Aug 29 20:47:00.711 INFO checking TuBieJun/consensus against master#ede55518431154bc761f7b2438cce9078c162700 for pr-53707 Aug 29 20:47:00.711 INFO running: cargo +ede55518431154bc761f7b2438cce9078c162700-alt check --frozen --all --all-targets Aug 29 20:47:00.711 INFO running `"docker" "create" "-v" "/home/ec2-user/crater/./work/local/test-source/worker-3/pr-53707/master#ede55518431154bc761f7b2438cce9078c162700:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/pr-53707/worker-3/master#ede55518431154bc761f7b2438cce9078c162700:/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=500" "-e" "CMD=cargo +ede55518431154bc761f7b2438cce9078c162700-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-m" "2G" "crater"` Aug 29 20:47:00.944 INFO blam! 9187b10a7789e1bde6eb5ee07cdd8bb95a01af3ec67a8cf897bb531be8f8366c Aug 29 20:47:00.945 INFO running `"docker" "start" "-a" "9187b10a7789e1bde6eb5ee07cdd8bb95a01af3ec67a8cf897bb531be8f8366c"` Aug 29 20:47:01.890 INFO kablam! Compiling quick-error v1.2.1 Aug 29 20:47:01.891 INFO kablam! Checking ieee754 v0.2.2 Aug 29 20:47:01.897 INFO kablam! Checking custom_derive v0.1.7 Aug 29 20:47:01.941 INFO kablam! Checking atty v0.2.6 Aug 29 20:47:01.943 INFO kablam! Checking itertools v0.6.5 Aug 29 20:47:01.951 INFO kablam! Compiling newtype_derive v0.1.6 Aug 29 20:47:02.941 INFO kablam! Compiling fs-utils v1.0.0 Aug 29 20:47:03.221 INFO kablam! Checking clap v2.29.0 Aug 29 20:47:04.886 INFO kablam! Compiling rust-htslib v0.15.0 Aug 29 20:47:44.453 INFO kablam! Checking consensus v0.1.0 (file:///source) Aug 29 20:47:45.336 INFO kablam! warning: unused import: `std::env` Aug 29 20:47:45.336 INFO kablam! --> src/main.rs:12:5 Aug 29 20:47:45.336 INFO kablam! | Aug 29 20:47:45.336 INFO kablam! 12 | use std::env; Aug 29 20:47:45.336 INFO kablam! | ^^^^^^^^ Aug 29 20:47:45.336 INFO kablam! | Aug 29 20:47:45.336 INFO kablam! = note: #[warn(unused_imports)] on by default Aug 29 20:47:45.336 INFO kablam! Aug 29 20:47:45.338 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Aug 29 20:47:45.338 INFO kablam! --> src/main.rs:16:5 Aug 29 20:47:45.338 INFO kablam! | Aug 29 20:47:45.338 INFO kablam! 16 | use rust_htslib::prelude::*; Aug 29 20:47:45.338 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.338 INFO kablam! Aug 29 20:47:45.338 INFO kablam! warning: unused import: `std::io` Aug 29 20:47:45.338 INFO kablam! --> src/main.rs:21:5 Aug 29 20:47:45.338 INFO kablam! | Aug 29 20:47:45.338 INFO kablam! 21 | use std::io; Aug 29 20:47:45.338 INFO kablam! | ^^^^^^^ Aug 29 20:47:45.338 INFO kablam! Aug 29 20:47:45.338 INFO kablam! warning: unused import: `PathBuf` Aug 29 20:47:45.338 INFO kablam! --> src/main.rs:25:23 Aug 29 20:47:45.338 INFO kablam! | Aug 29 20:47:45.338 INFO kablam! 25 | use std::path::{Path, PathBuf}; Aug 29 20:47:45.338 INFO kablam! | ^^^^^^^ Aug 29 20:47:45.338 INFO kablam! Aug 29 20:47:45.338 INFO kablam! warning: unused import: `SubCommand` Aug 29 20:47:45.338 INFO kablam! --> src/main.rs:26:22 Aug 29 20:47:45.338 INFO kablam! | Aug 29 20:47:45.338 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Aug 29 20:47:45.339 INFO kablam! | ^^^^^^^^^^ Aug 29 20:47:45.339 INFO kablam! Aug 29 20:47:45.339 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 29 20:47:45.339 INFO kablam! --> src/main.rs:218:20 Aug 29 20:47:45.340 INFO kablam! | Aug 29 20:47:45.340 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Aug 29 20:47:45.340 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 29 20:47:45.340 INFO kablam! | Aug 29 20:47:45.340 INFO kablam! = note: #[warn(unused_parens)] on by default Aug 29 20:47:45.340 INFO kablam! Aug 29 20:47:45.340 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 29 20:47:45.340 INFO kablam! --> src/main.rs:239:16 Aug 29 20:47:45.340 INFO kablam! | Aug 29 20:47:45.340 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Aug 29 20:47:45.340 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 29 20:47:45.340 INFO kablam! Aug 29 20:47:45.405 INFO kablam! warning: unused import: `std::env` Aug 29 20:47:45.405 INFO kablam! --> src/main.rs:12:5 Aug 29 20:47:45.405 INFO kablam! | Aug 29 20:47:45.405 INFO kablam! 