:05:19.206 INFO kablam! 74 | let mut pair; Oct 11 04:05:19.206 INFO kablam! | ----^^^^ Oct 11 04:05:19.206 INFO kablam! | | Oct 11 04:05:19.206 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.206 INFO kablam! | Oct 11 04:05:19.206 INFO kablam! = note: #[warn(unused_mut)] on by default Oct 11 04:05:19.206 INFO kablam! Oct 11 04:05:19.206 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.206 INFO kablam! --> src/main.rs:75:9 Oct 11 04:05:19.206 INFO kablam! | Oct 11 04:05:19.206 INFO kablam! 75 | let mut strand; Oct 11 04:05:19.206 INFO kablam! | ----^^^^^^ Oct 11 04:05:19.206 INFO kablam! | | Oct 11 04:05:19.206 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.206 INFO kablam! Oct 11 04:05:19.206 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.206 INFO kablam! --> src/main.rs:76:9 Oct 11 04:05:19.206 INFO kablam! | Oct 11 04:05:19.206 INFO kablam! 76 | let mut aln_pos; Oct 11 04:05:19.206 INFO kablam! | ----^^^^^^^ Oct 11 04:05:19.206 INFO kablam! | | Oct 11 04:05:19.206 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.206 INFO kablam! Oct 11 04:05:19.232 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.232 INFO kablam! --> src/main.rs:144:9 Oct 11 04:05:19.232 INFO kablam! | Oct 11 04:05:19.232 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 11 04:05:19.232 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.232 INFO kablam! | | Oct 11 04:05:19.232 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.232 INFO kablam! Oct 11 04:05:19.232 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.232 INFO kablam! --> src/main.rs:151:9 Oct 11 04:05:19.232 INFO kablam! | Oct 11 04:05:19.232 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Oct 11 04:05:19.232 INFO kablam! | ----^^^^^^^^^ Oct 11 04:05:19.233 INFO kablam! | | Oct 11 04:05:19.233 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.233 INFO kablam! Oct 11 04:05:19.248 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.248 INFO kablam! --> src/main.rs:338:9 Oct 11 04:05:19.248 INFO kablam! | Oct 11 04:05:19.248 INFO kablam! 338 | let mut need_trim:bool; Oct 11 04:05:19.248 INFO kablam! | ----^^^^^^^^^ Oct 11 04:05:19.248 INFO kablam! | | Oct 11 04:05:19.248 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.248 INFO kablam! Oct 11 04:05:19.248 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:19.248 INFO kablam! --> src/main.rs:355:9 Oct 11 04:05:19.248 INFO kablam! | Oct 11 04:05:19.248 INFO kablam! 355 | let mut chrom = 0; Oct 11 04:05:19.248 INFO kablam! | ----^^^^^ Oct 11 04:05:19.248 INFO kablam! | | Oct 11 04:05:19.248 INFO kablam! | help: remove this `mut` Oct 11 04:05:19.248 INFO kablam! Oct 11 04:05:19.263 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Oct 11 04:05:19.263 INFO kablam! --> src/main.rs:68:1 Oct 11 04:05:19.263 INFO kablam! | Oct 11 04:05:19.263 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Oct 11 04:05:19.263 INFO kablam! 69 | | Oct 11 04:05:19.263 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Oct 11 04:05:19.263 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Oct 11 04:05:19.263 INFO kablam! ... | Oct 11 04:05:19.263 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Oct 11 04:05:19.263 INFO kablam! 98 | | } Oct 11 04:05:19.263 INFO kablam! | |_^ Oct 11 04:05:19.263 INFO kablam! | Oct 11 04:05:19.263 INFO kablam! = note: #[warn(non_snake_case)] on by default Oct 11 04:05:19.263 INFO kablam! Oct 11 04:05:19.263 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Oct 11 04:05:19.263 INFO kablam! --> src/main.rs:147:9 Oct 11 04:05:19.263 INFO kablam! | Oct 11 04:05:19.263 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Oct 11 04:05:19.263 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.263 INFO kablam! Oct 11 04:05:19.263 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Oct 11 04:05:19.263 INFO kablam! --> src/main.rs:148:9 Oct 11 04:05:19.263 INFO kablam! | Oct 11 04:05:19.263 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Oct 11 04:05:19.263 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.263 INFO kablam! Oct 11 04:05:19.263 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:19.263 INFO kablam! --> src/main.rs:267:9 Oct 11 04:05:19.263 INFO kablam! | Oct 11 04:05:19.263 INFO kablam! 