Sep 20 23:32:45.750 INFO checking TuBieJun/consensus against try#f1a3f05968ed2a674e09b6efa4ad9df90816e2b6 for pr-54394 Sep 20 23:32:45.750 INFO running: cargo +f1a3f05968ed2a674e09b6efa4ad9df90816e2b6-alt check --frozen --all --all-targets Sep 20 23:32:45.750 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-7/pr-54394/try#f1a3f05968ed2a674e09b6efa4ad9df90816e2b6:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-54394/worker-7/try#f1a3f05968ed2a674e09b6efa4ad9df90816e2b6:/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" "-e" "USER_ID=1000" "-e" "CMD=cargo +f1a3f05968ed2a674e09b6efa4ad9df90816e2b6-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "1536M" "crater"` Sep 20 23:32:45.947 INFO blam! 782a127a58602cfd3d2a415855a7f36ed8ab081544d39fae4b1cd56b430183db Sep 20 23:32:45.949 INFO running `"docker" "start" "-a" "782a127a58602cfd3d2a415855a7f36ed8ab081544d39fae4b1cd56b430183db"` Sep 20 23:32:47.330 INFO kablam! usermod: no changes Sep 20 23:32:47.449 INFO kablam! Compiling quick-error v1.2.1 Sep 20 23:32:47.458 INFO kablam! Checking ieee754 v0.2.2 Sep 20 23:32:47.458 INFO kablam! Checking custom_derive v0.1.7 Sep 20 23:32:47.458 INFO kablam! Checking atty v0.2.6 Sep 20 23:32:47.458 INFO kablam! Checking itertools v0.6.5 Sep 20 23:32:47.478 INFO kablam! Compiling newtype_derive v0.1.6 Sep 20 23:32:48.302 INFO kablam! Compiling fs-utils v1.0.0 Sep 20 23:32:48.534 INFO kablam! Checking clap v2.29.0 Sep 20 23:32:50.260 INFO kablam! Compiling rust-htslib v0.15.0 Sep 20 23:33:25.424 INFO kablam! Checking consensus v0.1.0 (/source) Sep 20 23:33:26.018 INFO kablam! warning: unused import: `std::env` Sep 20 23:33:26.019 INFO kablam! --> src/main.rs:12:5 Sep 20 23:33:26.019 INFO kablam! | Sep 20 23:33:26.019 INFO kablam! 12 | use std::env; Sep 20 23:33:26.020 INFO kablam! | ^^^^^^^^ Sep 20 23:33:26.020 INFO kablam! | Sep 20 23:33:26.021 INFO kablam! = note: #[warn(unused_imports)] on by default Sep 20 23:33:26.021 INFO kablam! Sep 20 23:33:26.022 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Sep 20 23:33:26.022 INFO kablam! --> src/main.rs:16:5 Sep 20 23:33:26.023 INFO kablam! | Sep 20 23:33:26.023 INFO kablam! 16 | use rust_htslib::prelude::*; Sep 20 23:33:26.023 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.023 INFO kablam! Sep 20 23:33:26.024 INFO kablam! warning: unused import: `std::io` Sep 20 23:33:26.024 INFO kablam! --> src/main.rs:21:5 Sep 20 23:33:26.024 INFO kablam! | Sep 20 23:33:26.025 INFO kablam! 21 | use std::io; Sep 20 23:33:26.025 INFO kablam! | ^^^^^^^ Sep 20 23:33:26.025 INFO kablam! Sep 20 23:33:26.026 INFO kablam! warning: unused import: `PathBuf` Sep 20 23:33:26.026 INFO kablam! --> src/main.rs:25:23 Sep 20 23:33:26.026 INFO kablam! | Sep 20 23:33:26.026 INFO kablam! 25 | use std::path::{Path, PathBuf}; Sep 20 23:33:26.027 INFO kablam! | ^^^^^^^ Sep 20 23:33:26.027 INFO kablam! Sep 20 23:33:26.027 INFO kablam! warning: unused import: `SubCommand` Sep 20 23:33:26.028 INFO kablam! --> src/main.rs:26:22 Sep 20 23:33:26.028 INFO kablam! | Sep 20 23:33:26.028 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Sep 20 23:33:26.029 INFO kablam! | ^^^^^^^^^^ Sep 20 23:33:26.029 INFO kablam! Sep 20 23:33:26.029 INFO kablam! warning: unnecessary parentheses around `if` condition Sep 20 23:33:26.029 INFO kablam! --> src/main.rs:218:20 Sep 20 23:33:26.030 INFO kablam! | Sep 20 23:33:26.030 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Sep 20 23:33:26.030 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Sep 20 23:33:26.031 INFO kablam! | Sep 20 23:33:26.031 INFO kablam! = note: #[warn(unused_parens)] on by default Sep 20 23:33:26.031 INFO kablam! Sep 20 23:33:26.032 INFO kablam! warning: unnecessary parentheses around `if` condition Sep 20 23:33:26.032 INFO kablam! --> src/main.rs:239:16 Sep 20 23:33:26.032 INFO kablam! | Sep 20 23:33:26.032 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Sep 20 23:33:26.033 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Sep 20 23:33:26.033 INFO kablam! Sep 20 23:33:26.142 INFO kablam! warning: unused import: `std::env` Sep 20 23:33:26.143 INFO kablam! --> src/main.rs:12:5 Sep 20 23:33:26.143 INFO kablam! | Sep 20 23:33:26.143 INFO kablam! 