Aug 10 20:53:00.047 INFO checking TuBieJun/consensus against master#f6d43ed84207c7e58f363f46e5a438ff40f2b311 for libc-1 Aug 10 20:53:00.047 INFO running: cargo +f6d43ed84207c7e58f363f46e5a438ff40f2b311-alt check --frozen --all --all-targets Aug 10 20:53:00.047 INFO creating container for: cargo +f6d43ed84207c7e58f363f46e5a438ff40f2b311-alt check --frozen --all --all-targets Aug 10 20:53:00.048 INFO running `"docker" "create" "-v" "/tmp/crater.nXRSSdYReYUX:/source:ro,Z" "-v" "/home/ec2-user/crater/./work/local/target-dirs/libc-1/worker-5/master#f6d43ed84207c7e58f363f46e5a438ff40f2b311:/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 +f6d43ed84207c7e58f363f46e5a438ff40f2b311-alt check --frozen --all --all-targets" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=warn" "crater"` Aug 10 20:53:00.300 INFO blam! d7dba0338bb0ababb4f83c702c686ba170b03bd6214f29ba7610896dffb701a1 Aug 10 20:53:00.301 INFO running `"docker" "start" "-a" "d7dba0338bb0ababb4f83c702c686ba170b03bd6214f29ba7610896dffb701a1"` Aug 10 20:53:01.557 INFO kablam! Compiling quick-error v1.2.2 Aug 10 20:53:01.557 INFO kablam! Checking ieee754 v0.2.2 Aug 10 20:53:01.565 INFO kablam! Checking custom_derive v0.1.7 Aug 10 20:53:01.567 INFO kablam! Compiling newtype_derive v0.1.6 Aug 10 20:53:02.313 INFO kablam! Compiling fs-utils v1.1.0 Aug 10 20:53:04.888 INFO kablam! Compiling rust-htslib v0.15.0 Aug 10 20:53:49.124 INFO kablam! Checking consensus v0.1.0 (file:///source) Aug 10 20:53:49.850 INFO kablam! warning: unused import: `std::env` Aug 10 20:53:49.850 INFO kablam! --> src/main.rs:12:5 Aug 10 20:53:49.851 INFO kablam! | Aug 10 20:53:49.851 INFO kablam! 12 | use std::env; Aug 10 20:53:49.851 INFO kablam! | ^^^^^^^^ Aug 10 20:53:49.851 INFO kablam! | Aug 10 20:53:49.851 INFO kablam! = note: #[warn(unused_imports)] on by default Aug 10 20:53:49.852 INFO kablam! Aug 10 20:53:49.852 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Aug 10 20:53:49.852 INFO kablam! --> src/main.rs:16:5 Aug 10 20:53:49.852 INFO kablam! | Aug 10 20:53:49.852 INFO kablam! 16 | use rust_htslib::prelude::*; Aug 10 20:53:49.852 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:49.853 INFO kablam! Aug 10 20:53:49.853 INFO kablam! warning: unused import: `std::io` Aug 10 20:53:49.853 INFO kablam! --> src/main.rs:21:5 Aug 10 20:53:49.853 INFO kablam! | Aug 10 20:53:49.853 INFO kablam! 21 | use std::io; Aug 10 20:53:49.853 INFO kablam! | ^^^^^^^ Aug 10 20:53:49.854 INFO kablam! Aug 10 20:53:49.854 INFO kablam! warning: unused import: `PathBuf` Aug 10 20:53:49.854 INFO kablam! --> src/main.rs:25:23 Aug 10 20:53:49.854 INFO kablam! | Aug 10 20:53:49.854 INFO kablam! 25 | use std::path::{Path, PathBuf}; Aug 10 20:53:49.854 INFO kablam! | ^^^^^^^ Aug 10 20:53:49.855 INFO kablam! Aug 10 20:53:49.855 INFO kablam! warning: unused import: `SubCommand` Aug 10 20:53:49.855 INFO kablam! --> src/main.rs:26:22 Aug 10 20:53:49.855 INFO kablam! | Aug 10 20:53:49.855 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Aug 10 20:53:49.855 INFO kablam! | ^^^^^^^^^^ Aug 10 20:53:49.856 INFO kablam! Aug 10 20:53:49.857 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 10 20:53:49.857 INFO kablam! --> src/main.rs:218:20 Aug 10 20:53:49.857 INFO kablam! | Aug 10 20:53:49.857 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Aug 10 20:53:49.857 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 10 20:53:49.857 INFO kablam! | Aug 10 20:53:49.858 INFO kablam! = note: #[warn(unused_parens)] on by default Aug 10 20:53:49.858 INFO kablam! Aug 10 20:53:49.859 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 10 20:53:49.859 INFO kablam! --> src/main.rs:239:16 Aug 10 20:53:49.859 INFO kablam! | Aug 10 20:53:49.859 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Aug 10 20:53:49.859 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 10 20:53:49.859 INFO kablam! Aug 10 20:53:49.885 INFO kablam! warning: unused import: `std::env` Aug 10 20:53:49.885 INFO kablam! --> src/main.rs:12:5 Aug 10 20:53:49.885 INFO kablam! | Aug 10 20:53:49.885 INFO kablam! 