Aug 01 17:33:29.445 INFO checking TuBieJun/consensus against 1.27.2+tmplazy for lazy_static-1 Aug 01 17:33:29.445 INFO running: cargo +1.27.2 check --frozen --all --all-targets Aug 01 17:33:29.445 INFO creating container for: cargo +1.27.2 check --frozen --all --all-targets Aug 01 17:33:29.446 INFO running `"docker" "create" "-v" "/tmp/crater.n8RzxiKTaQQ2:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/lazy_static-1/worker-1/1.27.2+tmplazy:/target:rw,Z" "-v" "/home/ec2-user/crater/./work/local/cargo-home:/cargo-home:ro,Z" "-v" "/home/ec2-user/crater/./work/local/rustup-home:/rustup-home:ro,Z" "-v" "/home/ec2-user/crater/./work/local/cargo-home/git:/cargo-home/git:rw,Z" "-e" "USER_ID=500" "-e" "CMD=cargo +1.27.2 check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "crater"` Aug 01 17:33:29.696 INFO blam! ac8914840c93ce684c040c44fd03e3f0de50e673c4fbbf2d8094cc265cba6969 Aug 01 17:33:29.698 INFO running `"docker" "start" "-a" "ac8914840c93ce684c040c44fd03e3f0de50e673c4fbbf2d8094cc265cba6969"` Aug 01 17:33:30.588 INFO kablam! Compiling semver v0.1.20 Aug 01 17:33:30.588 INFO kablam! Checking custom_derive v0.1.7 Aug 01 17:33:30.588 INFO kablam! Checking ieee754 v0.2.2 Aug 01 17:33:30.589 INFO kablam! Compiling fs-utils v1.1.0 Aug 01 17:33:33.151 INFO kablam! Compiling rust-htslib v0.15.0 Aug 01 17:33:35.934 INFO kablam! Compiling rustc_version v0.1.7 Aug 01 17:33:38.414 INFO kablam! Compiling newtype_derive v0.1.6 Aug 01 17:34:21.949 INFO kablam! Checking consensus v0.1.0 (file:///source) Aug 01 17:34:22.619 INFO kablam! warning: unused import: `std::env` Aug 01 17:34:22.619 INFO kablam! --> src/main.rs:12:5 Aug 01 17:34:22.619 INFO kablam! | Aug 01 17:34:22.619 INFO kablam! 12 | use std::env; Aug 01 17:34:22.619 INFO kablam! | ^^^^^^^^ Aug 01 17:34:22.621 INFO kablam! | Aug 01 17:34:22.621 INFO kablam! = note: #[warn(unused_imports)] on by default Aug 01 17:34:22.621 INFO kablam! Aug 01 17:34:22.621 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Aug 01 17:34:22.621 INFO kablam! --> src/main.rs:16:5 Aug 01 17:34:22.621 INFO kablam! | Aug 01 17:34:22.622 INFO kablam! 16 | use rust_htslib::prelude::*; Aug 01 17:34:22.622 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:22.622 INFO kablam! Aug 01 17:34:22.622 INFO kablam! warning: unused import: `std::io` Aug 01 17:34:22.622 INFO kablam! --> src/main.rs:21:5 Aug 01 17:34:22.622 INFO kablam! | Aug 01 17:34:22.622 INFO kablam! 21 | use std::io; Aug 01 17:34:22.622 INFO kablam! | ^^^^^^^ Aug 01 17:34:22.622 INFO kablam! Aug 01 17:34:22.622 INFO kablam! warning: unused import: `PathBuf` Aug 01 17:34:22.622 INFO kablam! --> src/main.rs:25:23 Aug 01 17:34:22.622 INFO kablam! | Aug 01 17:34:22.622 INFO kablam! 25 | use std::path::{Path, PathBuf}; Aug 01 17:34:22.622 INFO kablam! | ^^^^^^^ Aug 01 17:34:22.622 INFO kablam! Aug 01 17:34:22.623 INFO kablam! warning: unused import: `SubCommand` Aug 01 17:34:22.623 INFO kablam! --> src/main.rs:26:22 Aug 01 17:34:22.623 INFO kablam! | Aug 01 17:34:22.623 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Aug 01 17:34:22.623 INFO kablam! | ^^^^^^^^^^ Aug 01 17:34:22.623 INFO kablam! Aug 01 17:34:22.623 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 01 17:34:22.623 INFO kablam! --> src/main.rs:218:20 Aug 01 17:34:22.623 INFO kablam! | Aug 01 17:34:22.623 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Aug 01 17:34:22.623 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 01 17:34:22.624 INFO kablam! | Aug 01 17:34:22.624 INFO kablam! = note: #[warn(unused_parens)] on