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Add size param to extract-mito
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Euphrasiologist committed Mar 14, 2022
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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="A function generic over certain types of `Directed` petgraph `Graph`s."><meta name="keywords" content="rust, rustlang, rust-lang, all_paths"><title>all_paths in gfatk::gfa::graph - Rust</title><link rel="preload" as="font" type="font/woff2" crossorigin href="../../../SourceSerif4-Regular.ttf.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../../../FiraSans-Regular.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../../../FiraSans-Medium.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../../../SourceCodePro-Regular.ttf.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../../../SourceSerif4-Bold.ttf.woff2"><link rel="preload" as="font" type="font/woff2" crossorigin href="../../../SourceCodePro-Semibold.ttf.woff2"><link rel="stylesheet" type="text/css" href="../../../normalize.css"><link rel="stylesheet" type="text/css" href="../../../rustdoc.css" id="mainThemeStyle"><link rel="stylesheet" type="text/css" href="../../../ayu.css" disabled><link rel="stylesheet" type="text/css" href="../../../dark.css" disabled><link rel="stylesheet" type="text/css" href="../../../light.css" id="themeStyle"><script id="default-settings" ></script><script src="../../../storage.js"></script><script src="../../../crates.js"></script><script defer src="../../../main.js"></script>
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</a><div class="sidebar-elems"><h2 class="location">Other items in<br><a href="../../index.html">gfatk</a>::<wbr><a href="../index.html">gfa</a>::<wbr><a href="index.html">graph</a></h2><div id="sidebar-vars" data-name="all_paths" data-ty="fn" data-relpath=""></div><script defer src="sidebar-items.js"></script></div></nav><main><div class="width-limiter"><div class="sub-container"><a class="sub-logo-container" href="../../../gfatk/index.html"><img class="rust-logo" src="../../../rust-logo.png" alt="logo"></a><nav class="sub"><div class="theme-picker"><button id="theme-picker" aria-label="Pick another theme!" aria-haspopup="menu" title="themes"><img width="18" height="18" alt="Pick another theme!" src="../../../brush.svg"></button><div id="theme-choices" role="menu"></div></div><form class="search-form"><div class="search-container"><div><select id="crate-search"><option value="All crates">All crates</option></select><input class="search-input" name="search" autocomplete="off" spellcheck="false" placeholder="Click or press ‘S’ to search, ‘?’ for more options…" type="search"></div><button type="button" id="help-button" title="help">?</button><a id="settings-menu" href="../../../settings.html" title="settings"><img width="18" height="18" alt="Change settings" src="../../../wheel.svg"></a></div></form></nav></div><section id="main-content" class="content"><h1 class="fqn"><span class="in-band">Function <a href="../../index.html">gfatk</a>::<wbr><a href="../index.html">gfa</a>::<wbr><a href="index.html">graph</a>::<wbr><a class="fn" href="#">all_paths</a><button id="copy-path" onclick="copy_path(this)" title="Copy item path to clipboard"><img src="../../../clipboard.svg" width="19" height="18" alt="Copy item path"></button></span><span class="out-of-band"><span id="render-detail"><a id="toggle-all-docs" href="javascript:void(0)" title="collapse all docs">[<span class="inner">&#x2212;</span>]</a></span><a class="srclink" href="../../../src/gfatk/gfa/graph.rs.html#530-549" title="goto source code">[src]</a></span></h1><div class="docblock item-decl"><pre class="rust fn"><code>pub fn all_paths&lt;T, U, Ix:&nbsp;<a class="trait" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/trait.IndexType.html" title="trait petgraph::graph_impl::IndexType">IndexType</a>&gt;(<br>&nbsp;&nbsp;&nbsp;&nbsp;graph: &amp;<a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.Graph.html" title="struct petgraph::graph_impl::Graph">Graph</a>&lt;T, U, <a class="enum" href="https://docs.rs/petgraph/0.4/petgraph/enum.Directed.html" title="enum petgraph::Directed">Directed</a>, Ix&gt;, <br>&nbsp;&nbsp;&nbsp;&nbsp;start_node: <a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;, <br>&nbsp;&nbsp;&nbsp;&nbsp;end_node: <a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;, <br>&nbsp;&nbsp;&nbsp;&nbsp;rel_coverage_map: <a class="enum" href="https://doc.rust-lang.org/1.59.0/core/option/enum.Option.html" title="enum core::option::Option">Option</a>&lt;&amp;<a class="struct" href="https://doc.rust-lang.org/1.59.0/std/collections/hash/map/struct.HashMap.html" title="struct std::collections::hash::map::HashMap">HashMap</a>&lt;<a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;, <a class="primitive" href="https://doc.rust-lang.org/1.59.0/std/primitive.usize.html">usize</a>&gt;&gt;<br>) -&gt; <a class="type" href="https://docs.rs/anyhow/1.0.53/anyhow/type.Result.html" title="type anyhow::Result">Result</a>&lt;<a class="struct" href="https://doc.rust-lang.org/1.59.0/alloc/vec/struct.Vec.html" title="struct alloc::vec::Vec">Vec</a>&lt;<a class="struct" href="https://doc.rust-lang.org/1.59.0/alloc/vec/struct.Vec.html" title="struct alloc::vec::Vec">Vec</a>&lt;<a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;&gt;&gt;&gt;</code></pre></div><details class="rustdoc-toggle top-doc" open><summary class="hideme"><span>Expand description</span></summary><div class="docblock"><p>A function generic over certain types of <code>Directed</code> petgraph <code>Graph</code>s.</p>
