Oct 13 02:12:08.141 INFO checking TuBieJun/consensus against master#5af0bb83044c3fb43d59ad5f49ee5ae1a293901f for pr-54977 Oct 13 02:12:08.141 INFO running `"docker" "create" "-v" "/mnt/big/crater/./work/local/target-dirs/pr-54977/worker-7/master#5af0bb83044c3fb43d59ad5f49ee5ae1a293901f:/target:rw,Z" "-v" "/mnt/big/crater/./work/local/test-source/worker-7/pr-54977/master#5af0bb83044c3fb43d59ad5f49ee5ae1a293901f:/source:ro,Z" "-v" "/mnt/big/crater/./work/local/cargo-home:/cargo-home:ro,Z" "-v" "/mnt/big/crater/./work/local/rustup-home:/rustup-home:ro,Z" "-e" "USER_ID=1000" "-e" "SOURCE_DIR=/source" "-e" "USER_ID=1000" "-e" "CMD=cargo +5af0bb83044c3fb43d59ad5f49ee5ae1a293901f-alt check --frozen --all --all-targets" "-e" "CARGO_TARGET_DIR=/target" "-e" "CARGO_INCREMENTAL=0" "-e" "RUST_BACKTRACE=full" "-e" "RUSTFLAGS=--cap-lints=forbid" "-e" "CARGO_HOME=/cargo-home" "-e" "RUSTUP_HOME=/rustup-home" "-m" "1536M" "--network" "none" "crater"` Oct 13 02:12:08.598 INFO blam! 80b081a4c076ac651ad2eea41f4711dcebd0a9b3db9a2d4ddbcf4bdb2249046d Oct 13 02:12:08.604 INFO running `"docker" "start" "-a" "80b081a4c076ac651ad2eea41f4711dcebd0a9b3db9a2d4ddbcf4bdb2249046d"` Oct 13 02:12:10.092 INFO kablam! usermod: no changes Oct 13 02:12:10.268 INFO kablam! Checking ieee754 v0.2.2 Oct 13 02:12:10.268 INFO kablam! Compiling fs-utils v1.0.0 Oct 13 02:12:10.268 INFO kablam! Checking itertools v0.6.5 Oct 13 02:12:12.509 INFO kablam! Compiling rust-htslib v0.15.0 Oct 13 02:12:42.115 INFO kablam! Checking consensus v0.1.0 (/source) Oct 13 02:12:44.665 INFO kablam! warning: unused import: `std::env` Oct 13 02:12:44.666 INFO kablam! --> src/main.rs:12:5 Oct 13 02:12:44.666 INFO kablam! | Oct 13 02:12:44.666 INFO kablam! 12 | use std::env; Oct 13 02:12:44.666 INFO kablam! | ^^^^^^^^ Oct 13 02:12:44.666 INFO kablam! | Oct 13 02:12:44.666 INFO kablam! = note: #[warn(unused_imports)] on by default Oct 13 02:12:44.668 INFO kablam! Oct 13 02:12:44.668 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Oct 13 02:12:44.668 INFO kablam! --> src/main.rs:16:5 Oct 13 02:12:44.668 INFO kablam! | Oct 13 02:12:44.668 INFO kablam! 16 | use rust_htslib::prelude::*; Oct 13 02:12:44.668 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:44.668 INFO kablam! Oct 13 02:12:44.668 INFO kablam! warning: unused import: `std::io` Oct 13 02:12:44.668 INFO kablam! --> src/main.rs:21:5 Oct 13 02:12:44.668 INFO kablam! | Oct 13 02:12:44.668 INFO kablam! 21 | use std::io; Oct 13 02:12:44.668 INFO kablam! | ^^^^^^^ Oct 13 02:12:44.668 INFO kablam! Oct 13 02:12:44.668 INFO kablam! warning: unused import: `PathBuf` Oct 13 02:12:44.668 INFO kablam! --> src/main.rs:25:23 Oct 13 02:12:44.668 INFO kablam! | Oct 13 02:12:44.668 INFO kablam! 25 | use std::path::{Path, PathBuf}; Oct 13 02:12:44.668 INFO kablam! | ^^^^^^^ Oct 13 02:12:44.668 INFO kablam! Oct 13 02:12:44.668 INFO kablam! warning: unused import: `SubCommand` Oct 13 02:12:44.668 INFO kablam! --> src/main.rs:26:22 Oct 13 02:12:44.668 INFO kablam! | Oct 13 02:12:44.668 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Oct 13 02:12:44.668 INFO kablam! | ^^^^^^^^^^ Oct 13 02:12:44.668 INFO kablam! Oct 13 02:12:44.677 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 13 02:12:44.677 INFO kablam! --> src/main.rs:218:20 Oct 13 02:12:44.677 INFO kablam! | Oct 13 02:12:44.677 