12 | use std::env; Aug 10 20:53:49.885 INFO kablam! | ^^^^^^^^ Aug 10 20:53:49.885 INFO kablam! | Aug 10 20:53:49.885 INFO kablam! = note: #[warn(unused_imports)] on by default Aug 10 20:53:49.885 INFO kablam! Aug 10 20:53:49.886 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Aug 10 20:53:49.886 INFO kablam! --> src/main.rs:16:5 Aug 10 20:53:49.886 INFO kablam! | Aug 10 20:53:49.886 INFO kablam! 16 | use rust_htslib::prelude::*; Aug 10 20:53:49.886 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:49.886 INFO kablam! Aug 10 20:53:49.886 INFO kablam! warning: unused import: `std::io` Aug 10 20:53:49.887 INFO kablam! --> src/main.rs:21:5 Aug 10 20:53:49.887 INFO kablam! | Aug 10 20:53:49.887 INFO kablam! 21 | use std::io; Aug 10 20:53:49.887 INFO kablam! | ^^^^^^^ Aug 10 20:53:49.887 INFO kablam! Aug 10 20:53:49.887 INFO kablam! warning: unused import: `PathBuf` Aug 10 20:53:49.887 INFO kablam! --> src/main.rs:25:23 Aug 10 20:53:49.887 INFO kablam! | Aug 10 20:53:49.887 INFO kablam! 25 | use std::path::{Path, PathBuf}; Aug 10 20:53:49.887 INFO kablam! | ^^^^^^^ Aug 10 20:53:49.887 INFO kablam! Aug 10 20:53:49.887 INFO kablam! warning: unused import: `SubCommand` Aug 10 20:53:49.887 INFO kablam! --> src/main.rs:26:22 Aug 10 20:53:49.887 INFO kablam! | Aug 10 20:53:49.887 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Aug 10 20:53:49.887 INFO kablam! | ^^^^^^^^^^ Aug 10 20:53:49.887 INFO kablam! Aug 10 20:53:49.887 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 10 20:53:49.887 INFO kablam! --> src/main.rs:218:20 Aug 10 20:53:49.887 INFO kablam! | Aug 10 20:53:49.887 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Aug 10 20:53:49.887 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 10 20:53:49.887 INFO kablam! | Aug 10 20:53:49.887 INFO kablam! = note: #[warn(unused_parens)] on by default Aug 10 20:53:49.887 INFO kablam! Aug 10 20:53:49.889 INFO kablam! warning: unnecessary parentheses around `if` condition Aug 10 20:53:49.889 INFO kablam! --> src/main.rs:239:16 Aug 10 20:53:49.889 INFO kablam! | Aug 10 20:53:49.889 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Aug 10 20:53:49.889 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Aug 10 20:53:49.889 INFO kablam! Aug 10 20:53:50.260 INFO kablam! warning: unused import: `std::io::prelude` Aug 10 20:53:50.260 INFO kablam! --> src/main.rs:22:5 Aug 10 20:53:50.260 INFO kablam! | Aug 10 20:53:50.260 INFO kablam! 22 | use std::io::prelude::*; Aug 10 20:53:50.260 INFO kablam! | ^^^^^^^^^^^^^^^^ Aug 10 20:53:50.260 INFO kablam! Aug 10 20:53:50.352 INFO kablam! warning: unused variable: `consensus_base` Aug 10 20:53:50.352 INFO kablam! --> src/main.rs:139:9 Aug 10 20:53:50.352 INFO kablam! | Aug 10 20:53:50.352 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Aug 10 20:53:50.352 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Aug 10 20:53:50.356 INFO kablam! | Aug 10 20:53:50.356 INFO kablam! = note: #[warn(unused_variables)] on by default Aug 10 20:53:50.356 INFO kablam! Aug 10 20:53:50.357 INFO kablam! warning: unused variable: `consensus_source_reads` Aug 10 20:53:50.357 INFO kablam! --> src/main.rs:144:13 Aug 10 20:53:50.357 INFO kablam! | Aug 10 20:53:50.357 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 10 20:53:50.357 