Skip to content

Commit

Permalink
Deploying to gh-pages from @ 6c8d32e 🚀
Browse files Browse the repository at this point in the history
  • Loading branch information
jkanche committed Aug 14, 2024
1 parent 2298385 commit f1ca4a4
Show file tree
Hide file tree
Showing 32 changed files with 254 additions and 508 deletions.
2 changes: 1 addition & 1 deletion .buildinfo
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
# Sphinx build info version 1
# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
config: 84a217acf94b0ccf0ddb6b6914f5f2db
config: 1f382019b638601f646103fca356f5d1
tags: 645f666f9bcd5a90fca523b33c5a78b7
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
43 changes: 18 additions & 25 deletions _modules/genomicranges/GenomicRanges.html
Original file line number Diff line number Diff line change
Expand Up @@ -4,12 +4,12 @@
<meta name="viewport" content="width=device-width,initial-scale=1"/>
<meta name="color-scheme" content="light dark"><link rel="index" title="Index" href="../../genindex.html" /><link rel="search" title="Search" href="../../search.html" />

<!-- Generated with Sphinx 7.4.4 and Furo 2024.05.06 -->
<title>genomicranges.GenomicRanges - GenomicRanges 0.4.28 documentation</title>
<!-- Generated with Sphinx 7.4.7 and Furo 2024.08.06 -->
<title>genomicranges.GenomicRanges - GenomicRanges 0.4.29 documentation</title>
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo.css?v=387cc868" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo.css?v=354aac6f" />
<link rel="stylesheet" type="text/css" href="../../_static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo-extensions.css?v=36a5483c" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo-extensions.css?v=302659d7" />



Expand Down Expand Up @@ -88,19 +88,6 @@
<path d="M12 3c.132 0 .263 0 .393 0a7.5 7.5 0 0 0 7.92 12.446a9 9 0 1 1 -8.313 -12.454z" />
</svg>
</symbol>
<symbol id="svg-sun-half" viewBox="0 0 24 24">
<title>Auto light/dark mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
stroke-width="1" stroke-linecap="round" stroke-linejoin="round" class="icon-tabler-shadow">
<path stroke="none" d="M0 0h24v24H0z" fill="none"/>
<circle cx="12" cy="12" r="9" />
<path d="M13 12h5" />
<path d="M13 15h4" />
<path d="M13 18h1" />
<path d="M13 9h4" />
<path d="M13 6h1" />
</svg>
</symbol>
<symbol id="svg-sun-with-moon" viewBox="0 0 24 24">
<title>Auto light/dark, in light mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
Expand Down Expand Up @@ -141,7 +128,7 @@
<path d="M4 20h4l10.5 -10.5a2.828 2.828 0 1 0 -4 -4l-10.5 10.5v4" />
<path d="M13.5 6.5l4 4" />
<path d="M20 21l2 -2l-2 -2" />
<path d="M17 17l-2 2l2 2" /
<path d="M17 17l-2 2l2 2" />
</svg>
</symbol>
<symbol id="svg-eye" viewBox="0 0 24 24">
Expand Down Expand Up @@ -179,7 +166,7 @@
</label>
</div>
<div class="header-center">
<a href="../../index.html"><div class="brand">GenomicRanges 0.4.28 documentation</div></a>
<a href="../../index.html"><div class="brand">GenomicRanges 0.4.29 documentation</div></a>
</div>
<div class="header-right">
<div class="theme-toggle-container theme-toggle-header">
Expand All @@ -203,7 +190,7 @@
<div class="sidebar-sticky"><a class="sidebar-brand" href="../../index.html">


<span class="sidebar-brand-text">GenomicRanges 0.4.28 documentation</span>
<span class="sidebar-brand-text">GenomicRanges 0.4.29 documentation</span>