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Oct 13 02:12:44.677 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 13 02:12:44.677 INFO kablam! | Oct 13 02:12:44.677 INFO kablam! = note: #[warn(unused_parens)] on by default Oct 13 02:12:44.677 INFO kablam! Oct 13 02:12:44.677 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 13 02:12:44.677 INFO kablam! --> src/main.rs:239:16 Oct 13 02:12:44.677 INFO kablam! | Oct 13 02:12:44.677 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Oct 13 02:12:44.677 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 13 02:12:44.677 INFO kablam! Oct 13 02:12:44.806 INFO kablam! warning: unused import: `std::env` Oct 13 02:12:44.807 INFO kablam! --> src/main.rs:12:5 Oct 13 02:12:44.807 INFO kablam! | Oct 13 02:12:44.807 INFO kablam! 12 | use std::env; Oct 13 02:12:44.807 INFO kablam! | ^^^^^^^^ Oct 13 02:12:44.807 INFO kablam! | Oct 13 02:12:44.807 INFO kablam! = note: #[warn(unused_imports)] on by default Oct 13 02:12:44.807 INFO kablam! Oct 13 02:12:44.807 INFO kablam! warning: unused import: `rust_htslib::prelude::*` Oct 13 02:12:44.807 INFO kablam! --> src/main.rs:16:5 Oct 13 02:12:44.807 INFO kablam! | Oct 13 02:12:44.807 INFO kablam! 16 | use rust_htslib::prelude::*; Oct 13 02:12:44.807 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:44.807 INFO kablam! Oct 13 02:12:44.807 INFO kablam! warning: unused import: `std::io` Oct 13 02:12:44.807 INFO kablam! --> src/main.rs:21:5 Oct 13 02:12:44.807 INFO kablam! | Oct 13 02:12:44.807 INFO kablam! 21 | use std::io; Oct 13 02:12:44.807 INFO kablam! | ^^^^^^^ Oct 13 02:12:44.811 INFO kablam! Oct 13 02:12:44.811 INFO kablam! warning: unused import: `PathBuf` Oct 13 02:12:44.811 INFO kablam! --> src/main.rs:25:23 Oct 13 02:12:44.811 INFO kablam! | Oct 13 02:12:44.811 INFO kablam! 25 | use std::path::{Path, PathBuf}; Oct 13 02:12:44.811 INFO kablam! | ^^^^^^^ Oct 13 02:12:44.811 INFO kablam! Oct 13 02:12:44.811 INFO kablam! warning: unused import: `SubCommand` Oct 13 02:12:44.811 INFO kablam! --> src/main.rs:26:22 Oct 13 02:12:44.811 INFO kablam! | Oct 13 02:12:44.811 INFO kablam! 26 | use clap::{Arg, App, SubCommand}; Oct 13 02:12:44.811 INFO kablam! | ^^^^^^^^^^ Oct 13 02:12:44.811 INFO kablam! Oct 13 02:12:44.811 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 13 02:12:44.811 INFO kablam! --> src/main.rs:218:20 Oct 13 02:12:44.811 INFO kablam! | Oct 13 02:12:44.811 INFO kablam! 218 | if (num_position[&(i as usize)] == num_position[&(0 as usize)]) { Oct 13 02:12:44.811 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 13 02:12:44.811 INFO kablam! | Oct 13 02:12:44.811 INFO kablam! = note: #[warn(unused_parens)] on by default Oct 13 02:12:44.811 INFO kablam! Oct 13 02:12:44.811 INFO kablam! warning: unnecessary parentheses around `if` condition Oct 13 02:12:44.811 INFO kablam! --> src/main.rs:239:16 Oct 13 02:12:44.811 INFO kablam! | Oct 13 02:12:44.811 INFO kablam! 239 | if (baseEach_percent_record.len() > 0) { Oct 13 02:12:44.811 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ help: remove these parentheses Oct 13 02:12:44.811 INFO kablam! Oct 13 02:12:44.948 INFO kablam! warning: unused import: `std::io::prelude` Oct 13 02:12:44.948 INFO kablam! --> src/main.rs:22:5 Oct 13 02:12:44.948 INFO kablam! | Oct 13 02:12:44.949 INFO kablam! 