12 | use std::env; Aug 29 20:47:45.405 INFO kablam! | ^^^^^^^^ Aug 29 20:47:45.405 INFO kablam! | Aug 29 20:47:45.405 INFO kablam! = note: #[warn(unused_imports)] on by default Aug 29 20:47:45.405 INFO kablam! Aug 29 20:47:45.405 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Aug 29 20:47:45.405 INFO kablam! --> src/main.rs:16:5 Aug 29 20:47:45.405 INFO kablam! | Aug 29 20:47:45.405 INFO kablam! 16 | use rust_htslib::prelude::*; Aug 29 20:47:45.405 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.405 INFO kablam! Aug 29 20:47:45.405 INFO kablam! warning: unused import: `std::io` Aug 29 20:47:45.406 INFO kablam! --> src/main.rs:21:5 Aug 29 20:47:45.406 INFO kablam! | Aug 29 20:47:45.406 INFO kablam! 21 | use std::io; Aug 29 20:47:45.406 INFO kablam! | ^^^^^^^ Aug 29 20:47:45.406 INFO kablam! Aug 29 20:47:45.406 INFO kablam! warning: unused import: `PathBuf` Aug 29 20:47:45.406 INFO kablam! --> src/main.rs:25:23 Aug 29 20:47:45.406 INFO kablam! | Aug 29 20:47:45.406 INFO kablam! 25 | use std::path::{Path, PathBuf}; Aug 29 20:47:45.406 INFO kablam! | ^^^^^^^ Aug 29 20:47:45.406 INFO kablam! Aug 29 20:47:45.406 INFO kablam! warning: unused import: `SubCommand` Aug 29 20:47:45.406 INFO kablam! --> src/main.rs:26:22 Aug 29 20:47:45.406 INFO kablam! | Aug 29 20:47:45.406 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Aug 29 20:47:45.406 INFO kablam! | ^^^^^^^^^^ Aug 29 20:47:45.406 INFO kablam! Aug 29 20:47:45.406 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 29 20:47:45.406 INFO kablam! --> src/main.rs:218:20 Aug 29 20:47:45.406 INFO kablam! | Aug 29 20:47:45.406 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Aug 29 20:47:45.406 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 29 20:47:45.406 INFO kablam! | Aug 29 20:47:45.406 INFO kablam! = note: #[warn(unused_parens)] on by default Aug 29 20:47:45.406 INFO kablam! Aug 29 20:47:45.406 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 29 20:47:45.406 INFO kablam! --> src/main.rs:239:16 Aug 29 20:47:45.406 INFO kablam! | Aug 29 20:47:45.406 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Aug 29 20:47:45.406 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 29 20:47:45.406 INFO kablam! Aug 29 20:47:45.682 INFO kablam! warning: unused import: `std::io::prelude` Aug 29 20:47:45.682 INFO kablam! --> src/main.rs:22:5 Aug 29 20:47:45.682 INFO kablam! | Aug 29 20:47:45.682 INFO kablam! 22 | use std::io::prelude::*; Aug 29 20:47:45.682 INFO kablam! | ^^^^^^^^^^^^^^^^ Aug 29 20:47:45.682 INFO kablam! Aug 29 20:47:45.753 INFO kablam! warning: unused import: `std::io::prelude` Aug 29 20:47:45.753 INFO kablam! --> src/main.rs:22:5 Aug 29 20:47:45.753 INFO kablam! | Aug 29 20:47:45.753 INFO kablam! 