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Aug 10 20:53:50.357 INFO kablam! Aug 10 20:53:50.357 INFO kablam! warning: unused variable: `chrom` Aug 10 20:53:50.357 INFO kablam! --> src/main.rs:283:121 Aug 10 20:53:50.357 INFO kablam! | Aug 10 20:53:50.357 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 10 20:53:50.357 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Aug 10 20:53:50.358 INFO kablam! Aug 10 20:53:50.358 INFO kablam! warning: value assigned to `new_seq_b` is never read Aug 10 20:53:50.358 INFO kablam! --> src/main.rs:370:21 Aug 10 20:53:50.358 INFO kablam! | Aug 10 20:53:50.358 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Aug 10 20:53:50.358 INFO kablam! | ^^^^^^^^^ Aug 10 20:53:50.358 INFO kablam! | Aug 10 20:53:50.358 INFO kablam! = note: #[warn(unused_assignments)] on by default Aug 10 20:53:50.358 INFO kablam! Aug 10 20:53:50.382 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.382 INFO kablam! --> src/main.rs:74:9 Aug 10 20:53:50.382 INFO kablam! | Aug 10 20:53:50.382 INFO kablam! 74 | let mut pair; Aug 10 20:53:50.382 INFO kablam! | ----^^^^ Aug 10 20:53:50.382 INFO kablam! | | Aug 10 20:53:50.382 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.382 INFO kablam! | Aug 10 20:53:50.382 INFO kablam! = note: #[warn(unused_mut)] on by default Aug 10 20:53:50.382 INFO kablam! Aug 10 20:53:50.383 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.383 INFO kablam! --> src/main.rs:75:9 Aug 10 20:53:50.383 INFO kablam! | Aug 10 20:53:50.383 INFO kablam! 75 | let mut strand; Aug 10 20:53:50.383 INFO kablam! | ----^^^^^^ Aug 10 20:53:50.383 INFO kablam! | | Aug 10 20:53:50.383 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.383 INFO kablam! Aug 10 20:53:50.383 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.383 INFO kablam! --> src/main.rs:76:9 Aug 10 20:53:50.383 INFO kablam! | Aug 10 20:53:50.383 INFO kablam! 76 | let mut aln_pos; Aug 10 20:53:50.383 INFO kablam! | ----^^^^^^^ Aug 10 20:53:50.383 INFO kablam! | | Aug 10 20:53:50.383 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.383 INFO kablam! Aug 10 20:53:50.453 INFO kablam! warning: unused import: `std::io::prelude` Aug 10 20:53:50.453 INFO kablam! --> src/main.rs:22:5 Aug 10 20:53:50.453 INFO kablam! | Aug 10 20:53:50.453 INFO kablam! 22 | use std::io::prelude::*; Aug 10 20:53:50.453 INFO kablam! | ^^^^^^^^^^^^^^^^ Aug 10 20:53:50.460 INFO kablam! Aug 10 20:53:50.531 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.531 INFO kablam! --> src/main.rs:144:9 Aug 10 20:53:50.531 INFO kablam! | Aug 10 20:53:50.531 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 10 20:53:50.531 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.531 INFO kablam! | | Aug 10 20:53:50.531 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.531 INFO kablam! Aug 10 20:53:50.531 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.532 INFO kablam! --> src/main.rs:151:9 Aug 10 20:53:50.532 INFO kablam! | Aug 10 20:53:50.532 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Aug 10 20:53:50.532 INFO kablam! | ----^^^^^^^^^ Aug 10 20:53:50.532 INFO kablam! | | Aug 10 20:53:50.532 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.532 INFO kablam! Aug 10 20:53:50.585 INFO kablam! warning: unused variable: `consensus_base` Aug 10 20:53:50.585 INFO kablam! --> src/main.rs:139:9 Aug 10 20:53:50.585 INFO kablam! | Aug 10 20:53:50.585 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Aug 10 20:53:50.585 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Aug 10 20:53:50.586 INFO kablam! | Aug 10 20:53:50.586 INFO kablam! = note: #[warn(unused_variables)] on by default Aug 10 20:53:50.586 INFO kablam! Aug 10 20:53:50.587 