22 | use std::io::prelude::*; Oct 13 02:12:44.949 INFO kablam! | ^^^^^^^^^^^^^^^^ Oct 13 02:12:44.949 INFO kablam! Oct 13 02:12:44.968 INFO kablam! warning: unused variable: `consensus_base` Oct 13 02:12:44.968 INFO kablam! --> src/main.rs:139:9 Oct 13 02:12:44.968 INFO kablam! | Oct 13 02:12:44.969 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Oct 13 02:12:44.969 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Oct 13 02:12:44.969 INFO kablam! | Oct 13 02:12:44.970 INFO kablam! = note: #[warn(unused_variables)] on by default Oct 13 02:12:44.970 INFO kablam! Oct 13 02:12:44.970 INFO kablam! warning: unused variable: `consensus_source_reads` Oct 13 02:12:44.971 INFO kablam! --> src/main.rs:144:13 Oct 13 02:12:44.971 INFO kablam! | Oct 13 02:12:44.971 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 13 02:12:44.971 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Oct 13 02:12:44.972 INFO kablam! Oct 13 02:12:44.972 INFO kablam! warning: unused variable: `chrom` Oct 13 02:12:44.972 INFO kablam! --> src/main.rs:283:121 Oct 13 02:12:44.973 INFO kablam! | Oct 13 02:12:44.973 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) { Oct 13 02:12:44.973 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Oct 13 02:12:44.974 INFO kablam! Oct 13 02:12:44.974 INFO kablam! warning: value assigned to `new_seq_b` is never read Oct 13 02:12:44.974 INFO kablam! --> src/main.rs:370:21 Oct 13 02:12:44.975 INFO kablam! | Oct 13 02:12:44.975 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Oct 13 02:12:44.975 INFO kablam! | ^^^^^^^^^ Oct 13 02:12:44.976 INFO kablam! | Oct 13 02:12:44.976 INFO kablam! = note: #[warn(unused_assignments)] on by default Oct 13 02:12:44.976 INFO kablam! Oct 13 02:12:44.983 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:44.983 INFO kablam! --> src/main.rs:74:9 Oct 13 02:12:44.984 INFO kablam! | Oct 13 02:12:44.984 INFO kablam! 74 | let mut pair; Oct 13 02:12:44.984 INFO kablam! | ----^^^^ Oct 13 02:12:44.984 INFO kablam! | | Oct 13 02:12:44.985 INFO kablam! | help: remove this `mut` Oct 13 02:12:44.985 INFO kablam! | Oct 13 02:12:44.985 INFO kablam! = note: #[warn(unused_mut)] on by default Oct 13 02:12:44.985 INFO kablam! Oct 13 02:12:44.986 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:44.986 INFO kablam! --> src/main.rs:75:9 Oct 13 02:12:44.986 INFO kablam! | Oct 13 02:12:44.987 INFO kablam! 75 | let mut strand; Oct 13 02:12:44.987 INFO kablam! | ----^^^^^^ Oct 13 02:12:44.987 INFO kablam! | | Oct 13 02:12:44.987 INFO kablam! | help: remove this `mut` Oct 13 02:12:44.988 INFO kablam! Oct 13 02:12:44.988 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:44.988 INFO kablam! --> src/main.rs:76:9 Oct 13 02:12:44.988 INFO kablam! | Oct 13 02:12:44.989 INFO kablam! 76 | let mut aln_pos; Oct 13 02:12:44.989 INFO kablam! | ----^^^^^^^ Oct 13 02:12:44.989 INFO kablam! | | Oct 13 02:12:44.990 INFO kablam! | help: remove this `mut` Oct 13 02:12:44.990 INFO kablam! Oct 13 02:12:45.061 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.061 INFO kablam! --> src/main.rs:144:9 Oct 13 02:12:45.061 INFO kablam! | Oct 13 02:12:45.061 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 13 02:12:45.062 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.062 INFO kablam! | | Oct 13 02:12:45.062 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.062 INFO kablam! Oct 13 02:12:45.063 