Nov 09 17:33:11.618 INFO checking TuBieJun/consensus against master#653da4fd006c97625247acd7e076d0782cdc149b for pr-55632 Nov 09 17:33:11.620 INFO running `"docker" "create" "-v" "/mnt/big/crater/work/local/target-dirs/pr-55632/worker-5/master#653da4fd006c97625247acd7e076d0782cdc149b:/target:rw,Z" "-v" "/mnt/big/crater/work/local/test-source/worker-5/pr-55632/master#653da4fd006c97625247acd7e076d0782cdc149b:/source:ro,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" "SOURCE_DIR=/source" "-e" "USER_ID=1000" "-e" "CMD=cargo +653da4fd006c97625247acd7e076d0782cdc149b-alt check --frozen --all --all-targets" "-e" "CARGO_TARGET_DIR=/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/cargo-home" "-e" "RUSTUP_HOME=/rustup-home" "-m" "1536M" "--network" "none" "crater"` Nov 09 17:33:12.192 INFO blam! fc07cd0cafd01392e17351465830c48054d134adf8b9daa900baf6ab706981cd Nov 09 17:33:12.195 INFO running `"docker" "start" "-a" "fc07cd0cafd01392e17351465830c48054d134adf8b9daa900baf6ab706981cd"` Nov 09 17:33:13.943 INFO kablam! usermod: no changes Nov 09 17:33:14.152 INFO kablam! Checking ieee754 v0.2.2 Nov 09 17:33:14.159 INFO kablam! Compiling fs-utils v1.0.0 Nov 09 17:33:15.537 INFO kablam! Compiling rust-htslib v0.15.0 Nov 09 17:33:44.453 INFO kablam! Checking consensus v0.1.0 (/source) Nov 09 17:33:46.815 INFO kablam! warning: unused import: `std::env` Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:12:5 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 12 | use std::env; Nov 09 17:33:46.815 INFO kablam! | ^^^^^^^^ Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! = note: #[warn(unused_imports)] on by default Nov 09 17:33:46.815 INFO kablam! Nov 09 17:33:46.815 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:16:5 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 16 | use rust_htslib::prelude::*; Nov 09 17:33:46.815 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:46.815 INFO kablam! Nov 09 17:33:46.815 INFO kablam! warning: unused import: `std::io` Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:21:5 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 21 | use std::io; Nov 09 17:33:46.815 INFO kablam! | ^^^^^^^ Nov 09 17:33:46.815 INFO kablam! Nov 09 17:33:46.815 INFO kablam! warning: unused import: `PathBuf` Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:25:23 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 25 | use std::path::{Path, PathBuf}; Nov 09 17:33:46.815 INFO kablam! | ^^^^^^^ Nov 09 17:33:46.815 INFO kablam! Nov 09 17:33:46.815 INFO kablam! warning: unused import: `SubCommand` Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:26:22 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Nov 09 17:33:46.815 INFO kablam! | ^^^^^^^^^^ Nov 09 17:33:46.815 INFO kablam! Nov 09 17:33:46.815 INFO kablam! warning: unnecessary parentheses around `if` condition Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:218:20 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Nov 09 17:33:46.815 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! = note: #[warn(unused_parens)] on by default Nov 09 17:33:46.815 INFO kablam! Nov 09 17:33:46.815 INFO kablam! warning: unnecessary parentheses around `if` condition Nov 09 17:33:46.815 INFO kablam! --> src/main.rs:239:16 Nov 09 17:33:46.815 INFO kablam! | Nov 09 17:33:46.815 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Nov 09 17:33:46.816 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Nov 09 17:33:46.816 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unused import: `std::env` Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:12:5 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 12 | use std::env; Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^^ Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! = note: #[warn(unused_imports)] on by default Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:16:5 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 16 | use rust_htslib::prelude::*; Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unused import: `std::io` Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:21:5 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 21 | use std::io; Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^ Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unused import: `PathBuf` Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:25:23 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 25 | use std::path::{Path, PathBuf}; Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^ Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unused