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Fasten sort: minimizers (#39)
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* trim-adapters

* fixed rev math

* fix fasten_trim test

* update upload-artifact

* docs

* fix readme desc for trim

* minimizer sort

* fix fasten-trim documentation usage

* docs
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@lskatz
lskatz authored Jan 17, 2025
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2 changes: 1 addition & 1 deletion Cargo.toml
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[package]
name = "fasten"
version = "0.8.4"
version = "0.8.5"
authors = ["Lee Katz <[email protected]>"]
#license-file = "LICENSE"
license = "MIT"
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2 changes: 1 addition & 1 deletion README.md
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Expand Up @@ -104,7 +104,7 @@ except `fasten_convert`.
|[`fasten_inspect`](https://lskatz.github.io/fasten/fasten_inspect) | adds information to read IDs such as seqlength |
|[`fasten_repair`](https://lskatz.github.io/fasten/fasten_repair) | Repairs corrupted reads |
|[`fasten_quality_filter`](https://lskatz.github.io/fasten/fasten_quality_filter) | Transforms nucleotides to "N" if the quality is low |
|[`fasten_trim`](https://lskatz.github.io/fasten/fasten_trim) | Blunt-end trims reads |
|[`fasten_trim`](https://lskatz.github.io/fasten/fasten_trim) | Blunt-end trims reads and/or removes adapter sequences |
|[`fasten_replace`](https://lskatz.github.io/fasten/fasten_replace) | Find and replace using regex |
|[`fasten_mutate`](https://lskatz.github.io/fasten/fasten_mutate) | introduce random mutations |
|[`fasten_regex`](https://lskatz.github.io/fasten/fasten_regex) | Filter for reads using regex |
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2 changes: 1 addition & 1 deletion docs/fasten/all.html
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<!DOCTYPE html><html lang="en"><head><meta charset="utf-8"><meta name="viewport" content="width=device-width, initial-scale=1.0"><meta name="generator" content="rustdoc"><meta name="description" content="List of all items in this crate"><title>List of all items in this crate</title><link rel="preload" as="font" type="font/woff2" crossorigin href="../static.files/SourceSerif4-Regular-46f98efaafac5295.ttf.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../static.files/FiraSans-Regular-018c141bf0843ffd.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../static.files/FiraSans-Medium-8f9a781e4970d388.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../static.files/SourceCodePro-Regular-562dcc5011b6de7d.ttf.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../static.files/SourceCodePro-Semibold-d899c5a5c4aeb14a.ttf.woff2"><link rel="stylesheet" href="../static.files/normalize-76eba96aa4d2e634.css"><link rel="stylesheet" href="../static.files/rustdoc-5bc39a1768837dd0.css"><meta name="rustdoc-vars" data-root-path="../" data-static-root-path="../static.files/" data-current-crate="fasten" data-themes="" data-resource-suffix="" data-rustdoc-version="1.77.0 (aedd173a2 2024-03-17)" data-channel="1.77.0" data-search-js="search-dd67cee4cfa65049.js" data-settings-js="settings-4313503d2e1961c2.js" ><script src="../static.files/storage-4c98445ec4002617.js"></script><script defer src="../static.files/main-48f368f3872407c8.js"></script><noscript><link rel="stylesheet" href="../static.files/noscript-04d5337699b92874.css"></noscript><link rel="alternate icon" type="image/png" href="../static.files/favicon-16x16-8b506e7a72182f1c.png"><link rel="alternate icon" type="image/png" href="../static.files/favicon-32x32-422f7d1d52889060.png"><link rel="icon" type="image/svg+xml" href="../static.files/favicon-2c020d218678b618.svg"></head><body class="rustdoc mod sys"><!--[if lte IE 11]><div class="warning">This old browser is unsupported and will most likely display funky things.</div><![endif]--><nav class="mobile-topbar"><button class="sidebar-menu-toggle" title="show sidebar"></button></nav><nav class="sidebar"><div class="sidebar-crate"><h2><a href="../fasten/index.html">fasten</a><span class="version">0.8.4</span></h2></div><div class="sidebar-elems"><section><ul class="block"><li><a href="#macros">Macros</a></li><li><a href="#structs">Structs</a></li><li><a href="#traits">Traits</a></li><li><a href="#functions">Functions</a></li></ul></section></div></nav><div class="sidebar-resizer"></div>
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2 changes: 1 addition & 1 deletion docs/fasten/fn.eexit.html
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<main><div class="width-limiter"><nav class="sub"><form class="search-form"><span></span><div id="sidebar-button" tabindex="-1"><a href="../fasten/all.html" title="show sidebar"></a></div><input class="search-input" name="search" aria-label="Run search in the documentation" autocomplete="off" spellcheck="false" placeholder="Click or press ‘S’ to search, ‘?’ for more options…" type="search"><div id="help-button" tabindex="-1"><a href="../help.html" title="help">?</a></div><div id="settings-menu" tabindex="-1"><a href="../settings.html" title="settings"><img width="22" height="22" alt="Change settings" src="../static.files/wheel-7b819b6101059cd0.svg"></a></div></form></nav><section id="main-content" class="content"><div class="main-heading"><h1>Function <a href="index.html">fasten</a>::<wbr><a class="fn" href="#">eexit</a><button id="copy-path" title="Copy item path to clipboard"><img src="../static.files/clipboard-7571035ce49a181d.svg" width="19" height="18" alt="Copy item path"></button></h1><span class="out-of-band"><a class="src" href="../src/fasten/lib.rs.html#91-94">source</a> · <button id="toggle-all-docs" title="collapse all docs">[<span>&#x2212;</span>]</button></span></div><pre class="rust item-decl"><code>pub fn eexit()</code></pre><details class="toggle top-doc" open><summary class="hideme"><span>Expand description</span></summary><div class="docblock"><p>Propagate an error by printing invalid read(s)</p>
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