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.063 INFO kablam! --> src/main.rs:151:9 Oct 13 02:12:45.063 INFO kablam! | Oct 13 02:12:45.064 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Oct 13 02:12:45.064 INFO kablam! | ----^^^^^^^^^ Oct 13 02:12:45.064 INFO kablam! | | Oct 13 02:12:45.064 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.064 INFO kablam! Oct 13 02:12:45.100 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.100 INFO kablam! --> src/main.rs:338:9 Oct 13 02:12:45.101 INFO kablam! | Oct 13 02:12:45.101 INFO kablam! 338 | let mut need_trim:bool; Oct 13 02:12:45.101 INFO kablam! | ----^^^^^^^^^ Oct 13 02:12:45.101 INFO kablam! | | Oct 13 02:12:45.102 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.102 INFO kablam! Oct 13 02:12:45.102 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.103 INFO kablam! --> src/main.rs:355:9 Oct 13 02:12:45.103 INFO kablam! | Oct 13 02:12:45.103 INFO kablam! 355 | let mut chrom = 0; Oct 13 02:12:45.103 INFO kablam! | ----^^^^^ Oct 13 02:12:45.104 INFO kablam! | | Oct 13 02:12:45.104 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.104 INFO kablam! Oct 13 02:12:45.137 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Oct 13 02:12:45.137 INFO kablam! --> src/main.rs:68:1 Oct 13 02:12:45.138 INFO kablam! | Oct 13 02:12:45.138 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Oct 13 02:12:45.138 INFO kablam! 69 | | Oct 13 02:12:45.138 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Oct 13 02:12:45.139 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Oct 13 02:12:45.139 INFO kablam! ... | Oct 13 02:12:45.139 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Oct 13 02:12:45.139 INFO kablam! 98 | | } Oct 13 02:12:45.139 INFO kablam! | |_^ Oct 13 02:12:45.152 INFO kablam! | Oct 13 02:12:45.153 INFO kablam! = note: #[warn(non_snake_case)] on by default Oct 13 02:12:45.153 INFO kablam! Oct 13 02:12:45.154 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Oct 13 02:12:45.154 INFO kablam! --> src/main.rs:147:9 Oct 13 02:12:45.154 INFO kablam! | Oct 13 02:12:45.154 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Oct 13 02:12:45.155 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.155 INFO kablam! Oct 13 02:12:45.155 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Oct 13 02:12:45.155 INFO kablam! --> src/main.rs:148:9 Oct 13 02:12:45.156 INFO kablam! | Oct 13 02:12:45.156 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Oct 13 02:12:45.156 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.156 INFO kablam! Oct 13 02:12:45.157 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.157 INFO kablam! --> src/main.rs:267:9 Oct 13 02:12:45.158 INFO kablam! | Oct 13 02:12:45.158 INFO kablam! 267 | o_buff.write(&member_record.2); Oct 13 02:12:45.158 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.158 INFO kablam! | Oct 13 02:12:45.159 INFO kablam! = note: #[warn(unused_must_use)] on by default Oct 13 02:12:45.159 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.159 INFO kablam! Oct 13 02:12:45.159 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.160 INFO kablam! --> src/main.rs:269:9 Oct 13 02:12:45.160 INFO kablam! | Oct 13 02:12:45.160 INFO kablam! 