22 | use std::io::prelude::*; Aug 29 20:47:45.753 INFO kablam! | ^^^^^^^^^^^^^^^^ Aug 29 20:47:45.753 INFO kablam! Aug 29 20:47:45.758 INFO kablam! warning: unused variable: `consensus_base` Aug 29 20:47:45.758 INFO kablam! --> src/main.rs:139:9 Aug 29 20:47:45.758 INFO kablam! | Aug 29 20:47:45.758 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Aug 29 20:47:45.758 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Aug 29 20:47:45.758 INFO kablam! | Aug 29 20:47:45.758 INFO kablam! = note: #[warn(unused_variables)] on by default Aug 29 20:47:45.758 INFO kablam! Aug 29 20:47:45.759 INFO kablam! warning: unused variable: `consensus_source_reads` Aug 29 20:47:45.759 INFO kablam! --> src/main.rs:144:13 Aug 29 20:47:45.759 INFO kablam! | Aug 29 20:47:45.759 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 29 20:47:45.759 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Aug 29 20:47:45.759 INFO kablam! Aug 29 20:47:45.759 INFO kablam! warning: unused variable: `chrom` Aug 29 20:47:45.759 INFO kablam! --> src/main.rs:283:121 Aug 29 20:47:45.759 INFO kablam! | Aug 29 20:47:45.759 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 29 20:47:45.759 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Aug 29 20:47:45.759 INFO kablam! Aug 29 20:47:45.759 INFO kablam! warning: value assigned to `new_seq_b` is never read Aug 29 20:47:45.759 INFO kablam! --> src/main.rs:370:21 Aug 29 20:47:45.759 INFO kablam! | Aug 29 20:47:45.759 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Aug 29 20:47:45.759 INFO kablam! | ^^^^^^^^^ Aug 29 20:47:45.759 INFO kablam! | Aug 29 20:47:45.759 INFO kablam! = note: #[warn(unused_assignments)] on by default Aug 29 20:47:45.759 INFO kablam! Aug 29 20:47:45.775 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.775 INFO kablam! --> src/main.rs:74:9 Aug 29 20:47:45.775 INFO kablam! | Aug 29 20:47:45.775 INFO kablam! 74 | let mut pair; Aug 29 20:47:45.775 INFO kablam! | ----^^^^ Aug 29 20:47:45.775 INFO kablam! | | Aug 29 20:47:45.775 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.775 INFO kablam! | Aug 29 20:47:45.775 INFO kablam! = note: #[warn(unused_mut)] on by default Aug 29 20:47:45.775 INFO kablam! Aug 29 20:47:45.775 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.775 INFO kablam! --> src/main.rs:75:9 Aug 29 20:47:45.775 INFO kablam! | Aug 29 20:47:45.775 INFO kablam! 75 | let mut strand; Aug 29 20:47:45.775 INFO kablam! | ----^^^^^^ Aug 29 20:47:45.775 INFO kablam! | | Aug 29 20:47:45.775 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.775 INFO kablam! Aug 29 20:47:45.775 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.776 INFO kablam! --> src/main.rs:76:9 Aug 29 20:47:45.776 INFO kablam! | Aug 29 20:47:45.776 INFO kablam! 76 | let mut aln_pos; Aug 29 20:47:45.776 INFO kablam! | ----^^^^^^^ Aug 29 20:47:45.776 INFO kablam! | | Aug 29 20:47:45.776 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.776 INFO kablam! Aug 29 20:47:45.821 INFO kablam! warning: unused variable: `consensus_base` Aug 29 20:47:45.821 INFO kablam! --> src/main.rs:139:9 Aug 29 20:47:45.821 INFO kablam! | Aug 29 20:47:45.821 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Aug 29 20:47:45.821 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Aug 29 20:47:45.821 INFO kablam! | Aug 29 20:47:45.821 INFO kablam! = note: #[warn(unused_variables)] on by default Aug 29 20:47:45.821 INFO kablam! Aug 29 20:47:45.822 INFO kablam! warning: unused variable: `consensus_source_reads` Aug 29 20:47:45.822 INFO kablam! --> src/main.rs:144:13 Aug 29 20:47:45.822 INFO kablam! | Aug 29 20:47:45.822 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 29 20:47:45.822 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Aug 29 20:47:45.822 INFO kablam! Aug 29 20:47:45.822 INFO kablam! warning: unused variable: `chrom` Aug 29 20:47:45.822 INFO kablam! --> src/main.rs:283:121 Aug 29 20:47:45.822 INFO kablam! | Aug 29 20:47:45.822 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 29 20:47:45.822 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Aug 29 20:47:45.822 INFO kablam! Aug 29 20:47:45.822 INFO kablam! warning: value assigned to `new_seq_b` is never read Aug 29 20:47:45.822 INFO kablam! --> src/main.rs:370:21 Aug 29 20:47:45.823 INFO kablam! | Aug 29 20:47:45.823 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Aug 29 20:47:45.823 INFO kablam! | ^^^^^^^^^ Aug 29 20:47:45.823 INFO kablam! | Aug 29 20:47:45.823 INFO kablam! = note: #[warn(unused_assignments)] on by default Aug 29 20:47:45.823 INFO kablam! Aug 29 20:47:45.835 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.835 INFO kablam! --> src/main.rs:74:9 Aug 29 20:47:45.835 INFO kablam! | Aug 29 20:47:45.835 INFO kablam! 