12 | use std::env; Sep 20 23:33:26.144 INFO kablam! | ^^^^^^^^ Sep 20 23:33:26.144 INFO kablam! | Sep 20 23:33:26.144 INFO kablam! = note: #[warn(unused_imports)] on by default Sep 20 23:33:26.144 INFO kablam! Sep 20 23:33:26.145 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Sep 20 23:33:26.145 INFO kablam! --> src/main.rs:16:5 Sep 20 23:33:26.145 INFO kablam! | Sep 20 23:33:26.146 INFO kablam! 16 | use rust_htslib::prelude::*; Sep 20 23:33:26.146 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.146 INFO kablam! Sep 20 23:33:26.147 INFO kablam! warning: unused import: `std::io` Sep 20 23:33:26.147 INFO kablam! --> src/main.rs:21:5 Sep 20 23:33:26.147 INFO kablam! | Sep 20 23:33:26.148 INFO kablam! 21 | use std::io; Sep 20 23:33:26.148 INFO kablam! | ^^^^^^^ Sep 20 23:33:26.148 INFO kablam! Sep 20 23:33:26.149 INFO kablam! warning: unused import: `PathBuf` Sep 20 23:33:26.149 INFO kablam! --> src/main.rs:25:23 Sep 20 23:33:26.149 INFO kablam! | Sep 20 23:33:26.150 INFO kablam! 25 | use std::path::{Path, PathBuf}; Sep 20 23:33:26.150 INFO kablam! | ^^^^^^^ Sep 20 23:33:26.150 INFO kablam! Sep 20 23:33:26.151 INFO kablam! warning: unused import: `SubCommand` Sep 20 23:33:26.151 INFO kablam! --> src/main.rs:26:22 Sep 20 23:33:26.151 INFO kablam! | Sep 20 23:33:26.152 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Sep 20 23:33:26.152 INFO kablam! | ^^^^^^^^^^ Sep 20 23:33:26.152 INFO kablam! Sep 20 23:33:26.152 INFO kablam! warning: unnecessary parentheses around `if` condition Sep 20 23:33:26.153 INFO kablam! --> src/main.rs:218:20 Sep 20 23:33:26.153 INFO kablam! | Sep 20 23:33:26.153 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Sep 20 23:33:26.154 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Sep 20 23:33:26.154 INFO kablam! | Sep 20 23:33:26.154 INFO kablam! = note: #[warn(unused_parens)] on by default Sep 20 23:33:26.154 INFO kablam! Sep 20 23:33:26.155 INFO kablam! warning: unnecessary parentheses around `if` condition Sep 20 23:33:26.155 INFO kablam! --> src/main.rs:239:16 Sep 20 23:33:26.155 INFO kablam! | Sep 20 23:33:26.156 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Sep 20 23:33:26.156 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Sep 20 23:33:26.156 INFO kablam! Sep 20 23:33:26.322 INFO kablam! warning: unused import: `std::io::prelude` Sep 20 23:33:26.322 INFO kablam! --> src/main.rs:22:5 Sep 20 23:33:26.322 INFO kablam! | Sep 20 23:33:26.322 INFO kablam! 22 | use std::io::prelude::*; Sep 20 23:33:26.322 INFO kablam! | ^^^^^^^^^^^^^^^^ Sep 20 23:33:26.322 INFO kablam! Sep 20 23:33:26.398 INFO kablam! warning: unused variable: `consensus_base` Sep 20 23:33:26.398 INFO kablam! --> src/main.rs:139:9 Sep 20 23:33:26.398 INFO kablam! | Sep 20 23:33:26.398 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Sep 20 23:33:26.398 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Sep 20 23:33:26.398 INFO kablam! | Sep 20 23:33:26.398 INFO kablam! = note: #[warn(unused_variables)] on by default Sep 20 23:33:26.398 INFO kablam! Sep 20 23:33:26.398 INFO kablam! warning: unused variable: `consensus_source_reads` Sep 20 23:33:26.398 INFO kablam! --> src/main.rs:144:13 Sep 20 23:33:26.398 INFO kablam! | Sep 20 23:33:26.398 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Sep 20 23:33:26.398 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Sep 20 23:33:26.398 INFO kablam! Sep 20 23:33:26.398 INFO kablam! warning: unused variable: `chrom` Sep 20 23:33:26.398 INFO kablam! --> src/main.rs:283:121 Sep 20 23:33:26.398 INFO kablam! | Sep 20 23:33:26.398 