269 | o_buff.write(&member_record.0); Oct 13 02:12:45.160 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.161 INFO kablam! | Oct 13 02:12:45.161 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.161 INFO kablam! Oct 13 02:12:45.162 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.162 INFO kablam! --> src/main.rs:272:9 Oct 13 02:12:45.162 INFO kablam! | Oct 13 02:12:45.162 INFO kablam! 272 | o_buff.write(&real_qual_temp); Oct 13 02:12:45.163 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.163 INFO kablam! | Oct 13 02:12:45.163 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.163 INFO kablam! Oct 13 02:12:45.164 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.164 INFO kablam! --> src/main.rs:274:5 Oct 13 02:12:45.164 INFO kablam! | Oct 13 02:12:45.165 INFO kablam! 274 | o_buff.write(b"\n"); Oct 13 02:12:45.165 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.165 INFO kablam! | Oct 13 02:12:45.165 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.166 INFO kablam! Oct 13 02:12:45.166 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.166 INFO kablam! --> src/main.rs:277:5 Oct 13 02:12:45.166 INFO kablam! | Oct 13 02:12:45.167 INFO kablam! 277 | o_buff.write(b"\n"); Oct 13 02:12:45.167 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.167 INFO kablam! | Oct 13 02:12:45.167 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.168 INFO kablam! Oct 13 02:12:45.168 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.168 INFO kablam! --> src/main.rs:280:5 Oct 13 02:12:45.169 INFO kablam! | Oct 13 02:12:45.169 INFO kablam! 280 | o_buff.write(b"\n"); Oct 13 02:12:45.169 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.169 INFO kablam! | Oct 13 02:12:45.170 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.170 INFO kablam! Oct 13 02:12:45.170 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 13 02:12:45.171 INFO kablam! --> src/main.rs:286:10 Oct 13 02:12:45.171 INFO kablam! | Oct 13 02:12:45.171 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Oct 13 02:12:45.171 INFO kablam! | ^^^^^^^^^^^^ Oct 13 02:12:45.172 INFO kablam! Oct 13 02:12:45.172 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Oct 13 02:12:45.172 INFO kablam! --> src/main.rs:357:9 Oct 13 02:12:45.173 INFO kablam! | Oct 13 02:12:45.173 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Oct 13 02:12:45.173 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.173 INFO kablam! Oct 13 02:12:45.174 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 13 02:12:45.174 INFO kablam! --> src/main.rs:387:17 Oct 13 02:12:45.174 INFO kablam! | Oct 13 02:12:45.175 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Oct 13 02:12:45.175 INFO kablam! | ^^^^^^^^^^^^ Oct 13 02:12:45.175 INFO kablam! warning: unused import: `std::io::prelude` Oct 13 02:12:45.175 INFO kablam! --> src/main.rs:22:5 Oct 13 02:12:45.176 INFO kablam! | Oct 13 02:12:45.176 INFO kablam! 22 | use std::io::prelude::*; Oct 13 02:12:45.176 INFO kablam! | ^^^^^^^^^^^^^^^^ Oct 13 02:12:45.176 INFO kablam! Oct 13 02:12:45.177 INFO kablam! Oct 13 02:12:45.244 INFO kablam! warning: unused variable: `consensus_base` Oct 13 02:12:45.245 INFO kablam! --> src/main.rs:139:9 Oct 13 02:12:45.245 INFO kablam! | Oct 13 02:12:45.245 INFO kablam! 