by default Aug 01 17:34:22.624 INFO kablam! Aug 01 17:34:22.624 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 01 17:34:22.624 INFO kablam! --> src/main.rs:239:16 Aug 01 17:34:22.624 INFO kablam! | Aug 01 17:34:22.624 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Aug 01 17:34:22.624 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 01 17:34:22.624 INFO kablam! Aug 01 17:34:22.779 INFO kablam! warning: unused import: `std::env` Aug 01 17:34:22.779 INFO kablam! --> src/main.rs:12:5 Aug 01 17:34:22.779 INFO kablam! | Aug 01 17:34:22.779 INFO kablam! 12 | use std::env; Aug 01 17:34:22.779 INFO kablam! | ^^^^^^^^ Aug 01 17:34:22.779 INFO kablam! | Aug 01 17:34:22.781 INFO kablam! = note: #[warn(unused_imports)] on by default Aug 01 17:34:22.782 INFO kablam! Aug 01 17:34:22.782 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Aug 01 17:34:22.782 INFO kablam! --> src/main.rs:16:5 Aug 01 17:34:22.782 INFO kablam! | Aug 01 17:34:22.782 INFO kablam! 16 | use rust_htslib::prelude::*; Aug 01 17:34:22.782 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:22.782 INFO kablam! Aug 01 17:34:22.782 INFO kablam! warning: unused import: `std::io` Aug 01 17:34:22.782 INFO kablam! --> src/main.rs:21:5 Aug 01 17:34:22.782 INFO kablam! | Aug 01 17:34:22.782 INFO kablam! 21 | use std::io; Aug 01 17:34:22.782 INFO kablam! | ^^^^^^^ Aug 01 17:34:22.782 INFO kablam! Aug 01 17:34:22.782 INFO kablam! warning: unused import: `PathBuf` Aug 01 17:34:22.782 INFO kablam! --> src/main.rs:25:23 Aug 01 17:34:22.782 INFO kablam! | Aug 01 17:34:22.782 INFO kablam! 25 | use std::path::{Path, PathBuf}; Aug 01 17:34:22.782 INFO kablam! | ^^^^^^^ Aug 01 17:34:22.782 INFO kablam! Aug 01 17:34:22.782 INFO kablam! warning: unused import: `SubCommand` Aug 01 17:34:22.782 INFO kablam! --> src/main.rs:26:22 Aug 01 17:34:22.782 INFO kablam! | Aug 01 17:34:22.782 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Aug 01 17:34:22.782 INFO kablam! | ^^^^^^^^^^ Aug 01 17:34:22.782 INFO kablam! Aug 01 17:34:22.782 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 01 17:34:22.782 INFO kablam! --> src/main.rs:218:20 Aug 01 17:34:22.782 INFO kablam! | Aug 01 17:34:22.782 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Aug 01 17:34:22.783 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 01 17:34:22.783 INFO kablam! | Aug 01 17:34:22.783 INFO kablam! = note: #[warn(unused_parens)] on by default Aug 01 17:34:22.783 INFO kablam! Aug 01 17:34:22.784 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 01 17:34:22.784 INFO kablam! --> src/main.rs:239:16 Aug 01 17:34:22.784 INFO kablam! | Aug 01 17:34:22.784 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Aug 01 17:34:22.784 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 01 17:34:22.784 INFO kablam! Aug 01 17:34:23.007 INFO kablam! warning: unused import: `std::io::prelude` Aug 01 17:34:23.007 INFO kablam! --> src/main.rs:22:5 Aug 01 17:34:23.007 INFO kablam! | Aug 01 17:34:23.007 INFO kablam! 22 | use std::io::prelude::*; Aug 01 17:34:23.007 INFO kablam! | ^^^^^^^^^^^^^^^^ Aug 01 17:34:23.007 INFO kablam! Aug 01 17:34:23.158 INFO kablam! warning: unused variable: `consensus_base` Aug 01 17:34:23.158 INFO kablam! --> src/main.rs:139:9 Aug 01 17:34:23.158 INFO kablam! | Aug 01 17:34:23.158 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Aug 01 17:34:23.159 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Aug 01 17:34:23.159 INFO kablam! | Aug 01 17:34:23.159 INFO kablam! = note: #[warn(unused_variables)] on by default Aug 01 17:34:23.159 