</a><div class="sidebar-elems"><h2 class="location">Other items in<br><a href="../../index.html">gfatk</a>::<wbr><a href="../index.html">gfa</a>::<wbr><a href="index.html">graph</a></h2><div id="sidebar-vars" data-name="all_paths" data-ty="fn" data-relpath=""></div><script defer src="sidebar-items.js"></script></div></nav><main><div class="width-limiter"><div class="sub-container"><a class="sub-logo-container" href="../../../gfatk/index.html"><img class="rust-logo" src="../../../rust-logo.png" alt="logo"></a><nav class="sub"><div class="theme-picker"><button id="theme-picker" aria-label="Pick another theme!" aria-haspopup="menu" title="themes"><img width="18" height="18" alt="Pick another theme!" src="../../../brush.svg"></button><div id="theme-choices" role="menu"></div></div><form class="search-form"><div class="search-container"><div><select id="crate-search"><option value="All crates">All crates</option></select><input class="search-input" name="search" autocomplete="off" spellcheck="false" placeholder="Click or press ‘S’ to search, ‘?’ for more options…" type="search"></div><button type="button" id="help-button" title="help">?</button><a id="settings-menu" href="../../../settings.html" title="settings"><img width="18" height="18" alt="Change settings" src="../../../wheel.svg"></a></div></form></nav></div><section id="main-content" class="content"><h1 class="fqn"><span class="in-band">Function <a href="../../index.html">gfatk</a>::<wbr><a href="../index.html">gfa</a>::<wbr><a href="index.html">graph</a>::<wbr><a class="fn" href="#">all_paths</a><button id="copy-path" onclick="copy_path(this)" title="Copy item path to clipboard"><img src="../../../clipboard.svg" width="19" height="18" alt="Copy item path"></button></span><span class="out-of-band"><span id="render-detail"><a id="toggle-all-docs" href="javascript:void(0)" title="collapse all docs">[<span class="inner">&#x2212;</span>]</a></span><a class="srclink" href="../../../src/gfatk/gfa/graph.rs.html#532-551" title="goto source code">[src]</a></span></h1><div class="docblock item-decl"><pre class="rust fn"><code>pub fn all_paths&lt;T, U, Ix:&nbsp;<a class="trait" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/trait.IndexType.html" title="trait petgraph::graph_impl::IndexType">IndexType</a>&gt;(<br>&nbsp;&nbsp;&nbsp;&nbsp;graph: &amp;<a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.Graph.html" title="struct petgraph::graph_impl::Graph">Graph</a>&lt;T, U, <a class="enum" href="https://docs.rs/petgraph/0.4/petgraph/enum.Directed.html" title="enum petgraph::Directed">Directed</a>, Ix&gt;, <br>&nbsp;&nbsp;&nbsp;&nbsp;start_node: <a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;, <br>&nbsp;&nbsp;&nbsp;&nbsp;end_node: <a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;, <br>&nbsp;&nbsp;&nbsp;&nbsp;rel_coverage_map: <a class="enum" href="https://doc.rust-lang.org/1.59.0/core/option/enum.Option.html" title="enum core::option::Option">Option</a>&lt;&amp;<a class="struct" href="https://doc.rust-lang.org/1.59.0/std/collections/hash/map/struct.HashMap.html" title="struct std::collections::hash::map::HashMap">HashMap</a>&lt;<a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;, <a class="primitive" href="https://doc.rust-lang.org/1.59.0/std/primitive.usize.html">usize</a>&gt;&gt;<br>) -&gt; <a class="type" href="https://docs.rs/anyhow/1.0.53/anyhow/type.Result.html" title="type anyhow::Result">Result</a>&lt;<a class="struct" href="https://doc.rust-lang.org/1.59.0/alloc/vec/struct.Vec.html" title="struct alloc::vec::Vec">Vec</a>&lt;<a class="struct" href="https://doc.rust-lang.org/1.59.0/alloc/vec/struct.Vec.html" title="struct alloc::vec::Vec">Vec</a>&lt;<a class="struct" href="https://docs.rs/petgraph/0.4/petgraph/graph_impl/struct.NodeIndex.html" title="struct petgraph::graph_impl::NodeIndex">NodeIndex</a>&lt;Ix&gt;&gt;&gt;&gt;</code></pre></div><details class="rustdoc-toggle top-doc" open><summary class="hideme"><span>Expand description</span></summary><div class="docblock"><p>A function generic over certain types of <code>Directed</code> petgraph <code>Graph</code>s.</p>
<p>Given a graph, a start node, an end node, and optionally a map of the coverage of each node, compute all simple paths between these nodes.</p>
<p>Modified from: <a href="https://github.com/Ninjani/rosalind/blob/e22ecf2c9f0935d970b137684029957c0850d63f/t_ba11b/src/lib.rs">https://github.com/Ninjani/rosalind/blob/e22ecf2c9f0935d970b137684029957c0850d63f/t_ba11b/src/lib.rs</a></p>
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