import: `SubCommand` Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:26:22 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^^^^ Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unnecessary parentheses around `if` condition Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:218:20 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! = note: #[warn(unused_parens)] on by default Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.839 INFO kablam! warning: unnecessary parentheses around `if` condition Nov 09 17:33:46.839 INFO kablam! --> src/main.rs:239:16 Nov 09 17:33:46.839 INFO kablam! | Nov 09 17:33:46.839 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Nov 09 17:33:46.839 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Nov 09 17:33:46.839 INFO kablam! Nov 09 17:33:46.987 INFO kablam! warning: unused import: `std::io::prelude` Nov 09 17:33:46.987 INFO kablam! --> src/main.rs:22:5 Nov 09 17:33:46.987 INFO kablam! | Nov 09 17:33:46.987 INFO kablam! 22 | use std::io::prelude::*; Nov 09 17:33:46.987 INFO kablam! | ^^^^^^^^^^^^^^^^ Nov 09 17:33:46.987 INFO kablam! Nov 09 17:33:47.007 INFO kablam! warning: unused variable: `consensus_base` Nov 09 17:33:47.007 INFO kablam! --> src/main.rs:139:9 Nov 09 17:33:47.007 INFO kablam! | Nov 09 17:33:47.007 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Nov 09 17:33:47.007 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Nov 09 17:33:47.007 INFO kablam! | Nov 09 17:33:47.007 INFO kablam! = note: #[warn(unused_variables)] on by default Nov 09 17:33:47.007 INFO kablam! Nov 09 17:33:47.007 INFO kablam! warning: unused variable: `consensus_source_reads` Nov 09 17:33:47.007 INFO kablam! --> src/main.rs:144:13 Nov 09 17:33:47.007 INFO kablam! | Nov 09 17:33:47.007 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Nov 09 17:33:47.007 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Nov 09 17:33:47.007 INFO kablam! Nov 09 17:33:47.007 INFO kablam! warning: unused variable: `chrom` Nov 09 17:33:47.007 INFO kablam! --> src/main.rs:283:121 Nov 09 17:33:47.007 INFO kablam! | Nov 09 17:33:47.007 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) { Nov 09 17:33:47.007 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Nov 09 17:33:47.007 INFO kablam! Nov 09 17:33:47.007 INFO kablam! warning: value assigned to `new_seq_b` is never read Nov 09 17:33:47.007 INFO kablam! --> src/main.rs:370:21 Nov 09 17:33:47.007 INFO kablam! | Nov 09 17:33:47.007 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Nov 09 17:33:47.007 INFO kablam! | ^^^^^^^^^ Nov 09 17:33:47.007 INFO kablam! | Nov 09 17:33:47.007 INFO kablam! = note: #[warn(unused_assignments)] on by default Nov 09 17:33:47.007 INFO kablam! Nov 09 17:33:47.027 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.027 INFO kablam! --> src/main.rs:74:9 Nov 09 17:33:47.027 INFO kablam! | Nov 09 17:33:47.027 INFO kablam! 74 | let mut pair; Nov 09 17:33:47.027 INFO kablam! | ----^^^^ Nov 09 17:33:47.027 INFO kablam! | | Nov 09 17:33:47.027 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.027 INFO kablam! | Nov 09 17:33:47.027 INFO kablam! = note: #[warn(unused_mut)] on by default Nov 09 17:33:47.027 INFO kablam! Nov 09 17:33:47.027 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.027 INFO kablam! --> src/main.rs:75:9 Nov 09 17:33:47.027 INFO kablam! | Nov 09 17:33:47.027 INFO kablam! 75 | let mut strand; Nov 09 17:33:47.027 INFO kablam! | ----^^^^^^ Nov 09 17:33:47.027 INFO kablam! | | Nov 09 17:33:47.027 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.027 INFO kablam! Nov 09 17:33:47.027 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.027 INFO kablam! --> src/main.rs:76:9 Nov 09 17:33:47.027 INFO kablam! | Nov 09 17:33:47.027 INFO kablam! 76 | let mut aln_pos; Nov 09 17:33:47.027 INFO kablam! | ----^^^^^^^ Nov 09 17:33:47.027 INFO kablam! | | Nov 09 17:33:47.027 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.027 INFO kablam! Nov 09 17:33:47.071 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.071 INFO kablam! --> src/main.rs:144:9 Nov 09 17:33:47.071 INFO kablam! | Nov 09 17:33:47.071 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Nov 09 17:33:47.071 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.071 INFO kablam! | | Nov 09 17:33:47.071 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.071 INFO kablam! Nov 09 17:33:47.071 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.071 INFO kablam! --> src/main.rs:151:9 Nov 09 17:33:47.071 INFO kablam! | Nov 09 17:33:47.071 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Nov 09 17:33:47.071 INFO kablam! | ----^^^^^^^^^ Nov 09 17:33:47.071 INFO kablam! | | Nov 09 17:33:47.071 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.071 INFO kablam! Nov 09 17:33:47.091 INFO kablam! warning: unused import: `std::io::prelude` Nov 09 17:33:47.091 INFO kablam! --> src/main.rs:22:5 Nov 09 17:33:47.091 INFO kablam! | Nov 09 17:33:47.091 INFO kablam! 