74 | let mut pair; Aug 29 20:47:45.835 INFO kablam! | ----^^^^ Aug 29 20:47:45.835 INFO kablam! | | Aug 29 20:47:45.835 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.835 INFO kablam! | Aug 29 20:47:45.835 INFO kablam! = note: #[warn(unused_mut)] on by default Aug 29 20:47:45.835 INFO kablam! Aug 29 20:47:45.836 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.836 INFO kablam! --> src/main.rs:75:9 Aug 29 20:47:45.836 INFO kablam! | Aug 29 20:47:45.836 INFO kablam! 75 | let mut strand; Aug 29 20:47:45.836 INFO kablam! | ----^^^^^^ Aug 29 20:47:45.836 INFO kablam! | | Aug 29 20:47:45.836 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.836 INFO kablam! Aug 29 20:47:45.836 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.836 INFO kablam! --> src/main.rs:76:9 Aug 29 20:47:45.836 INFO kablam! | Aug 29 20:47:45.836 INFO kablam! 76 | let mut aln_pos; Aug 29 20:47:45.836 INFO kablam! | ----^^^^^^^ Aug 29 20:47:45.837 INFO kablam! | | Aug 29 20:47:45.837 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.837 INFO kablam! Aug 29 20:47:45.844 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.844 INFO kablam! --> src/main.rs:144:9 Aug 29 20:47:45.844 INFO kablam! | Aug 29 20:47:45.844 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 29 20:47:45.844 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.844 INFO kablam! | | Aug 29 20:47:45.844 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.844 INFO kablam! Aug 29 20:47:45.845 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.845 INFO kablam! --> src/main.rs:151:9 Aug 29 20:47:45.845 INFO kablam! | Aug 29 20:47:45.845 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Aug 29 20:47:45.845 INFO kablam! | ----^^^^^^^^^ Aug 29 20:47:45.845 INFO kablam! | | Aug 29 20:47:45.845 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.845 INFO kablam! Aug 29 20:47:45.877 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.878 INFO kablam! --> src/main.rs:338:9 Aug 29 20:47:45.879 INFO kablam! | Aug 29 20:47:45.879 INFO kablam! 338 | let mut need_trim:bool; Aug 29 20:47:45.879 INFO kablam! | ----^^^^^^^^^ Aug 29 20:47:45.879 INFO kablam! | | Aug 29 20:47:45.879 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.879 INFO kablam! Aug 29 20:47:45.880 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.880 INFO kablam! --> src/main.rs:355:9 Aug 29 20:47:45.880 INFO kablam! | Aug 29 20:47:45.880 INFO kablam! 355 | let mut chrom = 0; Aug 29 20:47:45.880 INFO kablam! | ----^^^^^ Aug 29 20:47:45.880 INFO kablam! | | Aug 29 20:47:45.880 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.880 INFO kablam! Aug 29 20:47:45.880 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Aug 29 20:47:45.880 INFO kablam! --> src/main.rs:68:1 Aug 29 20:47:45.880 INFO kablam! | Aug 29 20:47:45.880 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Aug 29 20:47:45.880 INFO kablam! 69 | | Aug 29 20:47:45.880 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Aug 29 20:47:45.880 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Aug 29 20:47:45.881 INFO kablam! ... | Aug 29 20:47:45.881 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Aug 29 20:47:45.881 INFO kablam! 