INFO kablam! Aug 01 17:34:23.159 INFO kablam! warning: unused variable: `consensus_source_reads` Aug 01 17:34:23.159 INFO kablam! --> src/main.rs:144:9 Aug 01 17:34:23.159 INFO kablam! | Aug 01 17:34:23.159 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 01 17:34:23.159 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Aug 01 17:34:23.176 INFO kablam! Aug 01 17:34:23.177 INFO kablam! warning: unused variable: `chrom` Aug 01 17:34:23.177 INFO kablam! --> src/main.rs:283:121 Aug 01 17:34:23.177 INFO kablam! | Aug 01 17:34:23.177 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) { Aug 01 17:34:23.177 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Aug 01 17:34:23.177 INFO kablam! Aug 01 17:34:23.178 INFO kablam! warning: value assigned to `new_seq_b` is never read Aug 01 17:34:23.178 INFO kablam! --> src/main.rs:370:17 Aug 01 17:34:23.178 INFO kablam! | Aug 01 17:34:23.178 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Aug 01 17:34:23.178 INFO kablam! | ^^^^^^^^^^^^^ Aug 01 17:34:23.178 INFO kablam! | Aug 01 17:34:23.178 INFO kablam! = note: #[warn(unused_assignments)] on by default Aug 01 17:34:23.178 INFO kablam! Aug 01 17:34:23.205 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.205 INFO kablam! --> src/main.rs:74:9 Aug 01 17:34:23.205 INFO kablam! | Aug 01 17:34:23.205 INFO kablam! 74 | let mut pair; Aug 01 17:34:23.205 INFO kablam! | ----^^^^ Aug 01 17:34:23.205 INFO kablam! | | Aug 01 17:34:23.205 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.205 INFO kablam! | Aug 01 17:34:23.205 INFO kablam! = note: #[warn(unused_mut)] on by default Aug 01 17:34:23.205 INFO kablam! Aug 01 17:34:23.206 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.206 INFO kablam! --> src/main.rs:75:9 Aug 01 17:34:23.206 INFO kablam! | Aug 01 17:34:23.206 INFO kablam! 75 | let mut strand; Aug 01 17:34:23.206 INFO kablam! | ----^^^^^^ Aug 01 17:34:23.206 INFO kablam! | | Aug 01 17:34:23.206 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.206 INFO kablam! Aug 01 17:34:23.206 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.206 INFO kablam! --> src/main.rs:76:9 Aug 01 17:34:23.206 INFO kablam! | Aug 01 17:34:23.206 INFO kablam! 76 | let mut aln_pos; Aug 01 17:34:23.206 INFO kablam! | ----^^^^^^^ Aug 01 17:34:23.206 INFO kablam! | | Aug 01 17:34:23.206 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.206 INFO kablam! Aug 01 17:34:23.346 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.346 INFO kablam! --> src/main.rs:144:9 Aug 01 17:34:23.346 INFO kablam! | Aug 01 17:34:23.346 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 01 17:34:23.346 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.346 INFO kablam! | | Aug 01 17:34:23.346 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.346 INFO kablam! Aug 01 17:34:23.346 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.346 INFO kablam! --> src/main.rs:151:9 Aug 01 17:34:23.346 INFO kablam! | Aug 01 17:34:23.346 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Aug 01 17:34:23.346 INFO kablam! | ----^^^^^^^^^ Aug 01 17:34:23.346 INFO kablam! | | Aug 01 17:34:23.346 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.346 INFO kablam! Aug 01 17:34:23.407 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.407 INFO kablam! --> src/main.rs:338:9 Aug 01 17:34:23.407 INFO kablam! | Aug 01 17:34:23.407 INFO kablam! 