267 | o_buff.write(&member_record.2); Oct 11 04:05:19.263 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.263 INFO kablam! | Oct 11 04:05:19.263 INFO kablam! = note: #[warn(unused_must_use)] on by default Oct 11 04:05:19.264 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:269:9 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 269 | o_buff.write(&member_record.0); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:272:9 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 272 | o_buff.write(&real_qual_temp); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:274:5 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 274 | o_buff.write(b"\n"); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:277:5 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 277 | o_buff.write(b"\n"); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:280:5 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 280 | o_buff.write(b"\n"); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:286:10 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:357:9 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:19.264 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 11 04:05:19.264 INFO kablam! --> src/main.rs:387:17 Oct 11 04:05:19.264 INFO kablam! | Oct 11 04:05:19.264 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Oct 11 04:05:19.264 INFO kablam! | ^^^^^^^^^^^^ Oct 11 04:05:19.264 INFO kablam! Oct 11 04:05:22.741 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 39.17s Oct 11 04:05:22.745 INFO kablam! su: No module specific data is present Oct 11 04:05:23.320 INFO running `"docker" "rm" "-f" "f85a386174987673ea024bf3e2d94027e69cc209344f25988d132ebf3ec7b98f"` Oct 11 04:05:23.612 INFO blam! f85a386174987673ea024bf3e2d94027e69cc209344f25988d132ebf3ec7b98f Oct 11 04:05:23.618 INFO running: cargo +0e07c4281c343e9e15a0a8fca79538ad1a8eb513-alt test --frozen --no-run Oct 11 04:05:23.620 INFO running `"docker" "create" "-v" "/mnt/big/crater/./work/local/test-source/worker-4/rustdoc-test-static-cling/master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513:/source:ro,Z" "-v" "/mnt/big/crater/./work/local/target-dirs/rustdoc-test-static-cling/worker-4/master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513:/target:rw,Z" "-v" "/mnt/big/crater/./work/local/cargo-home:/cargo-home:ro,Z" "-v" "/mnt/big/crater/./work/local/rustup-home:/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "CMD=cargo +0e07c4281c343e9e15a0a8fca79538ad1a8eb513-alt test --frozen --no-run" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "1536M" "--network" "none" "crater"` Oct 11 04:05:24.161 INFO blam! 95bd40f00a0f0d0b7bf1c77366fc9a3389b83391bf37400aad59d3245c1974f2 Oct 11 04:05:24.161 INFO running `"docker" "start" "-a" "95bd40f00a0f0d0b7bf1c77366fc9a3389b83391bf37400aad59d3245c1974f2"` Oct 11 04:05:25.332 INFO kablam! usermod: no changes Oct 11 04:05:25.440 INFO kablam! Compiling consensus v0.1.0 (/source) Oct 11 04:05:27.729 INFO kablam! warning: unused import: `std::env` Oct 11 04:05:27.730 INFO kablam! --> src/main.rs:12:5 Oct 11 04:05:27.730 INFO kablam! | Oct 11 04:05:27.730 INFO kablam! 