</a><form class="sidebar-search-container" method="get" action="../../search.html" role="search">
<input class="sidebar-search" placeholder="Search" name="q" aria-label="Search">
Expand Down Expand Up @@ -514,9 +501,15 @@ <h1>Source code for genomicranges.GenomicRanges</h1><div class="highlight"><pre>
<span class="bp">self</span><span class="o">.</span><span class="n">_build_reverse_seqindex</span><span class="p">(</span><span class="n">seqinfo</span><span class="p">)</span>

<span class="k">if</span> <span class="ow">not</span> <span class="nb">isinstance</span><span class="p">(</span><span class="n">seqnames</span><span class="p">,</span> <span class="n">np</span><span class="o">.</span><span class="n">ndarray</span><span class="p">):</span>
<span class="n">seqnames</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">(</span>
<span class="p">[</span><span class="bp">self</span><span class="o">.</span><span class="n">_reverse_seqindex</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">seqnames</span><span class="p">],</span> <span class="n">dtype</span><span class="o">=</span><span class="n">np</span><span class="o">.</span><span class="n">int8</span>
<span class="p">)</span>
<span class="n">seqnames</span> <span class="o">=</span> <span class="n">np</span><span class="o">.</span><span class="n">asarray</span><span class="p">([</span><span class="bp">self</span><span class="o">.</span><span class="n">_reverse_seqindex</span><span class="p">[</span><span class="n">x</span><span class="p">]</span> <span class="k">for</span> <span class="n">x</span> <span class="ow">in</span> <span class="n">seqnames</span><span class="p">])</span>

<span class="n">num_uniq</span> <span class="o">=</span> <span class="nb">len</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">unique</span><span class="p">(</span><span class="n">seqnames</span><span class="p">))</span>
<span class="k">if</span> <span class="n">num_uniq</span> <span class="o">&lt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">8</span><span class="p">:</span>
<span class="n">seqnames</span> <span class="o">=</span> <span class="n">seqnames</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">int8</span><span class="p">)</span>
<span class="k">elif</span> <span class="n">num_uniq</span> <span class="o">&lt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">16</span><span class="p">:</span>
<span class="n">seqnames</span> <span class="o">=</span> <span class="n">seqnames</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">int16</span><span class="p">)</span>
<span class="k">elif</span> <span class="n">num_uniq</span> <span class="o">&lt;</span> <span class="mi">2</span><span class="o">**</span><span class="mi">32</span><span class="p">:</span>
<span class="n">seqnames</span> <span class="o">=</span> <span class="n">seqnames</span><span class="o">.</span><span class="n">astype</span><span class="p">(</span><span class="n">np</span><span class="o">.</span><span class="n">int32</span><span class="p">)</span>

<span class="k">return</span> <span class="n">seqnames</span>

Expand Down Expand Up @@ -3678,9 +3671,9 @@ <h1>Source code for genomicranges.GenomicRanges</h1><div class="highlight"><pre>

</aside>
</div>
</div><script src="../../_static/documentation_options.js?v=6de75181"></script>
</div><script src="../../_static/documentation_options.js?v=c99fd598"></script>
<script src="../../_static/doctools.js?v=9a2dae69"></script>
<script src="../../_static/sphinx_highlight.js?v=dc90522c"></script>
<script src="../../_static/scripts/furo.js?v=4e2eecee"></script>
<script src="../../_static/scripts/furo.js?v=5fa4622c"></script>
</body>
</html>
31 changes: 9 additions & 22 deletions _modules/genomicranges/GenomicRangesList.html
Original file line number Diff line number Diff line change
Expand Up @@ -4,12 +4,12 @@
<meta name="viewport" content="width=device-width,initial-scale=1"/>
<meta name="color-scheme" content="light dark"><link rel="index" title="Index" href="../../genindex.html" /><link rel="search" title="Search" href="../../search.html" />