98 | | } Aug 29 20:47:45.881 INFO kablam! | |_^ Aug 29 20:47:45.881 INFO kablam! | Aug 29 20:47:45.881 INFO kablam! = note: #[warn(non_snake_case)] on by default Aug 29 20:47:45.881 INFO kablam! Aug 29 20:47:45.881 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Aug 29 20:47:45.881 INFO kablam! --> src/main.rs:147:9 Aug 29 20:47:45.881 INFO kablam! | Aug 29 20:47:45.881 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Aug 29 20:47:45.881 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.886 INFO kablam! Aug 29 20:47:45.886 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Aug 29 20:47:45.886 INFO kablam! --> src/main.rs:148:9 Aug 29 20:47:45.886 INFO kablam! | Aug 29 20:47:45.887 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Aug 29 20:47:45.887 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.887 INFO kablam! Aug 29 20:47:45.888 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.888 INFO kablam! --> src/main.rs:267:9 Aug 29 20:47:45.888 INFO kablam! | Aug 29 20:47:45.888 INFO kablam! 267 | o_buff.write(&member_record.2); Aug 29 20:47:45.888 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.889 INFO kablam! | Aug 29 20:47:45.889 INFO kablam! = note: #[warn(unused_must_use)] on by default Aug 29 20:47:45.889 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.889 INFO kablam! Aug 29 20:47:45.890 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.890 INFO kablam! --> src/main.rs:269:9 Aug 29 20:47:45.890 INFO kablam! | Aug 29 20:47:45.890 INFO kablam! 269 | o_buff.write(&member_record.0); Aug 29 20:47:45.890 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.891 INFO kablam! | Aug 29 20:47:45.891 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.891 INFO kablam! --> src/main.rs:144:9 Aug 29 20:47:45.891 INFO kablam! | Aug 29 20:47:45.891 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 29 20:47:45.891 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.891 INFO kablam! | | Aug 29 20:47:45.891 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.891 INFO kablam! Aug 29 20:47:45.891 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.891 INFO kablam! --> src/main.rs:151:9 Aug 29 20:47:45.891 INFO kablam! | Aug 29 20:47:45.891 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Aug 29 20:47:45.891 INFO kablam! | ----^^^^^^^^^ Aug 29 20:47:45.891 INFO kablam! | | Aug 29 20:47:45.891 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.891 INFO kablam! Aug 29 20:47:45.892 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.892 INFO kablam! Aug 29 20:47:45.893 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.893 INFO kablam! --> src/main.rs:272:9 Aug 29 20:47:45.893 INFO kablam! | Aug 29 20:47:45.893 INFO kablam! 272 | o_buff.write(&real_qual_temp); Aug 29 20:47:45.893 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.893 INFO kablam! | Aug 29 20:47:45.894 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.894 INFO kablam! Aug 29 20:47:45.894 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.894 INFO kablam! --> src/main.rs:274:5 Aug 29 20:47:45.894 INFO kablam! | Aug 29 20:47:45.895 INFO kablam! 274 | o_buff.write(b"\n"); Aug 29 20:47:45.895 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.895 INFO kablam! | Aug 29 20:47:45.895 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.896 INFO kablam! Aug 29 20:47:45.896 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.896 INFO kablam! --> src/main.rs:277:5 Aug 29 20:47:45.896 INFO kablam! | Aug 29 20:47:45.896 INFO kablam! 277 | o_buff.write(b"\n"); Aug 29 20:47:45.896 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.897 INFO kablam! | Aug 29 20:47:45.897 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.897 INFO kablam! Aug 29 20:47:45.898 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.898 INFO kablam! --> src/main.rs:280:5 Aug 29 20:47:45.898 INFO kablam! | Aug 29 20:47:45.898 INFO kablam! 