12 | use std::env; Oct 11 04:05:27.730 INFO kablam! | ^^^^^^^^ Oct 11 04:05:27.731 INFO kablam! | Oct 11 04:05:27.731 INFO kablam! = note: #[warn(unused_imports)] on by default Oct 11 04:05:27.732 INFO kablam! Oct 11 04:05:27.732 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Oct 11 04:05:27.732 INFO kablam! --> src/main.rs:16:5 Oct 11 04:05:27.733 INFO kablam! | Oct 11 04:05:27.733 INFO kablam! 16 | use rust_htslib::prelude::*; Oct 11 04:05:27.733 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.733 INFO kablam! Oct 11 04:05:27.734 INFO kablam! warning: unused import: `std::io` Oct 11 04:05:27.734 INFO kablam! --> src/main.rs:21:5 Oct 11 04:05:27.734 INFO kablam! | Oct 11 04:05:27.735 INFO kablam! 21 | use std::io; Oct 11 04:05:27.735 INFO kablam! | ^^^^^^^ Oct 11 04:05:27.735 INFO kablam! Oct 11 04:05:27.735 INFO kablam! warning: unused import: `PathBuf` Oct 11 04:05:27.736 INFO kablam! --> src/main.rs:25:23 Oct 11 04:05:27.736 INFO kablam! | Oct 11 04:05:27.736 INFO kablam! 25 | use std::path::{Path, PathBuf}; Oct 11 04:05:27.736 INFO kablam! | ^^^^^^^ Oct 11 04:05:27.737 INFO kablam! Oct 11 04:05:27.737 INFO kablam! warning: unused import: `SubCommand` Oct 11 04:05:27.737 INFO kablam! --> src/main.rs:26:22 Oct 11 04:05:27.738 INFO kablam! | Oct 11 04:05:27.738 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Oct 11 04:05:27.738 INFO kablam! | ^^^^^^^^^^ Oct 11 04:05:27.738 INFO kablam! Oct 11 04:05:27.739 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 11 04:05:27.739 INFO kablam! --> src/main.rs:218:20 Oct 11 04:05:27.739 INFO kablam! | Oct 11 04:05:27.739 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Oct 11 04:05:27.740 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 11 04:05:27.740 INFO kablam! | Oct 11 04:05:27.740 INFO kablam! = note: #[warn(unused_parens)] on by default Oct 11 04:05:27.741 INFO kablam! Oct 11 04:05:27.741 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 11 04:05:27.741 INFO kablam! --> src/main.rs:239:16 Oct 11 04:05:27.741 INFO kablam! | Oct 11 04:05:27.742 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Oct 11 04:05:27.742 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 11 04:05:27.742 INFO kablam! Oct 11 04:05:27.863 INFO kablam! warning: unused import: `std::io::prelude` Oct 11 04:05:27.864 INFO kablam! --> src/main.rs:22:5 Oct 11 04:05:27.864 INFO kablam! | Oct 11 04:05:27.864 INFO kablam! 22 | use std::io::prelude::*; Oct 11 04:05:27.865 INFO kablam! | ^^^^^^^^^^^^^^^^ Oct 11 04:05:27.865 INFO kablam! Oct 11 04:05:27.878 INFO kablam! warning: unused variable: `consensus_base` Oct 11 04:05:27.878 INFO kablam! --> src/main.rs:139:9 Oct 11 04:05:27.879 INFO kablam! | Oct 11 04:05:27.879 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Oct 11 04:05:27.879 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Oct 11 04:05:27.880 INFO kablam! | Oct 11 04:05:27.880 INFO kablam! = note: #[warn(unused_variables)] on by default Oct 11 04:05:27.880 INFO kablam! Oct 11 04:05:27.880 INFO kablam! warning: unused variable: `consensus_source_reads` Oct 11 04:05:27.880 INFO kablam! --> src/main.rs:144:13 Oct 11 04:05:27.880 INFO kablam! | Oct 11 04:05:27.880 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 11 04:05:27.880 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Oct 11 04:05:27.880 INFO kablam! Oct 11 04:05:27.880 INFO kablam! warning: unused variable: `chrom` Oct 11 04:05:27.880 INFO kablam! --> src/main.rs:283:121 Oct 11 04:05:27.880 INFO kablam! | Oct 11 04:05:27.880 INFO kablam! 