338 | let mut need_trim:bool; Aug 01 17:34:23.407 INFO kablam! | ----^^^^^^^^^ Aug 01 17:34:23.407 INFO kablam! | | Aug 01 17:34:23.407 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.407 INFO kablam! Aug 01 17:34:23.408 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.408 INFO kablam! --> src/main.rs:355:9 Aug 01 17:34:23.408 INFO kablam! | Aug 01 17:34:23.408 INFO kablam! 355 | let mut chrom = 0; Aug 01 17:34:23.408 INFO kablam! | ----^^^^^ Aug 01 17:34:23.408 INFO kablam! | | Aug 01 17:34:23.408 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.408 INFO kablam! Aug 01 17:34:23.409 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Aug 01 17:34:23.409 INFO kablam! --> src/main.rs:68:1 Aug 01 17:34:23.409 INFO kablam! | Aug 01 17:34:23.409 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Aug 01 17:34:23.409 INFO kablam! 69 | | Aug 01 17:34:23.409 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Aug 01 17:34:23.409 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Aug 01 17:34:23.409 INFO kablam! ... | Aug 01 17:34:23.409 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Aug 01 17:34:23.409 INFO kablam! 98 | | } Aug 01 17:34:23.409 INFO kablam! | |_^ Aug 01 17:34:23.409 INFO kablam! | Aug 01 17:34:23.409 INFO kablam! = note: #[warn(non_snake_case)] on by default Aug 01 17:34:23.409 INFO kablam! Aug 01 17:34:23.410 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Aug 01 17:34:23.410 INFO kablam! --> src/main.rs:147:9 Aug 01 17:34:23.410 INFO kablam! | Aug 01 17:34:23.410 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Aug 01 17:34:23.410 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.410 INFO kablam! Aug 01 17:34:23.410 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Aug 01 17:34:23.410 INFO kablam! --> src/main.rs:148:9 Aug 01 17:34:23.410 INFO kablam! | Aug 01 17:34:23.410 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Aug 01 17:34:23.410 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.410 INFO kablam! Aug 01 17:34:23.412 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.412 INFO kablam! --> src/main.rs:267:9 Aug 01 17:34:23.412 INFO kablam! | Aug 01 17:34:23.412 INFO kablam! 267 | o_buff.write(&member_record.2); Aug 01 17:34:23.412 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.412 INFO kablam! | Aug 01 17:34:23.412 INFO kablam! = note: #[warn(unused_must_use)] on by default Aug 01 17:34:23.412 INFO kablam! Aug 01 17:34:23.412 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.412 INFO kablam! --> src/main.rs:269:9 Aug 01 17:34:23.412 INFO kablam! | Aug 01 17:34:23.412 INFO kablam! 269 | o_buff.write(&member_record.0); Aug 01 17:34:23.412 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.412 INFO kablam! Aug 01 17:34:23.412 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.412 INFO kablam! --> src/main.rs:272:9 Aug 01 17:34:23.412 INFO kablam! | Aug 01 17:34:23.413 INFO kablam! 272 | o_buff.write(&real_qual_temp); Aug 01 17:34:23.413 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.413 INFO kablam! Aug 01 17:34:23.413 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.413 INFO kablam! --> src/main.rs:274:5 Aug 01 17:34:23.413 INFO kablam! | Aug 01 17:34:23.413 INFO kablam! 274 | o_buff.write(b"\n"); Aug 01 17:34:23.413 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.413 INFO kablam! Aug 01 17:34:23.413 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.413 INFO kablam! --> src/main.rs:277:5 Aug 01 17:34:23.413 INFO kablam! | Aug 01 17:34:23.413 INFO kablam! 277 | o_buff.write(b"\n"); Aug 01 17:34:23.413 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.413 INFO kablam! Aug 01 17:34:23.413 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.413 INFO kablam! --> src/main.rs:280:5 Aug 01 17:34:23.413 INFO kablam! | Aug 01 17:34:23.413 INFO kablam! 