<!-- Generated with Sphinx 7.4.4 and Furo 2024.05.06 -->
<title>genomicranges.GenomicRangesList - GenomicRanges 0.4.28 documentation</title>
<!-- Generated with Sphinx 7.4.7 and Furo 2024.08.06 -->
<title>genomicranges.GenomicRangesList - GenomicRanges 0.4.29 documentation</title>
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo.css?v=387cc868" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo.css?v=354aac6f" />
<link rel="stylesheet" type="text/css" href="../../_static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo-extensions.css?v=36a5483c" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo-extensions.css?v=302659d7" />



Expand Down Expand Up @@ -88,19 +88,6 @@
<path d="M12 3c.132 0 .263 0 .393 0a7.5 7.5 0 0 0 7.92 12.446a9 9 0 1 1 -8.313 -12.454z" />
</svg>
</symbol>
<symbol id="svg-sun-half" viewBox="0 0 24 24">
<title>Auto light/dark mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
stroke-width="1" stroke-linecap="round" stroke-linejoin="round" class="icon-tabler-shadow">
<path stroke="none" d="M0 0h24v24H0z" fill="none"/>
<circle cx="12" cy="12" r="9" />
<path d="M13 12h5" />
<path d="M13 15h4" />
<path d="M13 18h1" />
<path d="M13 9h4" />
<path d="M13 6h1" />
</svg>
</symbol>
<symbol id="svg-sun-with-moon" viewBox="0 0 24 24">
<title>Auto light/dark, in light mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
Expand Down Expand Up @@ -141,7 +128,7 @@
<path d="M4 20h4l10.5 -10.5a2.828 2.828 0 1 0 -4 -4l-10.5 10.5v4" />
<path d="M13.5 6.5l4 4" />
<path d="M20 21l2 -2l-2 -2" />
<path d="M17 17l-2 2l2 2" /
<path d="M17 17l-2 2l2 2" />
</svg>
</symbol>
<symbol id="svg-eye" viewBox="0 0 24 24">
Expand Down Expand Up @@ -179,7 +166,7 @@
</label>
</div>
<div class="header-center">
<a href="../../index.html"><div class="brand">GenomicRanges 0.4.28 documentation</div></a>
<a href="../../index.html"><div class="brand">GenomicRanges 0.4.29 documentation</div></a>
</div>
<div class="header-right">
<div class="theme-toggle-container theme-toggle-header">
Expand All @@ -203,7 +190,7 @@
<div class="sidebar-sticky"><a class="sidebar-brand" href="../../index.html">


<span class="sidebar-brand-text">GenomicRanges 0.4.28 documentation</span>
<span class="sidebar-brand-text">GenomicRanges 0.4.29 documentation</span>

</a><form class="sidebar-search-container" method="get" action="../../search.html" role="search">
<input class="sidebar-search" placeholder="Search" name="q" aria-label="Search">
Expand Down Expand Up @@ -1335,9 +1322,9 @@ <h1>Source code for genomicranges.GenomicRangesList</h1><div class="highlight"><

</aside>
</div>
</div><script src="../../_static/documentation_options.js?v=6de75181"></script>
</div><script src="../../_static/documentation_options.js?v=c99fd598"></script>
<script src="../../_static/doctools.js?v=9a2dae69"></script>
<script src="../../_static/sphinx_highlight.js?v=dc90522c"></script>
<script src="../../_static/scripts/furo.js?v=4e2eecee"></script>
<script src="../../_static/scripts/furo.js?v=5fa4622c"></script>
</body>
</html>
31 changes: 9 additions & 22 deletions _modules/genomicranges/SeqInfo.html
Original file line number Diff line number Diff line change
Expand Up @@ -4,12 +4,12 @@
<meta name="viewport" content="width=device-width,initial-scale=1"/>
<meta name="color-scheme" content="light dark"><link rel="index" title="Index" href="../../genindex.html" /><link rel="search" title="Search" href="../../search.html" />