283 | fn block_consensus(pd:& mut HashMap, Vec, Vec, CigarStringView, bool)>>>, chrom: i32, use_check:bool, min_t_s: &u32, min_t_p: &f32, o_r1: & mut File, o_r2: & mut File, need_trim:bool) { Oct 11 04:05:27.880 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Oct 11 04:05:27.880 INFO kablam! Oct 11 04:05:27.880 INFO kablam! warning: value assigned to `new_seq_b` is never read Oct 11 04:05:27.880 INFO kablam! --> src/main.rs:370:21 Oct 11 04:05:27.880 INFO kablam! | Oct 11 04:05:27.880 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Oct 11 04:05:27.880 INFO kablam! | ^^^^^^^^^ Oct 11 04:05:27.880 INFO kablam! | Oct 11 04:05:27.880 INFO kablam! = note: #[warn(unused_assignments)] on by default Oct 11 04:05:27.880 INFO kablam! Oct 11 04:05:27.884 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.884 INFO kablam! --> src/main.rs:74:9 Oct 11 04:05:27.884 INFO kablam! | Oct 11 04:05:27.884 INFO kablam! 74 | let mut pair; Oct 11 04:05:27.884 INFO kablam! | ----^^^^ Oct 11 04:05:27.884 INFO kablam! | | Oct 11 04:05:27.884 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.884 INFO kablam! | Oct 11 04:05:27.884 INFO kablam! = note: #[warn(unused_mut)] on by default Oct 11 04:05:27.884 INFO kablam! Oct 11 04:05:27.884 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.884 INFO kablam! --> src/main.rs:75:9 Oct 11 04:05:27.884 INFO kablam! | Oct 11 04:05:27.884 INFO kablam! 75 | let mut strand; Oct 11 04:05:27.884 INFO kablam! | ----^^^^^^ Oct 11 04:05:27.884 INFO kablam! | | Oct 11 04:05:27.884 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.884 INFO kablam! Oct 11 04:05:27.884 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.884 INFO kablam! --> src/main.rs:76:9 Oct 11 04:05:27.884 INFO kablam! | Oct 11 04:05:27.884 INFO kablam! 76 | let mut aln_pos; Oct 11 04:05:27.884 INFO kablam! | ----^^^^^^^ Oct 11 04:05:27.884 INFO kablam! | | Oct 11 04:05:27.884 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.884 INFO kablam! Oct 11 04:05:27.913 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.913 INFO kablam! --> src/main.rs:144:9 Oct 11 04:05:27.913 INFO kablam! | Oct 11 04:05:27.913 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 11 04:05:27.913 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.913 INFO kablam! | | Oct 11 04:05:27.913 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.913 INFO kablam! Oct 11 04:05:27.913 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.913 INFO kablam! --> src/main.rs:151:9 Oct 11 04:05:27.913 INFO kablam! | Oct 11 04:05:27.913 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Oct 11 04:05:27.913 INFO kablam! | ----^^^^^^^^^ Oct 11 04:05:27.913 INFO kablam! | | Oct 11 04:05:27.913 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.913 INFO kablam! Oct 11 04:05:27.932 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.932 INFO kablam! --> src/main.rs:338:9 Oct 11 04:05:27.932 INFO kablam! | Oct 11 04:05:27.932 INFO kablam! 338 | let mut need_trim:bool; Oct 11 04:05:27.932 INFO kablam! | ----^^^^^^^^^ Oct 11 04:05:27.932 INFO kablam! | | Oct 11 04:05:27.932 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.932 INFO kablam! Oct 11 04:05:27.932 INFO kablam! warning: variable does not need to be mutable Oct 11 04:05:27.932 INFO kablam! --> src/main.rs:355:9 Oct 11 04:05:27.932 INFO kablam! | Oct 11 04:05:27.932 INFO kablam! 355 | let mut chrom = 0; Oct 11 04:05:27.932 INFO kablam! | ----^^^^^ Oct 11 04:05:27.932 INFO kablam! | | Oct 11 04:05:27.932 INFO kablam! | help: remove this `mut` Oct 11 04:05:27.932 INFO kablam! Oct 11 04:05:27.941 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Oct 11 04:05:27.941 INFO kablam! --> src/main.rs:68:1 Oct 11 04:05:27.941 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Oct 11 04:05:27.942 INFO kablam! 69 | | Oct 11 04:05:27.942 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Oct 11 04:05:27.942 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Oct 11 04:05:27.942 INFO kablam! ... | Oct 11 04:05:27.942 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Oct 11 04:05:27.942 INFO kablam! 