280 | o_buff.write(b"\n"); Aug 01 17:34:23.413 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.413 INFO kablam! Aug 01 17:34:23.413 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 01 17:34:23.413 INFO kablam! --> src/main.rs:286:10 Aug 01 17:34:23.413 INFO kablam! | Aug 01 17:34:23.413 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Aug 01 17:34:23.413 INFO kablam! | ^^^^^^^^^^^^ Aug 01 17:34:23.413 INFO kablam! Aug 01 17:34:23.415 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Aug 01 17:34:23.415 INFO kablam! --> src/main.rs:357:9 Aug 01 17:34:23.415 INFO kablam! | Aug 01 17:34:23.415 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Aug 01 17:34:23.415 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.415 INFO kablam! Aug 01 17:34:23.415 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 01 17:34:23.415 INFO kablam! --> src/main.rs:387:17 Aug 01 17:34:23.415 INFO kablam! | Aug 01 17:34:23.415 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Aug 01 17:34:23.415 INFO kablam! | ^^^^^^^^^^^^ Aug 01 17:34:23.415 INFO kablam! Aug 01 17:34:23.450 INFO kablam! warning: unused import: `std::io::prelude` Aug 01 17:34:23.450 INFO kablam! --> src/main.rs:22:5 Aug 01 17:34:23.450 INFO kablam! | Aug 01 17:34:23.450 INFO kablam! 22 | use std::io::prelude::*; Aug 01 17:34:23.450 INFO kablam! | ^^^^^^^^^^^^^^^^ Aug 01 17:34:23.484 INFO kablam! Aug 01 17:34:23.559 INFO kablam! warning: unused variable: `consensus_base` Aug 01 17:34:23.559 INFO kablam! --> src/main.rs:139:9 Aug 01 17:34:23.559 INFO kablam! | Aug 01 17:34:23.559 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Aug 01 17:34:23.559 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Aug 01 17:34:23.559 INFO kablam! | Aug 01 17:34:23.559 INFO kablam! = note: #[warn(unused_variables)] on by default Aug 01 17:34:23.559 INFO kablam! Aug 01 17:34:23.559 INFO kablam! warning: unused variable: `consensus_source_reads` Aug 01 17:34:23.560 INFO kablam! --> src/main.rs:144:9 Aug 01 17:34:23.560 INFO kablam! | Aug 01 17:34:23.560 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 01 17:34:23.560 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Aug 01 17:34:23.560 INFO kablam! Aug 01 17:34:23.560 INFO kablam! warning: unused variable: `chrom` Aug 01 17:34:23.560 INFO kablam! --> src/main.rs:283:121 Aug 01 17:34:23.560 INFO kablam! | Aug 01 17:34:23.560 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) { Aug 01 17:34:23.560 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Aug 01 17:34:23.560 INFO kablam! Aug 01 17:34:23.560 INFO kablam! warning: value assigned to `new_seq_b` is never read Aug 01 17:34:23.560 INFO kablam! --> src/main.rs:370:17 Aug 01 17:34:23.560 INFO kablam! | Aug 01 17:34:23.560 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Aug 01 17:34:23.560 INFO kablam! | ^^^^^^^^^^^^^ Aug 01 17:34:23.560 INFO kablam! | Aug 01 17:34:23.560 INFO kablam! = note: #[warn(unused_assignments)] on by default Aug 01 17:34:23.560 INFO kablam! Aug 01 17:34:23.574 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.574 INFO kablam! --> src/main.rs:74:9 Aug 01 17:34:23.574 INFO kablam! | Aug 01 17:34:23.574 INFO kablam! 74 | let mut pair; Aug 01 17:34:23.574 INFO kablam! | ----^^^^ Aug 01 17:34:23.574 INFO kablam! | | Aug 01 17:34:23.574 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.576 INFO kablam! | Aug 01 17:34:23.576 INFO kablam! = note: #[warn(unused_mut)] on by default Aug 01 17:34:23.576 INFO kablam! Aug 01 17:34:23.577 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.577 INFO kablam! --> src/main.rs:75:9 Aug 01 17:34:23.577 INFO kablam! | Aug 01 17:34:23.577 INFO kablam! 