<!-- Generated with Sphinx 7.4.4 and Furo 2024.05.06 -->
<title>genomicranges.SeqInfo - GenomicRanges 0.4.28 documentation</title>
<!-- Generated with Sphinx 7.4.7 and Furo 2024.08.06 -->
<title>genomicranges.SeqInfo - GenomicRanges 0.4.29 documentation</title>
<link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo.css?v=387cc868" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo.css?v=354aac6f" />
<link rel="stylesheet" type="text/css" href="../../_static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo-extensions.css?v=36a5483c" />
<link rel="stylesheet" type="text/css" href="../../_static/styles/furo-extensions.css?v=302659d7" />



Expand Down Expand Up @@ -88,19 +88,6 @@
<path d="M12 3c.132 0 .263 0 .393 0a7.5 7.5 0 0 0 7.92 12.446a9 9 0 1 1 -8.313 -12.454z" />
</svg>
</symbol>
<symbol id="svg-sun-half" viewBox="0 0 24 24">
<title>Auto light/dark mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
stroke-width="1" stroke-linecap="round" stroke-linejoin="round" class="icon-tabler-shadow">
<path stroke="none" d="M0 0h24v24H0z" fill="none"/>
<circle cx="12" cy="12" r="9" />
<path d="M13 12h5" />
<path d="M13 15h4" />
<path d="M13 18h1" />
<path d="M13 9h4" />
<path d="M13 6h1" />
</svg>
</symbol>
<symbol id="svg-sun-with-moon" viewBox="0 0 24 24">
<title>Auto light/dark, in light mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
Expand Down Expand Up @@ -141,7 +128,7 @@
<path d="M4 20h4l10.5 -10.5a2.828 2.828 0 1 0 -4 -4l-10.5 10.5v4" />
<path d="M13.5 6.5l4 4" />
<path d="M20 21l2 -2l-2 -2" />
<path d="M17 17l-2 2l2 2" /
<path d="M17 17l-2 2l2 2" />
</svg>
</symbol>
<symbol id="svg-eye" viewBox="0 0 24 24">
Expand Down Expand Up @@ -179,7 +166,7 @@
</label>
</div>
<div class="header-center">
<a href="../../index.html"><div class="brand">GenomicRanges 0.4.28 documentation</div></a>
<a href="../../index.html"><div class="brand">GenomicRanges 0.4.29 documentation</div></a>
</div>
<div class="header-right">
<div class="theme-toggle-container theme-toggle-header">
Expand All @@ -203,7 +190,7 @@
<div class="sidebar-sticky"><a class="sidebar-brand" href="../../index.html">


<span class="sidebar-brand-text">GenomicRanges 0.4.28 documentation</span>
<span class="sidebar-brand-text">GenomicRanges 0.4.29 documentation</span>

</a><form class="sidebar-search-container" method="get" action="../../search.html" role="search">
<input class="sidebar-search" placeholder="Search" name="q" aria-label="Search">
Expand Down Expand Up @@ -1024,9 +1011,9 @@ <h1>Source code for genomicranges.SeqInfo</h1><div class="highlight"><pre>

</aside>
</div>
</div><script src="../../_static/documentation_options.js?v=6de75181"></script>
</div><script src="../../_static/documentation_options.js?v=c99fd598"></script>
<script src="../../_static/doctools.js?v=9a2dae69"></script>
<script src="../../_static/sphinx_highlight.js?v=dc90522c"></script>
<script src="../../_static/scripts/furo.js?v=4e2eecee"></script>
<script src="../../_static/scripts/furo.js?v=5fa4622c"></script>
</body>
</html>
31 changes: 9 additions & 22 deletions _modules/genomicranges/io/gtf.html
Original file line number Diff line number Diff line change
Expand Up @@ -4,12 +4,12 @@
<meta name="viewport" content="width=device-width,initial-scale=1"/>
<meta name="color-scheme" content="light dark"><link rel="index" title="Index" href="../../../genindex.html" /><link rel="search" title="Search" href="../../../search.html" />

