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address builder pattern
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rob-p committed Nov 27, 2024
1 parent 28f072f commit 45f3776
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Showing 3 changed files with 4 additions and 4 deletions.
2 changes: 1 addition & 1 deletion Cargo.toml
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
[package]
name = "oarfish"
version = "0.6.4"
version = "0.6.5"
edition = "2021"
authors = [
"Zahra Zare Jousheghani <[email protected]>",
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2 changes: 1 addition & 1 deletion src/bulk.rs
Original file line number Diff line number Diff line change
Expand Up @@ -261,7 +261,7 @@ fn get_source_type(pb: &std::path::Path) -> InputSourceType {
#[allow(clippy::too_many_arguments)]
pub fn quantify_bulk_alignments_raw_reads(
header: &noodles_sam::Header,
aligner: minimap2::Aligner,
aligner: minimap2::Aligner<minimap2::Built>,
filter_opts: AlignmentFilters,
read_paths: &[std::path::PathBuf],
txps: &mut [TranscriptInfo],
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4 changes: 2 additions & 2 deletions src/main.rs
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Expand Up @@ -9,8 +9,8 @@ use minimap2_sys as mm_ffi;
// use minimap2::ffi as mm_ffi;
//use minimap2_temp as minimap2;
use num_format::{Locale, ToFormattedString};
use std::{fs::File, io};
use std::sync::Arc;
use std::{fs::File, io};

use tracing::info;
use tracing_subscriber::{filter::LevelFilter, fmt, prelude::*, EnvFilter};
Expand All @@ -36,7 +36,7 @@ use crate::util::{binomial_probability::binomial_continuous_prob, kde_utils};
type HeaderReaderAligner = (
noodles_sam::header::Header,
Option<bam::io::Reader<bgzf::MultithreadedReader<File>>>,
Option<minimap2::Aligner>,
Option<minimap2::Aligner<minimap2::Built>>,
);

fn get_aligner_from_args(args: &Args) -> anyhow::Result<HeaderReaderAligner> {
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