75 | let mut strand; Aug 01 17:34:23.577 INFO kablam! | ----^^^^^^ Aug 01 17:34:23.577 INFO kablam! | | Aug 01 17:34:23.577 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.577 INFO kablam! Aug 01 17:34:23.577 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.577 INFO kablam! --> src/main.rs:76:9 Aug 01 17:34:23.577 INFO kablam! | Aug 01 17:34:23.577 INFO kablam! 76 | let mut aln_pos; Aug 01 17:34:23.578 INFO kablam! | ----^^^^^^^ Aug 01 17:34:23.578 INFO kablam! | | Aug 01 17:34:23.578 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.578 INFO kablam! Aug 01 17:34:23.669 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.669 INFO kablam! --> src/main.rs:144:9 Aug 01 17:34:23.669 INFO kablam! | Aug 01 17:34:23.669 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 01 17:34:23.669 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.669 INFO kablam! | | Aug 01 17:34:23.669 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.676 INFO kablam! Aug 01 17:34:23.677 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.678 INFO kablam! --> src/main.rs:151:9 Aug 01 17:34:23.678 INFO kablam! | Aug 01 17:34:23.678 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Aug 01 17:34:23.678 INFO kablam! | ----^^^^^^^^^ Aug 01 17:34:23.678 INFO kablam! | | Aug 01 17:34:23.678 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.678 INFO kablam! Aug 01 17:34:23.719 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.719 INFO kablam! --> src/main.rs:338:9 Aug 01 17:34:23.719 INFO kablam! | Aug 01 17:34:23.719 INFO kablam! 338 | let mut need_trim:bool; Aug 01 17:34:23.719 INFO kablam! | ----^^^^^^^^^ Aug 01 17:34:23.719 INFO kablam! | | Aug 01 17:34:23.719 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.719 INFO kablam! Aug 01 17:34:23.719 INFO kablam! warning: variable does not need to be mutable Aug 01 17:34:23.719 INFO kablam! --> src/main.rs:355:9 Aug 01 17:34:23.720 INFO kablam! | Aug 01 17:34:23.720 INFO kablam! 355 | let mut chrom = 0; Aug 01 17:34:23.720 INFO kablam! | ----^^^^^ Aug 01 17:34:23.720 INFO kablam! | | Aug 01 17:34:23.720 INFO kablam! | help: remove this `mut` Aug 01 17:34:23.720 INFO kablam! Aug 01 17:34:23.721 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Aug 01 17:34:23.721 INFO kablam! --> src/main.rs:68:1 Aug 01 17:34:23.721 INFO kablam! | Aug 01 17:34:23.721 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Aug 01 17:34:23.722 INFO kablam! 69 | | Aug 01 17:34:23.722 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Aug 01 17:34:23.722 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Aug 01 17:34:23.722 INFO kablam! ... | Aug 01 17:34:23.722 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Aug 01 17:34:23.722 INFO kablam! 98 | | } Aug 01 17:34:23.722 INFO kablam! | |_^ Aug 01 17:34:23.726 INFO kablam! | Aug 01 17:34:23.726 INFO kablam! = note: #[warn(non_snake_case)] on by default Aug 01 17:34:23.726 INFO kablam! Aug 01 17:34:23.727 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Aug 01 17:34:23.727 INFO kablam! --> src/main.rs:147:9 Aug 01 17:34:23.727 INFO kablam! | Aug 01 17:34:23.727 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Aug 01 17:34:23.727 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.728 INFO kablam! Aug 01 17:34:23.728 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Aug 01 17:34:23.728 INFO kablam! --> src/main.rs:148:9 Aug 01 17:34:23.728 INFO kablam! | Aug 01 17:34:23.728 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Aug 01 17:34:23.728 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.728 INFO kablam! Aug 01 17:34:23.729 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.729 INFO kablam! --> src/main.rs:267:9 Aug 01 17:34:23.729 INFO kablam! | Aug 01 17:34:23.729 INFO kablam! 