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) { Sep 20 23:33:26.398 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Sep 20 23:33:26.398 INFO kablam! Sep 20 23:33:26.398 INFO kablam! warning: value assigned to `new_seq_b` is never read Sep 20 23:33:26.398 INFO kablam! --> src/main.rs:370:21 Sep 20 23:33:26.398 INFO kablam! | Sep 20 23:33:26.398 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Sep 20 23:33:26.398 INFO kablam! | ^^^^^^^^^ Sep 20 23:33:26.398 INFO kablam! | Sep 20 23:33:26.398 INFO kablam! = note: #[warn(unused_assignments)] on by default Sep 20 23:33:26.398 INFO kablam! Sep 20 23:33:26.402 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.402 INFO kablam! --> src/main.rs:74:9 Sep 20 23:33:26.402 INFO kablam! | Sep 20 23:33:26.402 INFO kablam! 74 | let mut pair; Sep 20 23:33:26.402 INFO kablam! | ----^^^^ Sep 20 23:33:26.402 INFO kablam! | | Sep 20 23:33:26.402 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.402 INFO kablam! | Sep 20 23:33:26.402 INFO kablam! = note: #[warn(unused_mut)] on by default Sep 20 23:33:26.402 INFO kablam! Sep 20 23:33:26.402 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.402 INFO kablam! --> src/main.rs:75:9 Sep 20 23:33:26.402 INFO kablam! | Sep 20 23:33:26.402 INFO kablam! 75 | let mut strand; Sep 20 23:33:26.402 INFO kablam! | ----^^^^^^ Sep 20 23:33:26.402 INFO kablam! | | Sep 20 23:33:26.402 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.402 INFO kablam! Sep 20 23:33:26.402 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.402 INFO kablam! --> src/main.rs:76:9 Sep 20 23:33:26.402 INFO kablam! | Sep 20 23:33:26.402 INFO kablam! 76 | let mut aln_pos; Sep 20 23:33:26.402 INFO kablam! | ----^^^^^^^ Sep 20 23:33:26.402 INFO kablam! | | Sep 20 23:33:26.402 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.402 INFO kablam! Sep 20 23:33:26.474 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.474 INFO kablam! --> src/main.rs:144:9 Sep 20 23:33:26.474 INFO kablam! | Sep 20 23:33:26.474 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Sep 20 23:33:26.474 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.474 INFO kablam! | | Sep 20 23:33:26.474 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.474 INFO kablam! Sep 20 23:33:26.474 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.474 INFO kablam! --> src/main.rs:151:9 Sep 20 23:33:26.474 INFO kablam! | Sep 20 23:33:26.474 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Sep 20 23:33:26.474 INFO kablam! | ----^^^^^^^^^ Sep 20 23:33:26.474 INFO kablam! | | Sep 20 23:33:26.474 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.474 INFO kablam! Sep 20 23:33:26.504 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.504 INFO kablam! --> src/main.rs:338:9 Sep 20 23:33:26.504 INFO kablam! | Sep 20 23:33:26.504 INFO kablam! 338 | let mut need_trim:bool; Sep 20 23:33:26.504 INFO kablam! | ----^^^^^^^^^ Sep 20 23:33:26.504 INFO kablam! | | Sep 20 23:33:26.504 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.506 INFO kablam! Sep 20 23:33:26.506 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.506 INFO kablam! --> src/main.rs:355:9 Sep 20 23:33:26.506 INFO kablam! | Sep 20 23:33:26.506 INFO kablam! 355 | let mut chrom = 0; Sep 20 23:33:26.506 INFO kablam! | ----^^^^^ Sep 20 23:33:26.506 INFO kablam! | | Sep 20 23:33:26.506 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.506 INFO kablam! Sep 20 23:33:26.506 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Sep 20 23:33:26.506 INFO kablam! --> src/main.rs:68:1 Sep 20 23:33:26.506 INFO kablam! | Sep 20 23:33:26.506 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Sep 20 23:33:26.506 INFO kablam! 69 | | Sep 20 23:33:26.506 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Sep 20 23:33:26.506 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Sep 20 23:33:26.506 INFO kablam! ... | Sep 20 23:33:26.506 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Sep 20 23:33:26.506 INFO kablam! 