139 | let consensus_base:Vec = Vec::new(); Oct 13 02:12:45.246 INFO kablam! | ^^^^^^^^^^^^^^ help: consider using `_consensus_base` instead Oct 13 02:12:45.246 INFO kablam! | Oct 13 02:12:45.246 INFO kablam! = note: #[warn(unused_variables)] on by default Oct 13 02:12:45.246 INFO kablam! Oct 13 02:12:45.247 INFO kablam! warning: unused variable: `consensus_source_reads` Oct 13 02:12:45.247 INFO kablam! --> src/main.rs:144:13 Oct 13 02:12:45.247 INFO kablam! | Oct 13 02:12:45.247 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 13 02:12:45.248 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^ help: consider using `_consensus_source_reads` instead Oct 13 02:12:45.248 INFO kablam! Oct 13 02:12:45.248 INFO kablam! warning: unused variable: `chrom` Oct 13 02:12:45.248 INFO kablam! --> src/main.rs:283:121 Oct 13 02:12:45.249 INFO kablam! | Oct 13 02:12:45.249 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) { Oct 13 02:12:45.249 INFO kablam! | ^^^^^ help: consider using `_chrom` instead Oct 13 02:12:45.249 INFO kablam! Oct 13 02:12:45.250 INFO kablam! warning: value assigned to `new_seq_b` is never read Oct 13 02:12:45.250 INFO kablam! --> src/main.rs:370:21 Oct 13 02:12:45.250 INFO kablam! | Oct 13 02:12:45.251 INFO kablam! 370 | let mut new_seq_b:Vec = Vec::new(); Oct 13 02:12:45.251 INFO kablam! | ^^^^^^^^^ Oct 13 02:12:45.251 INFO kablam! | Oct 13 02:12:45.251 INFO kablam! = note: #[warn(unused_assignments)] on by default Oct 13 02:12:45.252 INFO kablam! Oct 13 02:12:45.260 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.260 INFO kablam! --> src/main.rs:74:9 Oct 13 02:12:45.261 INFO kablam! | Oct 13 02:12:45.261 INFO kablam! 74 | let mut pair; Oct 13 02:12:45.261 INFO kablam! | ----^^^^ Oct 13 02:12:45.261 INFO kablam! | | Oct 13 02:12:45.261 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.262 INFO kablam! | Oct 13 02:12:45.262 INFO kablam! = note: #[warn(unused_mut)] on by default Oct 13 02:12:45.262 INFO kablam! Oct 13 02:12:45.262 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.262 INFO kablam! --> src/main.rs:75:9 Oct 13 02:12:45.263 INFO kablam! | Oct 13 02:12:45.263 INFO kablam! 75 | let mut strand; Oct 13 02:12:45.263 INFO kablam! | ----^^^^^^ Oct 13 02:12:45.263 INFO kablam! | | Oct 13 02:12:45.263 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.263 INFO kablam! Oct 13 02:12:45.263 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.264 INFO kablam! --> src/main.rs:76:9 Oct 13 02:12:45.264 INFO kablam! | Oct 13 02:12:45.264 INFO kablam! 76 | let mut aln_pos; Oct 13 02:12:45.264 INFO kablam! | ----^^^^^^^ Oct 13 02:12:45.264 INFO kablam! | | Oct 13 02:12:45.264 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.264 INFO kablam! Oct 13 02:12:45.348 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.348 INFO kablam! --> src/main.rs:144:9 Oct 13 02:12:45.348 INFO kablam! | Oct 13 02:12:45.348 INFO kablam! 144 | let mut consensus_source_reads = String::new(); Oct 13 02:12:45.348 INFO kablam! | ----^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.348 INFO kablam! | | Oct 13 02:12:45.349 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.349 INFO kablam! Oct 13 02:12:45.349 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.349 INFO kablam! --> src/main.rs:151:9 Oct 13 02:12:45.350 INFO kablam! | Oct 13 02:12:45.350 INFO kablam! 