267 | o_buff.write(&member_record.2); Aug 01 17:34:23.729 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.729 INFO kablam! | Aug 01 17:34:23.729 INFO kablam! = note: #[warn(unused_must_use)] on by default Aug 01 17:34:23.729 INFO kablam! Aug 01 17:34:23.730 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.730 INFO kablam! --> src/main.rs:269:9 Aug 01 17:34:23.730 INFO kablam! | Aug 01 17:34:23.730 INFO kablam! 269 | o_buff.write(&member_record.0); Aug 01 17:34:23.730 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.730 INFO kablam! Aug 01 17:34:23.730 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.730 INFO kablam! --> src/main.rs:272:9 Aug 01 17:34:23.730 INFO kablam! | Aug 01 17:34:23.730 INFO kablam! 272 | o_buff.write(&real_qual_temp); Aug 01 17:34:23.730 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.730 INFO kablam! Aug 01 17:34:23.730 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.730 INFO kablam! --> src/main.rs:274:5 Aug 01 17:34:23.730 INFO kablam! | Aug 01 17:34:23.730 INFO kablam! 274 | o_buff.write(b"\n"); Aug 01 17:34:23.730 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.730 INFO kablam! Aug 01 17:34:23.730 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.730 INFO kablam! --> src/main.rs:277:5 Aug 01 17:34:23.731 INFO kablam! | Aug 01 17:34:23.731 INFO kablam! 277 | o_buff.write(b"\n"); Aug 01 17:34:23.731 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.731 INFO kablam! Aug 01 17:34:23.731 INFO kablam! warning: unused `std::result::Result` which must be used Aug 01 17:34:23.731 INFO kablam! --> src/main.rs:280:5 Aug 01 17:34:23.731 INFO kablam! | Aug 01 17:34:23.731 INFO kablam! 280 | o_buff.write(b"\n"); Aug 01 17:34:23.731 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.731 INFO kablam! Aug 01 17:34:23.732 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 01 17:34:23.732 INFO kablam! --> src/main.rs:286:10 Aug 01 17:34:23.732 INFO kablam! | Aug 01 17:34:23.732 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Aug 01 17:34:23.732 INFO kablam! | ^^^^^^^^^^^^ Aug 01 17:34:23.732 INFO kablam! Aug 01 17:34:23.732 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Aug 01 17:34:23.732 INFO kablam! --> src/main.rs:357:9 Aug 01 17:34:23.732 INFO kablam! | Aug 01 17:34:23.732 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Aug 01 17:34:23.732 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Aug 01 17:34:23.732 INFO kablam! Aug 01 17:34:23.732 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 01 17:34:23.732 INFO kablam! --> src/main.rs:387:17 Aug 01 17:34:23.732 INFO kablam! | Aug 01 17:34:23.732 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Aug 01 17:34:23.732 INFO kablam! | ^^^^^^^^^^^^ Aug 01 17:34:23.732 INFO kablam! Aug 01 17:34:23.774 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 53.31s Aug 01 17:34:23.784 INFO kablam! su: No module specific data is present Aug 01 17:34:24.316 INFO running `"docker" "rm" "-f" "ac8914840c93ce684c040c44fd03e3f0de50e673c4fbbf2d8094cc265cba6969"` Aug 01 17:34:24.486 INFO blam! ac8914840c93ce684c040c44fd03e3f0de50e673c4fbbf2d8094cc265cba6969