22 | use std::io::prelude::*; Nov 09 17:33:47.091 INFO kablam! | ^^^^^^^^^^^^^^^^ Nov 09 17:33:47.091 INFO kablam! Nov 09 17:33:47.103 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.103 INFO kablam! --> src/main.rs:338:9 Nov 09 17:33:47.103 INFO kablam! | Nov 09 17:33:47.103 INFO kablam! 338 | let mut need_trim:bool; Nov 09 17:33:47.103 INFO kablam! | ----^^^^^^^^^ Nov 09 17:33:47.103 INFO kablam! | | Nov 09 17:33:47.103 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.103 INFO kablam! Nov 09 17:33:47.103 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.103 INFO kablam! --> src/main.rs:355:9 Nov 09 17:33:47.103 INFO kablam! | Nov 09 17:33:47.103 INFO kablam! 355 | let mut chrom = 0; Nov 09 17:33:47.103 INFO kablam! | ----^^^^^ Nov 09 17:33:47.103 INFO kablam! | | Nov 09 17:33:47.103 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.103 INFO kablam! Nov 09 17:33:47.119 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Nov 09 17:33:47.119 INFO kablam! --> src/main.rs:68:1 Nov 09 17:33:47.119 INFO kablam! | Nov 09 17:33:47.119 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Nov 09 17:33:47.119 INFO kablam! 69 | | Nov 09 17:33:47.119 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Nov 09 17:33:47.119 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Nov 09 17:33:47.119 INFO kablam! ... | Nov 09 17:33:47.119 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Nov 09 17:33:47.119 INFO kablam! 98 | | } Nov 09 17:33:47.119 INFO kablam! | |_^ Nov 09 17:33:47.119 INFO kablam! | Nov 09 17:33:47.119 INFO kablam! = note: #[warn(non_snake_case)] on by default Nov 09 17:33:47.119 INFO kablam! Nov 09 17:33:47.119 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Nov 09 17:33:47.119 INFO kablam! --> src/main.rs:147:9 Nov 09 17:33:47.119 INFO kablam! | Nov 09 17:33:47.119 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Nov 09 17:33:47.119 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.119 INFO kablam! Nov 09 17:33:47.119 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Nov 09 17:33:47.119 INFO kablam! --> src/main.rs:148:9 Nov 09 17:33:47.119 INFO kablam! | Nov 09 17:33:47.119 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Nov 09 17:33:47.119 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.119 INFO kablam! Nov 09 17:33:47.125 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.125 INFO kablam! --> src/main.rs:267:9 Nov 09 17:33:47.125 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 267 | o_buff.write(&member_record.2); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! = note: #[warn(unused_must_use)] on by default Nov 09 17:33:47.126 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:269:9 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 269 | o_buff.write(&member_record.0); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:272:9 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 272 | o_buff.write(&real_qual_temp); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:274:5 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 274 | o_buff.write(b"\n"); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:277:5 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 277 | o_buff.write(b"\n"); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:280:5 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 280 | o_buff.write(b"\n"); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:286:10 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:357:9 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.126 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Nov 09 17:33:47.126 INFO kablam! --> src/main.rs:387:17 Nov 09 17:33:47.126 INFO kablam! | Nov 09 17:33:47.126 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Nov 09 17:33:47.126 INFO kablam! | ^^^^^^^^^^^^ Nov 09 17:33:47.126 INFO kablam! Nov 09 17:33:47.155 INFO kablam! warning: unused variable: `consensus_base` Nov 09 17:33:47.155 INFO kablam! --> src/main.rs:139:9 Nov 09 17:33:47.155 INFO kablam! | Nov 09 17:33:47.155 