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<!DOCTYPE html>
<html lang="" xml:lang="">
<head>
<title>08-github.knit</title>
<meta charset="utf-8" />
<script src="libs/header-attrs-2.22/header-attrs.js"></script>
<link href="libs/remark-css-0.0.1/default-fonts.css" rel="stylesheet" />
<link href="libs/remark-css-0.0.1/default.css" rel="stylesheet" />
<script src="libs/freezeframe-5.0.2/freezeframe.min.js"></script>
<script src="libs/xaringanExtra-freezeframe-0.0.1/freezeframe-init.js"></script>
<script id="xaringanExtra-freezeframe-options" type="application/json">{"selector":"img[src$=\"gif\"]","trigger":"click","overlay":false,"responsive":true,"warnings":true}</script>
<link rel="stylesheet" href="assets/custom-presentation.css" type="text/css" />
</head>
<body>
<textarea id="source">
class: title-slide
count: false
.title[
# 08 - Github
]
.subtitle[
## Open Science Tools
]
.author[
### Claudio Zandonella & Davide Massidda
]
.institute[
]
---
class: center, middle, inverse
# Step VII: GitHub
---
# Git hosting services
## &nbsp;
.pull-left-50[
{{content}}
]
.pull-right-50[
&nbsp;
]
--
<img src="images/08-github/GitHub-logo.png" width="60%" style="display: block; margin: auto;" />
---
# Git hosting services
## &nbsp;
.pull-left-50[
<img src="images/08-github/GitHub-logo.png" width="60%" style="display: block; margin: auto;" />
]
.pull-right-50[
.move-up-50[
### Other services
<img src="images/08-github/GitLab_logo.png" width="70%" style="display: block; margin: auto;" />
<br>
<img src="images/08-github/Bitbucket-Logo-blue.png" width="80%" style="display: block; margin: auto;" />
]
]
---
# Git hosting services
## &nbsp;
.pull-left-50[
<img src="images/08-github/GitHub-logo.png" width="60%" style="display: block; margin: auto;" />
]
.pull-right-50[
<br>
- Open-source projects
- Online portfolio for developers
.center[
{{content}}
]
]
--
*GitHub vs OSF?*
---
# Git hosting services
## &nbsp;
.pull-left-50[
<img src="images/08-github/GitHub-logo.png" width="60%" style="display: block; margin: auto;" />
]
.pull-right-50[
<img src="images/08-github/github-meme.jpeg" width="100%" style="display: block; margin: auto;" />
]
---
# GitHub: Initial Set Up
--
#### Create a GitHub Account
<img src="images/08-github/github-sign-in.png" width="70%" style="display: block; margin: auto;" />
.center[https://github.com/]
---
# GitHub: Initial Set Up
#### Edit Profile
<img src="images/08-github/github-profile-settings-2.png" width="70%" style="display: block; margin: auto;" />
---
# GitHub: Authentication
--
#### &nbsp;
<br>
<img src="images/08-github/ssh-0.svg" width="70%" style="display: block; margin: auto;" />
---
# GitHub: Authentication
#### SSH (Secure Shell) Protocol
<br>
<img src="images/08-github/ssh-1.svg" width="70%" style="display: block; margin: auto;" />
---
# GitHub: Authentication
#### SSH (Secure Shell) Protocol
<br>
<img src="images/08-github/ssh-2.svg" width="70%" style="display: block; margin: auto;" />
---
# GitHub: Authentication
#### SSH (Secure Shell) Protocol
<br>
<img src="images/08-github/ssh-3.svg" width="70%" style="display: block; margin: auto;" />
.move-left-130[
.li-small[
{{content}}
]
]
--
- **Private Key** (`id_rsa`) keep it secret!