<!-- Generated with Sphinx 7.4.4 and Furo 2024.05.06 -->
<title>genomicranges.io.gtf - GenomicRanges 0.4.28 documentation</title>
<!-- Generated with Sphinx 7.4.7 and Furo 2024.08.06 -->
<title>genomicranges.io.gtf - GenomicRanges 0.4.29 documentation</title>
<link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=fa44fd50" />
<link rel="stylesheet" type="text/css" href="../../../_static/styles/furo.css?v=387cc868" />
<link rel="stylesheet" type="text/css" href="../../../_static/styles/furo.css?v=354aac6f" />
<link rel="stylesheet" type="text/css" href="../../../_static/mystnb.4510f1fc1dee50b3e5859aac5469c37c29e427902b24a333a5f9fcb2f0b3ac41.css" />
<link rel="stylesheet" type="text/css" href="../../../_static/styles/furo-extensions.css?v=36a5483c" />
<link rel="stylesheet" type="text/css" href="../../../_static/styles/furo-extensions.css?v=302659d7" />



Expand Down Expand Up @@ -88,19 +88,6 @@
<path d="M12 3c.132 0 .263 0 .393 0a7.5 7.5 0 0 0 7.92 12.446a9 9 0 1 1 -8.313 -12.454z" />
</svg>
</symbol>
<symbol id="svg-sun-half" viewBox="0 0 24 24">
<title>Auto light/dark mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
stroke-width="1" stroke-linecap="round" stroke-linejoin="round" class="icon-tabler-shadow">
<path stroke="none" d="M0 0h24v24H0z" fill="none"/>
<circle cx="12" cy="12" r="9" />
<path d="M13 12h5" />
<path d="M13 15h4" />
<path d="M13 18h1" />
<path d="M13 9h4" />
<path d="M13 6h1" />
</svg>
</symbol>
<symbol id="svg-sun-with-moon" viewBox="0 0 24 24">
<title>Auto light/dark, in light mode</title>
<svg xmlns="http://www.w3.org/2000/svg" viewBox="0 0 24 24" fill="none" stroke="currentColor"
Expand Down Expand Up @@ -141,7 +128,7 @@
<path d="M4 20h4l10.5 -10.5a2.828 2.828 0 1 0 -4 -4l-10.5 10.5v4" />
<path d="M13.5 6.5l4 4" />
<path d="M20 21l2 -2l-2 -2" />
<path d="M17 17l-2 2l2 2" /
<path d="M17 17l-2 2l2 2" />
</svg>
</symbol>
<symbol id="svg-eye" viewBox="0 0 24 24">
Expand Down Expand Up @@ -179,7 +166,7 @@
</label>
</div>
<div class="header-center">
<a href="../../../index.html"><div class="brand">GenomicRanges 0.4.28 documentation</div></a>
<a href="../../../index.html"><div class="brand">GenomicRanges 0.4.29 documentation</div></a>
</div>
<div class="header-right">
<div class="theme-toggle-container theme-toggle-header">
Expand All @@ -203,7 +190,7 @@
<div class="sidebar-sticky"><a class="sidebar-brand" href="../../../index.html">


<span class="sidebar-brand-text">GenomicRanges 0.4.28 documentation</span>
<span class="sidebar-brand-text">GenomicRanges 0.4.29 documentation</span>

</a><form class="sidebar-search-container" method="get" action="../../../search.html" role="search">
<input class="sidebar-search" placeholder="Search" name="q" aria-label="Search">
Expand Down Expand Up @@ -447,9 +434,9 @@ <h1>Source code for genomicranges.io.gtf</h1><div class="highlight"><pre>

</aside>
</div>
</div><script src="../../../_static/documentation_options.js?v=6de75181"></script>
</div><script src="../../../_static/documentation_options.js?v=c99fd598"></script>
<script src="../../../_static/doctools.js?v=9a2dae69"></script>
<script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
<script src="../../../_static/scripts/furo.js?v=4e2eecee"></script>
<script src="../../../_static/scripts/furo.js?v=5fa4622c"></script>
</body>
</html>
Loading

0 comments on commit f1ca4a4

Please sign in to comment.