151 | let mut top_cigar:&CigarStringView; Oct 13 02:12:45.350 INFO kablam! | ----^^^^^^^^^ Oct 13 02:12:45.350 INFO kablam! | | Oct 13 02:12:45.350 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.350 INFO kablam! Oct 13 02:12:45.368 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.369 INFO kablam! --> src/main.rs:338:9 Oct 13 02:12:45.369 INFO kablam! | Oct 13 02:12:45.369 INFO kablam! 338 | let mut need_trim:bool; Oct 13 02:12:45.369 INFO kablam! | ----^^^^^^^^^ Oct 13 02:12:45.370 INFO kablam! | | Oct 13 02:12:45.370 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.370 INFO kablam! Oct 13 02:12:45.376 INFO kablam! warning: variable does not need to be mutable Oct 13 02:12:45.376 INFO kablam! --> src/main.rs:355:9 Oct 13 02:12:45.376 INFO kablam! | Oct 13 02:12:45.377 INFO kablam! 355 | let mut chrom = 0; Oct 13 02:12:45.377 INFO kablam! | ----^^^^^ Oct 13 02:12:45.377 INFO kablam! | | Oct 13 02:12:45.377 INFO kablam! | help: remove this `mut` Oct 13 02:12:45.377 INFO kablam! Oct 13 02:12:45.395 INFO kablam! warning: function `bamLineParse` should have a snake case name such as `bam_line_parse` Oct 13 02:12:45.395 INFO kablam! --> src/main.rs:68:1 Oct 13 02:12:45.395 INFO kablam! | Oct 13 02:12:45.396 INFO kablam! 68 | / fn bamLineParse(record:&Record) -> (String, String, String, i32, i32){ Oct 13 02:12:45.396 INFO kablam! 69 | | Oct 13 02:12:45.396 INFO kablam! 70 | | let qname_str = String::from_utf8_lossy(record.qname()).to_string(); Oct 13 02:12:45.396 INFO kablam! 71 | | let temp_v:Vec<&str> = qname_str.split('#').collect(); Oct 13 02:12:45.396 INFO kablam! ... | Oct 13 02:12:45.396 INFO kablam! 97 | | (index, pair.to_string(), strand.to_string(), insert_size.abs(), aln_pos) Oct 13 02:12:45.396 INFO kablam! 98 | | } Oct 13 02:12:45.396 INFO kablam! | |_^ Oct 13 02:12:45.396 INFO kablam! | Oct 13 02:12:45.396 INFO kablam! = note: #[warn(non_snake_case)] on by default Oct 13 02:12:45.396 INFO kablam! Oct 13 02:12:45.396 INFO kablam! warning: variable `baseEach_num_record` should have a snake case name such as `base_each_num_record` Oct 13 02:12:45.397 INFO kablam! --> src/main.rs:147:9 Oct 13 02:12:45.397 INFO kablam! | Oct 13 02:12:45.397 INFO kablam! 147 | let mut baseEach_num_record = String::new(); Oct 13 02:12:45.397 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.397 INFO kablam! Oct 13 02:12:45.397 INFO kablam! warning: variable `baseEach_percent_record` should have a snake case name such as `base_each_percent_record` Oct 13 02:12:45.397 INFO kablam! --> src/main.rs:148:9 Oct 13 02:12:45.397 INFO kablam! | Oct 13 02:12:45.397 INFO kablam! 148 | let mut baseEach_percent_record = String::new(); Oct 13 02:12:45.397 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.397 INFO kablam! Oct 13 02:12:45.397 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.397 INFO kablam! --> src/main.rs:267:9 Oct 13 02:12:45.398 INFO kablam! | Oct 13 02:12:45.398 INFO kablam! 267 | o_buff.write(&member_record.2); Oct 13 02:12:45.398 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.398 INFO kablam! | Oct 13 02:12:45.398 INFO kablam! = note: #[warn(unused_must_use)] on by default Oct 13 02:12:45.398 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.398 INFO kablam! Oct 13 02:12:45.398 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.398 INFO kablam! --> src/main.rs:269:9 Oct 13 02:12:45.398 INFO kablam! | Oct 13 02:12:45.399 INFO kablam! 