INFO kablam! warning: unused variable: `consensus_source_reads` Aug 10 20:53:50.587 INFO kablam! --> src/main.rs:144:13 Aug 10 20:53:50.587 INFO kablam! | Aug 10 20:53:50.587 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 10 20:53:50.587 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Aug 10 20:53:50.587 INFO kablam! Aug 10 20:53:50.588 INFO kablam! warning: unused variable: `chrom` Aug 10 20:53:50.588 INFO kablam! --> src/main.rs:283:121 Aug 10 20:53:50.588 INFO kablam! | Aug 10 20:53:50.588 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 10 20:53:50.588 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Aug 10 20:53:50.589 INFO kablam! Aug 10 20:53:50.589 INFO kablam! warning: value assigned to `new_seq_b` is never read Aug 10 20:53:50.589 INFO kablam! --> src/main.rs:370:21 Aug 10 20:53:50.589 INFO kablam! | Aug 10 20:53:50.589 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Aug 10 20:53:50.589 INFO kablam! | ^^^^^^^^^ Aug 10 20:53:50.590 INFO kablam! | Aug 10 20:53:50.590 INFO kablam! = note: #[warn(unused_assignments)] on by default Aug 10 20:53:50.590 INFO kablam! Aug 10 20:53:50.615 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.615 INFO kablam! --> src/main.rs:338:9 Aug 10 20:53:50.615 INFO kablam! | Aug 10 20:53:50.615 INFO kablam! 338 | let mut need_trim:bool; Aug 10 20:53:50.615 INFO kablam! | ----^^^^^^^^^ Aug 10 20:53:50.615 INFO kablam! | | Aug 10 20:53:50.615 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.615 INFO kablam! Aug 10 20:53:50.615 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.615 INFO kablam! --> src/main.rs:355:9 Aug 10 20:53:50.615 INFO kablam! | Aug 10 20:53:50.615 INFO kablam! 355 | let mut chrom = 0; Aug 10 20:53:50.615 INFO kablam! | ----^^^^^ Aug 10 20:53:50.615 INFO kablam! | | Aug 10 20:53:50.615 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.620 INFO kablam! Aug 10 20:53:50.630 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.630 INFO kablam! --> src/main.rs:74:9 Aug 10 20:53:50.630 INFO kablam! | Aug 10 20:53:50.630 INFO kablam! 74 | let mut pair; Aug 10 20:53:50.630 INFO kablam! | ----^^^^ Aug 10 20:53:50.631 INFO kablam! | | Aug 10 20:53:50.631 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.631 INFO kablam! | Aug 10 20:53:50.631 INFO kablam! = note: #[warn(unused_mut)] on by default Aug 10 20:53:50.631 INFO kablam! Aug 10 20:53:50.632 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.632 INFO kablam! --> src/main.rs:75:9 Aug 10 20:53:50.632 INFO kablam! | Aug 10 20:53:50.632 INFO kablam! 75 | let mut strand; Aug 10 20:53:50.632 INFO kablam! | ----^^^^^^ Aug 10 20:53:50.632 INFO kablam! | | Aug 10 20:53:50.632 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.632 INFO kablam! Aug 10 20:53:50.633 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.633 INFO kablam! --> src/main.rs:76:9 Aug 10 20:53:50.633 INFO kablam! | Aug 10 20:53:50.633 INFO kablam! 76 | let mut aln_pos; Aug 10 20:53:50.633 INFO kablam! | ----^^^^^^^ Aug 10 20:53:50.633 INFO kablam! | | Aug 10 20:53:50.633 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.633 INFO kablam! Aug 10 20:53:50.635 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Aug 10 20:53:50.635 INFO kablam! --> src/main.rs:68:1 Aug 10 20:53:50.635 INFO kablam! | Aug 10 20:53:50.635 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Aug 10 20:53:50.635 INFO kablam! 69 | | Aug 10 20:53:50.635 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Aug 10 20:53:50.635 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Aug 10 20:53:50.635 INFO kablam! ... | Aug 10 20:53:50.636 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Aug 10 20:53:50.636 INFO kablam! 