98 | | } Sep 20 23:33:26.506 INFO kablam! | |_^ Sep 20 23:33:26.506 INFO kablam! | Sep 20 23:33:26.506 INFO kablam! = note: #[warn(non_snake_case)] on by default Sep 20 23:33:26.506 INFO kablam! Sep 20 23:33:26.514 INFO kablam! warning: unused import: `std::io::prelude` Sep 20 23:33:26.514 INFO kablam! --> src/main.rs:22:5 Sep 20 23:33:26.514 INFO kablam! | Sep 20 23:33:26.514 INFO kablam! 22 | use std::io::prelude::*; Sep 20 23:33:26.514 INFO kablam! | ^^^^^^^^^^^^^^^^ Sep 20 23:33:26.514 INFO kablam! Sep 20 23:33:26.522 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Sep 20 23:33:26.522 INFO kablam! --> src/main.rs:147:9 Sep 20 23:33:26.522 INFO kablam! | Sep 20 23:33:26.522 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Sep 20 23:33:26.522 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.522 INFO kablam! Sep 20 23:33:26.522 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Sep 20 23:33:26.522 INFO kablam! --> src/main.rs:148:9 Sep 20 23:33:26.522 INFO kablam! | Sep 20 23:33:26.522 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Sep 20 23:33:26.522 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.522 INFO kablam! Sep 20 23:33:26.522 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.522 INFO kablam! --> src/main.rs:267:9 Sep 20 23:33:26.522 INFO kablam! | Sep 20 23:33:26.522 INFO kablam! 267 | o_buff.write(&member_record.2); Sep 20 23:33:26.522 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.522 INFO kablam! | Sep 20 23:33:26.522 INFO kablam! = note: #[warn(unused_must_use)] on by default Sep 20 23:33:26.522 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.522 INFO kablam! Sep 20 23:33:26.522 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.522 INFO kablam! --> src/main.rs:269:9 Sep 20 23:33:26.522 INFO kablam! | Sep 20 23:33:26.522 INFO kablam! 269 | o_buff.write(&member_record.0); Sep 20 23:33:26.522 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.522 INFO kablam! | Sep 20 23:33:26.522 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.522 INFO kablam! Sep 20 23:33:26.522 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.522 INFO kablam! --> src/main.rs:272:9 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 272 | o_buff.write(&real_qual_temp); Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.523 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.523 INFO kablam! --> src/main.rs:274:5 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 274 | o_buff.write(b"\n"); Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.523 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.523 INFO kablam! --> src/main.rs:277:5 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 277 | o_buff.write(b"\n"); Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.523 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.523 INFO kablam! --> src/main.rs:280:5 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 280 | o_buff.write(b"\n"); Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.523 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Sep 20 23:33:26.523 INFO kablam! --> src/main.rs:286:10 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.523 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Sep 20 23:33:26.523 INFO kablam! --> src/main.rs:357:9 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.523 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Sep 20 23:33:26.523 INFO kablam! --> src/main.rs:387:17 Sep 20 23:33:26.523 INFO kablam! | Sep 20 23:33:26.523 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Sep 20 23:33:26.523 INFO kablam! | ^^^^^^^^^^^^ Sep 20 23:33:26.523 INFO kablam! Sep 20 23:33:26.582 INFO kablam! warning: unused variable: `consensus_base` Sep 20 23:33:26.582 INFO kablam! --> src/main.rs:139:9 Sep 20 23:33:26.582 INFO