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Nov 09 17:33:47.155 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Nov 09 17:33:47.155 INFO kablam! | Nov 09 17:33:47.155 INFO kablam! = note: #[warn(unused_variables)] on by default Nov 09 17:33:47.155 INFO kablam! Nov 09 17:33:47.155 INFO kablam! warning: unused variable: `consensus_source_reads` Nov 09 17:33:47.155 INFO kablam! --> src/main.rs:144:13 Nov 09 17:33:47.155 INFO kablam! | Nov 09 17:33:47.155 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Nov 09 17:33:47.155 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Nov 09 17:33:47.155 INFO kablam! Nov 09 17:33:47.155 INFO kablam! warning: unused variable: `chrom` Nov 09 17:33:47.155 INFO kablam! --> src/main.rs:283:121 Nov 09 17:33:47.155 INFO kablam! | Nov 09 17:33:47.155 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) { Nov 09 17:33:47.155 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Nov 09 17:33:47.155 INFO kablam! Nov 09 17:33:47.155 INFO kablam! warning: value assigned to `new_seq_b` is never read Nov 09 17:33:47.155 INFO kablam! --> src/main.rs:370:21 Nov 09 17:33:47.155 INFO kablam! | Nov 09 17:33:47.155 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Nov 09 17:33:47.155 INFO kablam! | ^^^^^^^^^ Nov 09 17:33:47.155 INFO kablam! | Nov 09 17:33:47.155 INFO kablam! = note: #[warn(unused_assignments)] on by default Nov 09 17:33:47.155 INFO kablam! Nov 09 17:33:47.191 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.191 INFO kablam! --> src/main.rs:74:9 Nov 09 17:33:47.191 INFO kablam! | Nov 09 17:33:47.191 INFO kablam! 74 | let mut pair; Nov 09 17:33:47.191 INFO kablam! | ----^^^^ Nov 09 17:33:47.191 INFO kablam! | | Nov 09 17:33:47.191 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.191 INFO kablam! | Nov 09 17:33:47.191 INFO kablam! = note: #[warn(unused_mut)] on by default Nov 09 17:33:47.191 INFO kablam! Nov 09 17:33:47.191 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.191 INFO kablam! --> src/main.rs:75:9 Nov 09 17:33:47.191 INFO kablam! | Nov 09 17:33:47.191 INFO kablam! 75 | let mut strand; Nov 09 17:33:47.191 INFO kablam! | ----^^^^^^ Nov 09 17:33:47.191 INFO kablam! | | Nov 09 17:33:47.191 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.191 INFO kablam! Nov 09 17:33:47.191 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.191 INFO kablam! --> src/main.rs:76:9 Nov 09 17:33:47.191 INFO kablam! | Nov 09 17:33:47.191 INFO kablam! 76 | let mut aln_pos; Nov 09 17:33:47.191 INFO kablam! | ----^^^^^^^ Nov 09 17:33:47.191 INFO kablam! | | Nov 09 17:33:47.191 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.191 INFO kablam! Nov 09 17:33:47.243 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.243 INFO kablam! --> src/main.rs:144:9 Nov 09 17:33:47.243 INFO kablam! | Nov 09 17:33:47.243 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Nov 09 17:33:47.243 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.243 INFO kablam! | | Nov 09 17:33:47.243 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.243 INFO kablam! Nov 09 17:33:47.243 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.243 INFO kablam! --> src/main.rs:151:9 Nov 09 17:33:47.243 INFO kablam! | Nov 09 17:33:47.243 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Nov 09 17:33:47.243 INFO kablam! | ----^^^^^^^^^ Nov 09 17:33:47.243 INFO kablam! | | Nov 09 17:33:47.243 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.243 INFO kablam! Nov 09 17:33:47.271 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.271 INFO kablam! --> src/main.rs:338:9 Nov 09 17:33:47.271 INFO kablam! | Nov 09 17:33:47.271 INFO kablam! 338 | let mut need_trim:bool; Nov 09 17:33:47.271 INFO kablam! | ----^^^^^^^^^ Nov 09 17:33:47.271 INFO kablam! | | Nov 09 17:33:47.271 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.271 INFO kablam! Nov 09 17:33:47.271 INFO kablam! warning: variable does not need to be mutable Nov 09 17:33:47.271 INFO kablam! --> src/main.rs:355:9 Nov 09 17:33:47.271 INFO kablam! | Nov 09 17:33:47.271 INFO kablam! 355 | let mut chrom = 0; Nov 09 17:33:47.271 INFO kablam! | ----^^^^^ Nov 09 17:33:47.271 INFO kablam! | | Nov 09 17:33:47.271 INFO kablam! | help: remove this `mut` Nov 09 17:33:47.271 INFO kablam! Nov 09 17:33:47.287 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Nov 09 17:33:47.287 INFO kablam! --> src/main.rs:68:1 Nov 09 17:33:47.287 INFO kablam! | Nov 09 17:33:47.287 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Nov 09 17:33:47.287 INFO kablam! 