98 | | } Aug 10 20:53:50.636 INFO kablam! | |_^ Aug 10 20:53:50.644 INFO kablam! | Aug 10 20:53:50.644 INFO kablam! = note: #[warn(non_snake_case)] on by default Aug 10 20:53:50.644 INFO kablam! Aug 10 20:53:50.645 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Aug 10 20:53:50.645 INFO kablam! --> src/main.rs:147:9 Aug 10 20:53:50.645 INFO kablam! | Aug 10 20:53:50.645 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Aug 10 20:53:50.645 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.646 INFO kablam! Aug 10 20:53:50.646 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Aug 10 20:53:50.646 INFO kablam! --> src/main.rs:148:9 Aug 10 20:53:50.646 INFO kablam! | Aug 10 20:53:50.646 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Aug 10 20:53:50.646 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.646 INFO kablam! Aug 10 20:53:50.646 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.646 INFO kablam! --> src/main.rs:267:9 Aug 10 20:53:50.646 INFO kablam! | Aug 10 20:53:50.646 INFO kablam! 267 | o_buff.write(&member_record.2); Aug 10 20:53:50.647 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.647 INFO kablam! = note: #[warn(unused_must_use)] on by default Aug 10 20:53:50.647 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.647 INFO kablam! Aug 10 20:53:50.647 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.647 INFO kablam! --> src/main.rs:269:9 Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.647 INFO kablam! 269 | o_buff.write(&member_record.0); Aug 10 20:53:50.647 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.647 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.647 INFO kablam! Aug 10 20:53:50.647 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.647 INFO kablam! --> src/main.rs:272:9 Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.647 INFO kablam! 272 | o_buff.write(&real_qual_temp); Aug 10 20:53:50.647 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.647 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.647 INFO kablam! Aug 10 20:53:50.647 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.647 INFO kablam! --> src/main.rs:274:5 Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.647 INFO kablam! 274 | o_buff.write(b"\n"); Aug 10 20:53:50.647 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.647 INFO kablam! | Aug 10 20:53:50.648 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.648 INFO kablam! Aug 10 20:53:50.648 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.648 INFO kablam! --> src/main.rs:277:5 Aug 10 20:53:50.648 INFO kablam! | Aug 10 20:53:50.648 INFO kablam! 277 | o_buff.write(b"\n"); Aug 10 20:53:50.648 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.648 INFO kablam! | Aug 10 20:53:50.648 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.648 INFO kablam! Aug 10 20:53:50.648 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.648 INFO kablam! --> src/main.rs:280:5 Aug 10 20:53:50.648 INFO kablam! | Aug 10 20:53:50.648 INFO kablam! 280 | o_buff.write(b"\n"); Aug 10 20:53:50.648 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.648 INFO kablam! | Aug 10 20:53:50.648 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.650 INFO kablam! Aug 10 20:53:50.650 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 10 20:53:50.650 INFO kablam! --> src/main.rs:286:10 Aug 10 20:53:50.650 INFO kablam! | Aug 10 20:53:50.651 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Aug 10 20:53:50.651 INFO kablam! | ^^^^^^^^^^^^ Aug 10 20:53:50.651 INFO kablam! Aug 10 20:53:50.651 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Aug 10 20:53:50.651 INFO kablam! --> src/main.rs:357:9 Aug 10 20:53:50.651 