- **Public Key** (`id_rsa.pub`) to be shared
---
# GitHub: Authentication
.pull-left-50[
.li-small[
- Generate SSH keys
- Copy the Public Key
]
{{content}}
]
.pull-right-50[
]
--
<img src="images/08-github/git-settings-2.png" width="75%" style="display: block; margin: auto;" />
---
# GitHub: Authentication
.pull-left-50[
.li-small[
- Generate SSH keys
- Copy the Public Key
]
<img src="images/08-github/git-settings-2.png" width="75%" style="display: block; margin: auto;" />
]
.pull-right-50[
.li-small[
- Share the Public Key
]
{{content}}
]
--
<img src="images/08-github/github-ssh-keys.png" width="95%" style="display: block; margin: auto;" />
{{content}}
--
<img src="images/08-github/github-ssh-new.png" width="95%" style="display: block; margin: auto;" />
---
# GitHub: Create a Repository
--
.pull-left-50[
#### New Repo
<img src="images/08-github/github-new-repo.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
{{content}}
]
--
#### Repo Info
<img src="images/08-github/github-create-new-repo.png" width="95%" style="display: block; margin: auto;" />
---
# GitHub: Create a Repository
.pull-left-50[
#### Clone Repo
<img src="images/08-github/github-empty-repo.png" width="100%" style="display: block; margin: auto;" />
]
.pull-right-50[
]
---
# GitHub: Create a Repository
.pull-left-50[
#### Clone Repo
<br>
<img src="images/08-github/github-clone.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
{{content}}
]
--
#### Add Details
<img src="images/08-github/github-repo-readme.png" width="100%" style="display: block; margin: auto;" />
---
# GitHub: Adding Collaborators
<img src="images/08-github/github-add-collaborators.png" width="70%" style="display: block; margin: auto;" />
--
.center[Collaborators vs *Pull-Requests*]
---
# GitHub: Main Features
--
.pull-left-30[
<br>
.li-small[
- License
- Documentation
- Commit History
- Commit Diff
- DOI
]
]
.pull-right-70[
]
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- License
- .alpha[Documentation]
- .alpha[Commit History]
- .alpha[Commit Diff]
- .alpha[DOI]
]
]
.pull-right-70[
{{content}}
]
--
<img src="images/08-github/github-new-file.png" width="70%" style="display: block; margin: auto;" />
{{content}}
--
<img src="images/08-github/github-license-create.png" width="70%" style="display: block; margin: auto;" />
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- License
- .alpha[Documentation]
- .alpha[Commit History]
- .alpha[Commit Diff]
- .alpha[DOI]
]
]
.pull-right-70[
<img src="images/08-github/github-license-template.png" width="70%" style="display: block; margin: auto;" />
{{content}}
]
--
<img src="images/08-github/github-license-commit.png" width="70%" style="display: block; margin: auto;" />
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- .alpha[License]
- Documentation
- .alpha[Commit History]
- .alpha[Commit Diff]
- .alpha[DOI]
]
]
.pull-right-70[
#### `README.md`
<img src="images/08-github/github-readme-2.png" width="90%" style="display: block; margin: auto;" />
]
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- .alpha[License]
- .alpha[Documentation]
- Commit History
- .alpha[Commit Diff]
- .alpha[DOI]
]
]
.pull-right-70[
<br>
<img src="images/08-github/github-repo-menu.png" width="90%" style="display: block; margin: auto;" />
]
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- .alpha[License]
- .alpha[Documentation]
- Commit History
- .alpha[Commit Diff]
- .alpha[DOI]
]
]
.pull-right-70[
<img src="images/08-github/github-history.png" width="95%" style="display: block; margin: auto;" />
]
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- .alpha[License]
- .alpha[Documentation]
- .alpha[Commit History]
- Commit Diff
- .alpha[DOI]
]
]
.pull-right-70[
<img src="images/08-github/github-diff.png" width="95%" style="display: block; margin: auto;" />
]
---
# GitHub: Main Features
.pull-left-30[
<br>
.li-small[
- .alpha[License]
- .alpha[Documentation]
- .alpha[Commit History]
- .alpha[Commit Diff]
- DOI
]
]
.pull-right-70[
.move-down-140[
{{content}}
]
]
--
<img src="images/08-github/zenodo-logo.png" width="25%" style="display: block; margin: auto;" />
https://docs.github.com/en/repositories/archiving-a-github-repository/referencing-and-citing-content
---
# GitHub: Contributing
--
#### Issues
.pull-left-50[
<img src="images/08-github/github-repo-menu-issues.png" width="85%" style="display: block; margin: auto;" />
{{content}}
]
.pull-right-50[
]
--
<img src="images/08-github/github-issues.png" width="95%" style="display: block; margin: auto;" />
---
# GitHub: Contributing
#### Issues
.pull-left-50[
<img src="images/08-github/github-repo-menu-issues.png" width="85%" style="display: block; margin: auto;" />
<img src="images/08-github/github-issues.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
.move-down-140[
.li-small[
- Avoid creating duplicate issues
- Provide all the details
- *Minimal Working Example!*
]
]
]
---
# GitHub: Contributing
#### Pull Rrequest
---
# GitHub: Contributing
#### Pull Rrequest
.pull-left-50[
.li-small[
- Fork
]
<img src="images/08-github/github-fork.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
]
---
# GitHub: Contributing
#### Pull Rrequest
.pull-left-50[
.li-small[
- Fork
]
<img src="images/08-github/github-fork.png" width="95%" style="display: block; margin: auto;" />
.li-small[
- Fetch
]
<img src="images/08-github/github-fork-fetch.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