kablam! | Sep 20 23:33:26.582 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Sep 20 23:33:26.582 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Sep 20 23:33:26.582 INFO kablam! | Sep 20 23:33:26.590 INFO kablam! = note: #[warn(unused_variables)] on by default Sep 20 23:33:26.590 INFO kablam! Sep 20 23:33:26.590 INFO kablam! warning: unused variable: `consensus_source_reads` Sep 20 23:33:26.590 INFO kablam! --> src/main.rs:144:13 Sep 20 23:33:26.590 INFO kablam! | Sep 20 23:33:26.590 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Sep 20 23:33:26.590 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Sep 20 23:33:26.590 INFO kablam! Sep 20 23:33:26.590 INFO kablam! warning: unused variable: `chrom` Sep 20 23:33:26.590 INFO kablam! --> src/main.rs:283:121 Sep 20 23:33:26.590 INFO kablam! | Sep 20 23:33:26.590 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) { Sep 20 23:33:26.590 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Sep 20 23:33:26.590 INFO kablam! Sep 20 23:33:26.590 INFO kablam! warning: value assigned to `new_seq_b` is never read Sep 20 23:33:26.590 INFO kablam! --> src/main.rs:370:21 Sep 20 23:33:26.590 INFO kablam! | Sep 20 23:33:26.590 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Sep 20 23:33:26.590 INFO kablam! | ^^^^^^^^^ Sep 20 23:33:26.590 INFO kablam! | Sep 20 23:33:26.590 INFO kablam! = note: #[warn(unused_assignments)] on by default Sep 20 23:33:26.590 INFO kablam! Sep 20 23:33:26.598 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.598 INFO kablam! --> src/main.rs:74:9 Sep 20 23:33:26.598 INFO kablam! | Sep 20 23:33:26.598 INFO kablam! 74 | let mut pair; Sep 20 23:33:26.598 INFO kablam! | ----^^^^ Sep 20 23:33:26.598 INFO kablam! | | Sep 20 23:33:26.598 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.598 INFO kablam! | Sep 20 23:33:26.598 INFO kablam! = note: #[warn(unused_mut)] on by default Sep 20 23:33:26.598 INFO kablam! Sep 20 23:33:26.598 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.598 INFO kablam! --> src/main.rs:75:9 Sep 20 23:33:26.598 INFO kablam! | Sep 20 23:33:26.598 INFO kablam! 75 | let mut strand; Sep 20 23:33:26.598 INFO kablam! | ----^^^^^^ Sep 20 23:33:26.598 INFO kablam! | | Sep 20 23:33:26.598 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.598 INFO kablam! Sep 20 23:33:26.598 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.598 INFO kablam! --> src/main.rs:76:9 Sep 20 23:33:26.598 INFO kablam! | Sep 20 23:33:26.598 INFO kablam! 76 | let mut aln_pos; Sep 20 23:33:26.598 INFO kablam! | ----^^^^^^^ Sep 20 23:33:26.598 INFO kablam! | | Sep 20 23:33:26.598 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.598 INFO kablam! Sep 20 23:33:26.642 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.642 INFO kablam! --> src/main.rs:144:9 Sep 20 23:33:26.642 INFO kablam! | Sep 20 23:33:26.642 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Sep 20 23:33:26.642 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.642 INFO kablam! | | Sep 20 23:33:26.642 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.642 INFO kablam! Sep 20 23:33:26.642 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.642 INFO kablam! --> src/main.rs:151:9 Sep 20 23:33:26.642 INFO kablam! | Sep 20 23:33:26.642 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Sep 20 23:33:26.642 INFO kablam! | ----^^^^^^^^^ Sep 20 23:33:26.642 INFO kablam! | | Sep 20 23:33:26.642 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.642 INFO kablam! Sep 20 23:33:26.658 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.658 INFO kablam! --> src/main.rs:338:9 Sep 20 23:33:26.658 INFO kablam! | Sep 20 23:33:26.658 INFO kablam! 338 | let mut need_trim:bool; Sep 20 23:33:26.658 INFO kablam! | ----^^^^^^^^^ Sep 20 23:33:26.658 INFO kablam! | | Sep 20 23:33:26.658 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.658 INFO kablam! Sep 20 23:33:26.658 INFO kablam! warning: variable does not need to be mutable Sep 20 23:33:26.658 INFO kablam! --> src/main.rs:355:9 Sep 20 23:33:26.658 INFO kablam! | Sep 20 23:33:26.658 INFO kablam! 