269 | o_buff.write(&member_record.0); Oct 13 02:12:45.399 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.399 INFO kablam! | Oct 13 02:12:45.399 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.399 INFO kablam! Oct 13 02:12:45.399 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.399 INFO kablam! --> src/main.rs:272:9 Oct 13 02:12:45.399 INFO kablam! | Oct 13 02:12:45.399 INFO kablam! 272 | o_buff.write(&real_qual_temp); Oct 13 02:12:45.399 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.399 INFO kablam! | Oct 13 02:12:45.399 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.400 INFO kablam! Oct 13 02:12:45.400 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.400 INFO kablam! --> src/main.rs:274:5 Oct 13 02:12:45.400 INFO kablam! | Oct 13 02:12:45.400 INFO kablam! 274 | o_buff.write(b"\n"); Oct 13 02:12:45.400 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.400 INFO kablam! | Oct 13 02:12:45.401 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.401 INFO kablam! Oct 13 02:12:45.401 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.401 INFO kablam! --> src/main.rs:277:5 Oct 13 02:12:45.401 INFO kablam! | Oct 13 02:12:45.401 INFO kablam! 277 | o_buff.write(b"\n"); Oct 13 02:12:45.401 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.401 INFO kablam! | Oct 13 02:12:45.401 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.401 INFO kablam! Oct 13 02:12:45.401 INFO kablam! warning: unused `std::result::Result` which must be used Oct 13 02:12:45.401 INFO kablam! --> src/main.rs:280:5 Oct 13 02:12:45.401 INFO kablam! | Oct 13 02:12:45.401 INFO kablam! 280 | o_buff.write(b"\n"); Oct 13 02:12:45.401 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.401 INFO kablam! | Oct 13 02:12:45.401 INFO kablam! = note: this `Result` may be an `Err` variant, which should be handled Oct 13 02:12:45.402 INFO kablam! Oct 13 02:12:45.402 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 13 02:12:45.402 INFO kablam! --> src/main.rs:286:10 Oct 13 02:12:45.402 INFO kablam! | Oct 13 02:12:45.402 INFO kablam! 286 | for (key_dupGroup, pair_dup) in pd.iter() { Oct 13 02:12:45.402 INFO kablam! | ^^^^^^^^^^^^ Oct 13 02:12:45.402 INFO kablam! Oct 13 02:12:45.402 INFO kablam! warning: variable `position_dupGroup` should have a snake case name such as `position_dup_group` Oct 13 02:12:45.402 INFO kablam! --> src/main.rs:357:9 Oct 13 02:12:45.402 INFO kablam! | Oct 13 02:12:45.402 INFO kablam! 357 | let mut position_dupGroup: HashMap, Vec, Vec, CigarStringView, bool)>>> = HashMap::new(); Oct 13 02:12:45.402 INFO kablam! | ^^^^^^^^^^^^^^^^^^^^^ Oct 13 02:12:45.402 INFO kablam! Oct 13 02:12:45.402 INFO kablam! warning: variable `key_dupGroup` should have a snake case name such as `key_dup_group` Oct 13 02:12:45.402 INFO kablam! --> src/main.rs:387:17 Oct 13 02:12:45.402 INFO kablam! | Oct 13 02:12:45.402 INFO kablam! 387 | let key_dupGroup = format!("{}_{}_{}_{}{}", index, chrom, aln_pos, strand, insert_size); Oct 13 02:12:45.402 INFO kablam! | ^^^^^^^^^^^^ Oct 13 02:12:45.402 INFO kablam! Oct 13 02:12:45.448 INFO kablam! Finished dev [unoptimized + debuginfo] target(s) in 35.33s Oct 13 02:12:45.455 INFO kablam! su: No module specific data is present Oct 13 02:12:47.060 INFO running `"docker" "rm" "-f" "80b081a4c076ac651ad2eea41f4711dcebd0a9b3db9a2d4ddbcf4bdb2249046d"` Oct 13 02:12:47.298 INFO blam! 80b081a4c076ac651ad2eea41f4711dcebd0a9b3db9a2d4ddbcf4bdb2249046d