69 | | Nov 09 17:33:47.287 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Nov 09 17:33:47.287 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Nov 09 17:33:47.287 INFO kablam! ... | Nov 09 17:33:47.287 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Nov 09 17:33:47.287 INFO kablam! 98 | | } Nov 09 17:33:47.287 INFO kablam! | |_^ Nov 09 17:33:47.287 INFO kablam! | Nov 09 17:33:47.287 INFO kablam! = note: #[warn(non_snake_case)] on by default Nov 09 17:33:47.287 INFO kablam! Nov 09 17:33:47.300 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Nov 09 17:33:47.300 INFO kablam! --> src/main.rs:147:9 Nov 09 17:33:47.300 INFO kablam! | Nov 09 17:33:47.300 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Nov 09 17:33:47.300 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.300 INFO kablam! Nov 09 17:33:47.300 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Nov 09 17:33:47.300 INFO kablam! --> src/main.rs:148:9 Nov 09 17:33:47.300 INFO kablam! | Nov 09 17:33:47.300 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Nov 09 17:33:47.300 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.300 INFO kablam! Nov 09 17:33:47.300 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.300 INFO kablam! --> src/main.rs:267:9 Nov 09 17:33:47.300 INFO kablam! | Nov 09 17:33:47.300 INFO kablam! 267 | o_buff.write(&member_record.2); Nov 09 17:33:47.301 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! = note: #[warn(unused_must_use)] on by default Nov 09 17:33:47.301 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.301 INFO kablam! Nov 09 17:33:47.301 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.301 INFO kablam! --> src/main.rs:269:9 Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! 269 | o_buff.write(&member_record.0); Nov 09 17:33:47.301 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.301 INFO kablam! Nov 09 17:33:47.301 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.301 INFO kablam! --> src/main.rs:272:9 Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! 272 | o_buff.write(&real_qual_temp); Nov 09 17:33:47.301 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.301 INFO kablam! Nov 09 17:33:47.301 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.301 INFO kablam! --> src/main.rs:274:5 Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! 274 | o_buff.write(b"\n"); Nov 09 17:33:47.301 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.301 INFO kablam! Nov 09 17:33:47.301 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.301 INFO kablam! --> src/main.rs:277:5 Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! 277 | o_buff.write(b"\n"); Nov 09 17:33:47.301 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.301 INFO kablam! Nov 09 17:33:47.301 INFO kablam! warning: unused `std::result::Result` that must be used Nov 09 17:33:47.301 INFO kablam! --> src/main.rs:280:5 Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! 280 | o_buff.write(b"\n"); Nov 09 17:33:47.301 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.301 INFO kablam! | Nov 09 17:33:47.301 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Nov 09 17:33:47.303 INFO kablam! Nov 09 17:33:47.303 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Nov 09 17:33:47.303 INFO kablam! --> src/main.rs:286:10 Nov 09 17:33:47.303 INFO kablam! | Nov 09 17:33:47.303 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Nov 09 17:33:47.303 INFO kablam! | ^^^^^^^^^^^^ Nov 09 17:33:47.303 INFO kablam! Nov 09 17:33:47.303 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Nov 09 17:33:47.303 INFO kablam! --> src/main.rs:357:9 Nov 09 17:33:47.303 INFO kablam! | Nov 09 17:33:47.303 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Nov 09 17:33:47.303 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Nov 09 17:33:47.303 INFO kablam! Nov 09 17:33:47.303 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Nov 09 17:33:47.303 INFO kablam! --> src/main.rs:387:17 Nov 09 17:33:47.303 INFO kablam! | Nov 09 17:33:47.303 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Nov 09 17:33:47.303 INFO kablam! | ^^^^^^^^^^^^ Nov 09 17:33:47.303 INFO kablam! Nov 09 17:33:47.371 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 33.37s Nov 09 17:33:47.384 INFO kablam! su: No module specific data is present Nov 09 17:33:48.567 INFO running `"docker" "rm" "-f" "fc07cd0cafd01392e17351465830c48054d134adf8b9daa900baf6ab706981cd"` Nov 09 17:33:48.888 INFO blam! fc07cd0cafd01392e17351465830c48054d134adf8b9daa900baf6ab706981cd