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<!DOCTYPE html>
<html>
<head>
<meta charset="utf-8" />
<meta name="generator" content="pandoc" />
<meta http-equiv="X-UA-Compatible" content="IE=EDGE" />
<meta name="author" content="Gabriel Nakamura" />
<meta name="date" content="2024-07-16" />
<title>R markdown</title>
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</head>
<body>
<div class="container-fluid main-container">
<!-- setup 3col/9col grid for toc_float and main content -->
<div class="row">
<div class="col-xs-12 col-sm-4 col-md-3">
<div id="TOC" class="tocify">
</div>
</div>
<div class="toc-content col-xs-12 col-sm-8 col-md-9">
<div class="navbar navbar-default navbar-fixed-top" role="navigation">
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<span class="icon-bar"></span>
<span class="icon-bar"></span>
<span class="icon-bar"></span>
</button>
<a class="navbar-brand" href="index.html">Boas Práticas e Ferramentas da Ciência Aberta na Ecologia - BIE5798</a>
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<h1 class="title toc-ignore">R markdown</h1>
<h4 class="author">Gabriel Nakamura</h4>
<h4 class="date">2024-07-16</h4>
</div>
<div id="apresentação" class="section level1">
<h1>Apresentação</h1>
<p>Na seção anterior aprendemos a montar um documento em R markdown.
Mais importante, aprendemos a utilizar o R markdown para escrever em
linguagens que não dominamos bem, por exemplo, html! Porém, um documento
html por si só não é de muita utilidade. Abra um documento em html num
editor de texto e veja como ele se parece.</p>
<p><img src="figs/html-doc.png" width="939" /></p>
<p>Para dar sentido ao nosso html precisamos gerar um site, ou incluir
ele em um site já existente. Aprenderemos a fazer isso nas próximas
seções</p>
<div id="deploy---um-lugar-para-o-seu-html" class="section level2">
<h2>Deploy - um lugar para o seu html</h2>
<p>Existem diferentes formas de fazer um deploy no seu documento, ou
documentos, em html. Aqui vamos aprender a mais simples de todas. Se
quiser mergulhar mais fundo nesse tema recomendo olhar alguns sites e
materiais que ensinam como elaborar sites mais “rebuscados”.</p>
<ul>
<li><p>Para pacotes estatísticos eu recomendo o pacote <a
href="https://pkgdown.r-lib.org/"><code>{pkgdown}</code> do Hadley
Wickham</a></p></li>
<li><p>Para sites em formato blog eu recomento o tema <a
href="https://hugo-apero-docs.netlify.app/"><code>Hugo-Apéro</code></a></p></li>
<li><p>Para sites acadêmicos eu recomendo o tema <a
href="https://themes.gohugo.io/themes/starter-hugo-academic/">Hugo-academic</a></p></li>
</ul>
</div>
<div id="produzindo-um-site" class="section level2">
<h2>Produzindo um site</h2>
<p>A forma mais simples de todas para elaboração de um site é a partir
de um fork de algum repositório no GitHub que hospede um site que te
agrade. Por exemplo, digamos que você gostou deste humilde site que
hospeda o material desse curso. Para fazer um site seu você pode:</p>
<p>1 - Vá até o repositório deste site no GitHub</p>
<p>2 - Forke esse site para ele aparecer no seu GitHub</p>
<p>3 - Substitua os documentos do site original com o conteúdo que
deseja hospedar em seu site</p>
<p>Você pode fazer isso com qualquer site, basta saber quais documentos
deve substituir pelos seus. Basicamente, no formato deste site, você
deve apenas substituir os arquivos .Rmd por arquivos que você gerou.
Além disso você precisa editar o arquivo <code>_site.yml</code>, que
informa o layout do site.</p>
<div id="github-pages" class="section level3">
<h3>Github pages</h3>
<p>A forma mais fácil de hospedar seu site é utilizando o github pages.
Uma ferramenta do próprio GitHub usada para gerar o site que tem seu
código fonte hospedado em um repositório do GitHub. Para tanto, basta
ativar o GitHub pages no repositório que você deseja que seja seu
site</p>
<p>1 - Ativando o github pages</p>
<p><img src="figs/github-pages1.png" width="1271" /></p>
<p>Em <code>Settings</code> no repositório que deseja construir um site,
irá achar a aba <code>Pages</code>, como demostrado na figura acima.</p>
<p>2 - Em seguida clique na aba pages e ative um repositório para
indicar ao github pages aonde ele deve buscar os arquivos para construir
o site. Como mostrado na figura abaixo, neste exemplo usaremos o branch
<code>master</code> (talvez ele seja <code>main</code> no seu
GitHub)</p>
<p><img src="figs/github-pages2.png" width="1266" /></p>
<p>3 - Após selecionar o branch clique em <code>Save</code> e espere um
pouco. Logo o GitHub vai aparecer uma mensagem dizendo o domínio do seu
site, como mostrado abaixo</p>
<p><img src="figs/github-pages3.png" width="1270" /></p>
<p>Seu site agora tem um domínio. Mas ainda é necessário alguns detalhes
para que ele seja funcional. Se você usou a estratégia de forkar o
repositório, como mostrado na seção acima, tudo que precisa fazer é
ativar o github pages no repositório forkado. Caso começou um
repositório do zero, e está adicionando documentos a ele, você
precisará</p>
<p>4 - Adicionar um arquivo chamado <code>index.Rmd</code> que será a
sua página inicial</p>
<p>5 - Adicionar um arquivo chamado <code>_site.yml</code> que indicará
como o seu site será construído (Dê uma olhada no yml deste repositório
para ter uma ideia de como estruturar o site)</p>
<p>6 - Adicionar os documentos <code>.Rmd</code> na
<strong>raiz</strong> do seu diretório, sendo que todos devem ter o
<code>output</code> no formato <code>html_document</code>. Se os
documentos estiverem em outra subpasta o site não vai funcionar</p>
<p>7 - Penúltimo passo é renderizar os documentos no repositório
utilizando a função do pacote <code>{rmarkdown}</code> chamada
<code>render_site</code> da seguinte maneira:</p>
<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" tabindex="-1"></a>rmarkdown<span class="sc">::</span><span class="fu">render_site</span>()</span></code></pre></div>
<p>8 - Último passo é dar um <code>commit</code> e um <code>push</code>.
Graças a um sistema chamado <em>Continuous Integration</em> do GitHub
Actions, o site será montado assim que o GitHub identificar um novo
push!</p>
<p>Pronto, agora você tem um site funcional</p>
</div>
</div>
</div>
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