]
---
# GitHub: Contributing
#### Pull Rrequest
.pull-left-50[
.li-small[
- Fork
]
<img src="images/08-github/github-fork.png" width="95%" style="display: block; margin: auto;" />
.li-small[
- Fetch
]
<img src="images/08-github/github-fork-fetch.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
.move-down-80[
.li-small[
- Create pull request
]
]
<img src="images/08-github/github-pr-open-2.png" width="100%" style="display: block; margin: auto;" />
]
---
# GitHub: Contributing
#### Pull Rrequest
.pull-left-50[
.li-small[
- Fork
]
<img src="images/08-github/github-fork.png" width="95%" style="display: block; margin: auto;" />
.li-small[
- Fetch
]
<img src="images/08-github/github-fork-fetch.png" width="95%" style="display: block; margin: auto;" />
]
.pull-right-50[
.move-down-80[
.li-small[
- Create pull request
]
]
<img src="images/08-github/github-pr-create.png" width="100%" style="display: block; margin: auto;" />
]
---
# GitHub: Advanced Features
--
.pull-left-30[
.move-down-110[
- Github actions<br>(CD-CI)
- Github pages
- Join the open-source community
]
]
.pull-right-70[
]
---
# GitHub: Advanced Features
.pull-left-30[
.move-down-110[
- Github actions<br>(CD-CI)
- .alpha[Github pages]
- .alpha[Join the open-source community]
]
]
.pull-right-70[
.move-down-80[
.center[
*Automate your workflow from idea to production*
]
]
<img src="images/08-github/github-action.png" width="90%" style="display: block; margin: auto;" />
]
---
# GitHub: Advanced Features
.pull-left-30[
.move-down-110[
- .alpha[Github actions<br>(CD-CI)]
- Github pages
- .alpha[Join the open-source community]
]
]
.pull-right-70[
.move-down-50[
<img src="images/08-github/github-pages.png" width="100%" style="display: block; margin: auto;" />
]
]
---
# GitHub: Advanced Features
.pull-left-30[
.move-down-110[
- .alpha[Github actions<br>(CD-CI)]
- .alpha[Github pages]
- Join the open-source community
]
]
.pull-right-70[
.move-down-30[
<img src="images/08-github/github-sign.png" width="100%" style="display: block; margin: auto;" />
]
]
---
# GitHub: Advanced Features
.pull-left-30[
.move-down-110[
- .alpha[Github actions<br>(CD-CI)]
- .alpha[Github pages]
- Join the open-source community
]
]
.pull-right-70[
.move-down-50[
>_**"Free software"** means software that respects users' freedom and community._
>
> _Roughly, it means that the users have the freedom to run, copy, distribute, study, change and improve the software._
>
> _Thus, **"free software" is a matter of liberty, not price**. To understand the concept, you should **think of "free" as in "free speech," not as in "free beer"**._
>
> — *The Free Software Foundation (Richard Stallman)*
]
]
---
class: inverse, center, middle
# Think free as in free speech, not free beer!
## Moving to the next step...
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"use strict"
// Replace <script> tags in slides area to make them executable
var scripts = document.querySelectorAll(
'.remark-slides-area .remark-slide-container script'
);
if (!scripts.length) return;
for (var i = 0; i < scripts.length; i++) {
var s = document.createElement('script');
var code = document.createTextNode(scripts[i].textContent);
s.appendChild(code);
var scriptAttrs = scripts[i].attributes;
for (var j = 0; j < scriptAttrs.length; j++) {
s.setAttribute(scriptAttrs[j].name, scriptAttrs[j].value);
}
scripts[i].parentElement.replaceChild(s, scripts[i]);
}
})();
(function() {
var links = document.getElementsByTagName('a');
for (var i = 0; i < links.length; i++) {
if (/^(https?:)?\/\//.test(links[i].getAttribute('href'))) {
links[i].target = '_blank';
}
}
})();
// adds .remark-code-has-line-highlighted class to <pre> parent elements
// of code chunks containing highlighted lines with class .remark-code-line-highlighted
(function(d) {
const hlines = d.querySelectorAll('.remark-code-line-highlighted');
const preParents = [];
const findPreParent = function(line, p = 0) {
if (p > 1) return null; // traverse up no further than grandparent
const el = line.parentElement;
return el.tagName === "PRE" ? el : findPreParent(el, ++p);
};
for (let line of hlines) {
let pre = findPreParent(line);
if (pre && !preParents.includes(pre)) preParents.push(pre);
}
preParents.forEach(p => p.classList.add("remark-code-has-line-highlighted"));
})(document);</script>
<script>
slideshow._releaseMath = function(el) {
var i, text, code, codes = el.getElementsByTagName('code');
for (i = 0; i < codes.length;) {
code = codes[i];
if (code.parentNode.tagName !== 'PRE' && code.childElementCount === 0) {
text = code.textContent;
if (/^\\\((.|\s)+\\\)$/.test(text) || /^\\\[(.|\s)+\\\]$/.test(text) ||
/^\$\$(.|\s)+\$\$$/.test(text) ||
/^\\begin\{([^}]+)\}(.|\s)+\\end\{[^}]+\}$/.test(text)) {
code.outerHTML = code.innerHTML; // remove <code></code>
continue;
}
}
i++;
}
};
slideshow._releaseMath(document);
</script>
<!-- dynamically load mathjax for compatibility with self-contained -->
<script>
(function () {
var script = document.createElement('script');
script.type = 'text/javascript';
script.src = 'https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-MML-AM_CHTML';
if (location.protocol !== 'file:' && /^https?:/.test(script.src))
script.src = script.src.replace(/^https?:/, '');
document.getElementsByTagName('head')[0].appendChild(script);
})();
</script>
</body>
</html>