INFO kablam! | Aug 10 20:53:50.651 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Aug 10 20:53:50.651 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.651 INFO kablam! Aug 10 20:53:50.651 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 10 20:53:50.652 INFO kablam! --> src/main.rs:387:17 Aug 10 20:53:50.652 INFO kablam! | Aug 10 20:53:50.652 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Aug 10 20:53:50.652 INFO kablam! | ^^^^^^^^^^^^ Aug 10 20:53:50.652 INFO kablam! Aug 10 20:53:50.813 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.813 INFO kablam! --> src/main.rs:144:9 Aug 10 20:53:50.813 INFO kablam! | Aug 10 20:53:50.813 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Aug 10 20:53:50.813 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.813 INFO kablam! | | Aug 10 20:53:50.813 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.813 INFO kablam! Aug 10 20:53:50.813 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.813 INFO kablam! --> src/main.rs:151:9 Aug 10 20:53:50.813 INFO kablam! | Aug 10 20:53:50.813 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Aug 10 20:53:50.813 INFO kablam! | ----^^^^^^^^^ Aug 10 20:53:50.813 INFO kablam! | | Aug 10 20:53:50.813 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.813 INFO kablam! Aug 10 20:53:50.849 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.849 INFO kablam! --> src/main.rs:338:9 Aug 10 20:53:50.849 INFO kablam! | Aug 10 20:53:50.849 INFO kablam! 338 | let mut need_trim:bool; Aug 10 20:53:50.849 INFO kablam! | ----^^^^^^^^^ Aug 10 20:53:50.849 INFO kablam! | | Aug 10 20:53:50.849 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.849 INFO kablam! Aug 10 20:53:50.849 INFO kablam! warning: variable does not need to be mutable Aug 10 20:53:50.849 INFO kablam! --> src/main.rs:355:9 Aug 10 20:53:50.849 INFO kablam! | Aug 10 20:53:50.849 INFO kablam! 355 | let mut chrom = 0; Aug 10 20:53:50.849 INFO kablam! | ----^^^^^ Aug 10 20:53:50.849 INFO kablam! | | Aug 10 20:53:50.849 INFO kablam! | help: remove this `mut` Aug 10 20:53:50.849 INFO kablam! Aug 10 20:53:50.859 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Aug 10 20:53:50.859 INFO kablam! --> src/main.rs:68:1 Aug 10 20:53:50.859 INFO kablam! | Aug 10 20:53:50.859 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Aug 10 20:53:50.859 INFO kablam! 69 | | Aug 10 20:53:50.859 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Aug 10 20:53:50.860 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Aug 10 20:53:50.860 INFO kablam! ... | Aug 10 20:53:50.860 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Aug 10 20:53:50.860 INFO kablam! 98 | | } Aug 10 20:53:50.860 INFO kablam! | |_^ Aug 10 20:53:50.860 INFO kablam! | Aug 10 20:53:50.860 INFO kablam! = note: #[warn(non_snake_case)] on by default Aug 10 20:53:50.860 INFO kablam! Aug 10 20:53:50.861 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Aug 10 20:53:50.861 INFO kablam! --> src/main.rs:147:9 Aug 10 20:53:50.861 INFO kablam! | Aug 10 20:53:50.861 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Aug 10 20:53:50.861 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.861 INFO kablam! Aug 10 20:53:50.861 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Aug 10 20:53:50.861 INFO kablam! --> src/main.rs:148:9 Aug 10 20:53:50.861 INFO kablam! | Aug 10 20:53:50.861 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Aug 10 20:53:50.861 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.861 INFO kablam! Aug 10 20:53:50.862 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.862 INFO kablam! --> src/main.rs:267:9 Aug 10 20:53:50.862 INFO kablam! | Aug 10 20:53:50.862 INFO kablam! 