280 | o_buff.write(b"\n"); Aug 29 20:47:45.898 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.898 INFO kablam! | Aug 29 20:47:45.898 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.899 INFO kablam! Aug 29 20:47:45.899 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 29 20:47:45.899 INFO kablam! --> src/main.rs:286:10 Aug 29 20:47:45.899 INFO kablam! | Aug 29 20:47:45.899 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Aug 29 20:47:45.900 INFO kablam! | ^^^^^^^^^^^^ Aug 29 20:47:45.900 INFO kablam! Aug 29 20:47:45.901 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Aug 29 20:47:45.901 INFO kablam! --> src/main.rs:357:9 Aug 29 20:47:45.901 INFO kablam! | Aug 29 20:47:45.901 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Aug 29 20:47:45.901 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.901 INFO kablam! Aug 29 20:47:45.902 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 29 20:47:45.902 INFO kablam! --> src/main.rs:387:17 Aug 29 20:47:45.902 INFO kablam! | Aug 29 20:47:45.902 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Aug 29 20:47:45.902 INFO kablam! | ^^^^^^^^^^^^ Aug 29 20:47:45.905 INFO kablam! Aug 29 20:47:45.921 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.921 INFO kablam! --> src/main.rs:338:9 Aug 29 20:47:45.921 INFO kablam! | Aug 29 20:47:45.921 INFO kablam! 338 | let mut need_trim:bool; Aug 29 20:47:45.921 INFO kablam! | ----^^^^^^^^^ Aug 29 20:47:45.921 INFO kablam! | | Aug 29 20:47:45.921 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.921 INFO kablam! Aug 29 20:47:45.921 INFO kablam! warning: variable does not need to be mutable Aug 29 20:47:45.921 INFO kablam! --> src/main.rs:355:9 Aug 29 20:47:45.921 INFO kablam! | Aug 29 20:47:45.921 INFO kablam! 355 | let mut chrom = 0; Aug 29 20:47:45.921 INFO kablam! | ----^^^^^ Aug 29 20:47:45.921 INFO kablam! | | Aug 29 20:47:45.921 INFO kablam! | help: remove this `mut` Aug 29 20:47:45.921 INFO kablam! Aug 29 20:47:45.924 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Aug 29 20:47:45.924 INFO kablam! --> src/main.rs:68:1 Aug 29 20:47:45.924 INFO kablam! | Aug 29 20:47:45.924 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Aug 29 20:47:45.924 INFO kablam! 69 | | Aug 29 20:47:45.924 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Aug 29 20:47:45.924 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Aug 29 20:47:45.924 INFO kablam! ... | Aug 29 20:47:45.924 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Aug 29 20:47:45.924 INFO kablam! 98 | | } Aug 29 20:47:45.924 INFO kablam! | |_^ Aug 29 20:47:45.924 INFO kablam! | Aug 29 20:47:45.924 INFO kablam! = note: #[warn(non_snake_case)] on by default Aug 29 20:47:45.924 INFO kablam! Aug 29 20:47:45.925 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Aug 29 20:47:45.925 INFO kablam! --> src/main.rs:147:9 Aug 29 20:47:45.925 INFO kablam! | Aug 29 20:47:45.925 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Aug 29 20:47:45.925 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.925 INFO kablam! Aug 29 20:47:45.926 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Aug 29 20:47:45.926 INFO kablam! --> src/main.rs:148:9 Aug 29 20:47:45.926 INFO kablam! | Aug 29 20:47:45.926 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Aug 29 20:47:45.926 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.926 INFO kablam! Aug 29 20:47:45.926 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.926 INFO kablam! --> src/main.rs:267:9 Aug 29 20:47:45.926 INFO kablam! | Aug 29 20:47:45.927 INFO kablam! 