355 | let mut chrom = 0; Sep 20 23:33:26.658 INFO kablam! | ----^^^^^ Sep 20 23:33:26.658 INFO kablam! | | Sep 20 23:33:26.658 INFO kablam! | help: remove this `mut` Sep 20 23:33:26.658 INFO kablam! Sep 20 23:33:26.666 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Sep 20 23:33:26.666 INFO kablam! --> src/main.rs:68:1 Sep 20 23:33:26.666 INFO kablam! | Sep 20 23:33:26.666 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Sep 20 23:33:26.666 INFO kablam! 69 | | Sep 20 23:33:26.666 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Sep 20 23:33:26.666 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Sep 20 23:33:26.666 INFO kablam! ... | Sep 20 23:33:26.666 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Sep 20 23:33:26.666 INFO kablam! 98 | | } Sep 20 23:33:26.666 INFO kablam! | |_^ Sep 20 23:33:26.666 INFO kablam! | Sep 20 23:33:26.666 INFO kablam! = note: #[warn(non_snake_case)] on by default Sep 20 23:33:26.666 INFO kablam! Sep 20 23:33:26.666 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Sep 20 23:33:26.666 INFO kablam! --> src/main.rs:147:9 Sep 20 23:33:26.666 INFO kablam! | Sep 20 23:33:26.666 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Sep 20 23:33:26.666 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.666 INFO kablam! Sep 20 23:33:26.666 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Sep 20 23:33:26.666 INFO kablam! --> src/main.rs:148:9 Sep 20 23:33:26.666 INFO kablam! | Sep 20 23:33:26.666 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Sep 20 23:33:26.666 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.666 INFO kablam! Sep 20 23:33:26.666 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.666 INFO kablam! --> src/main.rs:267:9 Sep 20 23:33:26.666 INFO kablam! | Sep 20 23:33:26.666 INFO kablam! 267 | o_buff.write(&member_record.2); Sep 20 23:33:26.666 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.666 INFO kablam! | Sep 20 23:33:26.666 INFO kablam! = note: #[warn(unused_must_use)] on by default Sep 20 23:33:26.666 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:269:9 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 269 | o_buff.write(&member_record.0); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:272:9 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 272 | o_buff.write(&real_qual_temp); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:274:5 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 274 | o_buff.write(b"\n"); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:277:5 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 277 | o_buff.write(b"\n"); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: unused `std::result::Result` which must be used Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:280:5 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 280 | o_buff.write(b"\n"); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:286:10 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:357:9 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.667 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Sep 20 23:33:26.667 INFO kablam! --> src/main.rs:387:17 Sep 20 23:33:26.667 INFO kablam! | Sep 20 23:33:26.667 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Sep 20 23:33:26.667 INFO kablam! | ^^^^^^^^^^^^ Sep 20 23:33:26.667 INFO kablam! Sep 20 23:33:26.690 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 39.32s Sep 20 23:33:26.693 INFO kablam! su: No module specific data is present Sep 20 23:33:27.729 INFO running `"docker" "rm" "-f" "782a127a58602cfd3d2a415855a7f36ed8ab081544d39fae4b1cd56b430183db"` Sep 20 23:33:27.849 INFO blam! 782a127a58602cfd3d2a415855a7f36ed8ab081544d39fae4b1cd56b430183db