267 | o_buff.write(&member_record.2); Aug 10 20:53:50.862 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.862 INFO kablam! | Aug 10 20:53:50.862 INFO kablam! = note: #[warn(unused_must_use)] on by default Aug 10 20:53:50.862 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.862 INFO kablam! Aug 10 20:53:50.862 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.862 INFO kablam! --> src/main.rs:269:9 Aug 10 20:53:50.862 INFO kablam! | Aug 10 20:53:50.862 INFO kablam! 269 | o_buff.write(&member_record.0); Aug 10 20:53:50.862 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.862 INFO kablam! | Aug 10 20:53:50.862 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.862 INFO kablam! Aug 10 20:53:50.863 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.863 INFO kablam! --> src/main.rs:272:9 Aug 10 20:53:50.863 INFO kablam! | Aug 10 20:53:50.863 INFO kablam! 272 | o_buff.write(&real_qual_temp); Aug 10 20:53:50.863 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.863 INFO kablam! | Aug 10 20:53:50.863 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.863 INFO kablam! Aug 10 20:53:50.863 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.863 INFO kablam! --> src/main.rs:274:5 Aug 10 20:53:50.863 INFO kablam! | Aug 10 20:53:50.863 INFO kablam! 274 | o_buff.write(b"\n"); Aug 10 20:53:50.863 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.863 INFO kablam! | Aug 10 20:53:50.863 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.863 INFO kablam! Aug 10 20:53:50.864 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.864 INFO kablam! --> src/main.rs:277:5 Aug 10 20:53:50.864 INFO kablam! | Aug 10 20:53:50.864 INFO kablam! 277 | o_buff.write(b"\n"); Aug 10 20:53:50.864 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.864 INFO kablam! | Aug 10 20:53:50.864 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.864 INFO kablam! Aug 10 20:53:50.864 INFO kablam! warning: unused `std::result::Result` which must be used Aug 10 20:53:50.864 INFO kablam! --> src/main.rs:280:5 Aug 10 20:53:50.864 INFO kablam! | Aug 10 20:53:50.864 INFO kablam! 280 | o_buff.write(b"\n"); Aug 10 20:53:50.864 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.864 INFO kablam! | Aug 10 20:53:50.864 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Aug 10 20:53:50.864 INFO kablam! Aug 10 20:53:50.865 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 10 20:53:50.865 INFO kablam! --> src/main.rs:286:10 Aug 10 20:53:50.865 INFO kablam! | Aug 10 20:53:50.865 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Aug 10 20:53:50.865 INFO kablam! | ^^^^^^^^^^^^ Aug 10 20:53:50.865 INFO kablam! Aug 10 20:53:50.866 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Aug 10 20:53:50.866 INFO kablam! --> src/main.rs:357:9 Aug 10 20:53:50.866 INFO kablam! | Aug 10 20:53:50.866 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Aug 10 20:53:50.866 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Aug 10 20:53:50.866 INFO kablam! Aug 10 20:53:50.866 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Aug 10 20:53:50.866 INFO kablam! --> src/main.rs:387:17 Aug 10 20:53:50.866 INFO kablam! | Aug 10 20:53:50.866 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Aug 10 20:53:50.867 INFO kablam! | ^^^^^^^^^^^^ Aug 10 20:53:50.867 INFO kablam! Aug 10 20:53:50.918 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 49.53s Aug 10 20:53:50.930 INFO kablam! su: No module specific data is present Aug 10 20:53:51.452 INFO running `"docker" "rm" "-f" "d7dba0338bb0ababb4f83c702c686ba170b03bd6214f29ba7610896dffb701a1"` Aug 10 20:53:51.602 INFO blam! d7dba0338bb0ababb4f83c702c686ba170b03bd6214f29ba7610896dffb701a1