98 | | } Oct 11 04:05:27.942 INFO kablam! | |_^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: #[warn(non_snake_case)] on by default Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:147:9 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:148:9 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:267:9 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 267 | o_buff.write(&member_record.2); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: #[warn(unused_must_use)] on by default Oct 11 04:05:27.942 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:269:9 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 269 | o_buff.write(&member_record.0); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:272:9 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 272 | o_buff.write(&real_qual_temp); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:274:5 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 274 | o_buff.write(b"\n"); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:277:5 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 277 | o_buff.write(b"\n"); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: unused `std::result::Result` which must be used Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:280:5 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 280 | o_buff.write(b"\n"); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:286:10 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:357:9 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:27.942 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 11 04:05:27.942 INFO kablam! --> src/main.rs:387:17 Oct 11 04:05:27.942 INFO kablam! | Oct 11 04:05:27.942 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Oct 11 04:05:27.942 INFO kablam! | ^^^^^^^^^^^^ Oct 11 04:05:27.942 INFO kablam! Oct 11 04:05:28.568 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 3.20s Oct 11 04:05:28.572 INFO kablam! su: No module specific data is present Oct 11 04:05:29.505 INFO running `"docker" "rm" "-f" "95bd40f00a0f0d0b7bf1c77366fc9a3389b83391bf37400aad59d3245c1974f2"` Oct 11 04:05:29.849 INFO blam! 95bd40f00a0f0d0b7bf1c77366fc9a3389b83391bf37400aad59d3245c1974f2 Oct 11 04:05:29.856 INFO running: cargo +0e07c4281c343e9e15a0a8fca79538ad1a8eb513-alt test --frozen Oct 11 04:05:29.856 INFO running `"docker" "create" "-v" "/mnt/big/crater/./work/local/test-source/worker-4/rustdoc-test-static-cling/master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513:/source:ro,Z" "-v" "/mnt/big/crater/./work/local/target-dirs/rustdoc-test-static-cling/worker-4/master#0e07c4281c343e9e15a0a8fca79538ad1a8eb513:/target:rw,Z" "-v" "/mnt/big/crater/./work/local/cargo-home:/cargo-home:ro,Z" "-v" "/mnt/big/crater/./work/local/rustup-home:/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "CMD=cargo +0e07c4281c343e9e15a0a8fca79538ad1a8eb513-alt test --frozen" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "1536M" "--network" "none" "crater"` Oct 11 04:05:30.246 INFO blam! 9c9aea75f17be9e3acfa46a52f8799b60f22afdbb4926236541063fdb55f5e24 Oct 11 04:05:30.250 INFO running `"docker" "start" "-a" "9c9aea75f17be9e3acfa46a52f8799b60f22afdbb4926236541063fdb55f5e24"` Oct 11 04:05:31.646 INFO kablam! usermod: no changes Oct 11 04:05:31.799 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 0.12s Oct 11 04:05:31.799 INFO kablam! Running /target/debug/deps/consensus-1677fbd2a93528e3 Oct 11 04:05:31.806 INFO blam! Oct 11 04:05:31.806 INFO blam! running 0 tests Oct 11 04:05:31.806 INFO blam! Oct 11 04:05:31.806 INFO blam! test result: ok. 0 passed; 0 failed; 0 ignored; 0 measured; 0 filtered out Oct 11 04:05:31.806 INFO blam! Oct 11 04:05:31.816 INFO kablam! su: No module specific data is present Oct 11 04:05:33.002 INFO running `"docker" "rm" "-f" "9c9aea75f17be9e3acfa46a52f8799b60f22afdbb4926236541063fdb55f5e24"` Oct 11 04:05:33.306 INFO blam! 9c9aea75f17be9e3acfa46a52f8799b60f22afdbb4926236541063fdb55f5e24