267 | o_buff.write(&member_record.2); Aug 29 20:47:45.927 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.927 INFO kablam! | Aug 29 20:47:45.927 INFO kablam! = note: #[warn(unused_must_use)] on by default Aug 29 20:47:45.927 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.927 INFO kablam! Aug 29 20:47:45.927 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.927 INFO kablam! --> src/main.rs:269:9 Aug 29 20:47:45.927 INFO kablam! | Aug 29 20:47:45.927 INFO kablam! 269 | o_buff.write(&member_record.0); Aug 29 20:47:45.927 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.927 INFO kablam! | Aug 29 20:47:45.927 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.928 INFO kablam! Aug 29 20:47:45.928 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.928 INFO kablam! --> src/main.rs:272:9 Aug 29 20:47:45.928 INFO kablam! | Aug 29 20:47:45.928 INFO kablam! 272 | o_buff.write(&real_qual_temp); Aug 29 20:47:45.928 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.928 INFO kablam! | Aug 29 20:47:45.928 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.928 INFO kablam! Aug 29 20:47:45.929 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.929 INFO kablam! --> src/main.rs:274:5 Aug 29 20:47:45.929 INFO kablam! | Aug 29 20:47:45.929 INFO kablam! 274 | o_buff.write(b"\n"); Aug 29 20:47:45.929 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.929 INFO kablam! | Aug 29 20:47:45.929 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.929 INFO kablam! Aug 29 20:47:45.929 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.929 INFO kablam! --> src/main.rs:277:5 Aug 29 20:47:45.929 INFO kablam! | Aug 29 20:47:45.929 INFO kablam! 277 | o_buff.write(b"\n"); Aug 29 20:47:45.930 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.930 INFO kablam! | Aug 29 20:47:45.930 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.930 INFO kablam! Aug 29 20:47:45.930 INFO kablam! warning: unused `std::result::Result` which must be used Aug 29 20:47:45.930 INFO kablam! --> src/main.rs:280:5 Aug 29 20:47:45.930 INFO kablam! | Aug 29 20:47:45.930 INFO kablam! 280 | o_buff.write(b"\n"); Aug 29 20:47:45.930 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.930 INFO kablam! | Aug 29 20:47:45.930 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 29 20:47:45.930 INFO kablam! Aug 29 20:47:45.931 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 29 20:47:45.931 INFO kablam! --> src/main.rs:286:10 Aug 29 20:47:45.931 INFO kablam! | Aug 29 20:47:45.931 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Aug 29 20:47:45.931 INFO kablam! | ^^^^^^^^^^^^ Aug 29 20:47:45.931 INFO kablam! Aug 29 20:47:45.932 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Aug 29 20:47:45.932 INFO kablam! --> src/main.rs:357:9 Aug 29 20:47:45.932 INFO kablam! | Aug 29 20:47:45.932 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Aug 29 20:47:45.932 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Aug 29 20:47:45.932 INFO kablam! Aug 29 20:47:45.932 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 29 20:47:45.932 INFO kablam! --> src/main.rs:387:17 Aug 29 20:47:45.932 INFO kablam! | Aug 29 20:47:45.932 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Aug 29 20:47:45.932 INFO kablam! | ^^^^^^^^^^^^ Aug 29 20:47:45.932 INFO kablam! Aug 29 20:47:45.977 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 44.20s Aug 29 20:47:45.989 INFO kablam! su: No module specific data is present Aug 29 20:47:46.527 INFO running `"docker" "rm" "-f" "9187b10a7789e1bde6eb5ee07cdd8bb95a01af3ec67a8cf897bb531be8f8366c"` Aug 29 20:47:46.671 INFO blam! 9187b10a7789e1bde6eb5ee07cdd8bb95a01af3ec67a8cf897bb531be8f8366c