Skip to content

Commit

Permalink
Browse files Browse the repository at this point in the history
  • Loading branch information
jhudsl-robot committed Mar 25, 2024
2 parents d86c38a + 82c1026 commit cbe62fc
Show file tree
Hide file tree
Showing 16 changed files with 107 additions and 42 deletions.
11 changes: 8 additions & 3 deletions docs/404.html
Original file line number Diff line number Diff line change
Expand Up @@ -268,13 +268,18 @@ <h1>Page not found</h1>
<p>You may want to try searching to find the page's new location, or use
the table of contents to find the page you are looking for.</p>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
2 changes: 1 addition & 1 deletion docs/About.md
Original file line number Diff line number Diff line change
Expand Up @@ -46,7 +46,7 @@ These credits are based on our [course contributors table guidelines](https://gi
## collate en_US.UTF-8
## ctype en_US.UTF-8
## tz Etc/UTC
## date 2024-03-12
## date 2024-03-25
##
## ─ Packages ───────────────────────────────────────────────────────────────────
## package * version date lib source
Expand Down
Binary file modified docs/Advanced-Reproducibility-in-Cancer-Informatics.docx
Binary file not shown.
13 changes: 9 additions & 4 deletions docs/about-the-authors.html
Original file line number Diff line number Diff line change
Expand Up @@ -388,7 +388,7 @@ <h1>About the Authors</h1>
## collate en_US.UTF-8
## ctype en_US.UTF-8
## tz Etc/UTC
## date 2024-03-12
## date 2024-03-25
##
## ─ Packages ───────────────────────────────────────────────────────────────────
## package * version date lib source
Expand Down Expand Up @@ -437,13 +437,18 @@ <h1>About the Authors</h1>
<!-- Links -->

</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/automation-as-a-reproducibility-tool.html
Original file line number Diff line number Diff line change
Expand Up @@ -346,13 +346,18 @@ <h3><span class="header-section-number">9.3.1</span> Resources for setting up yo
</div>
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/defining-reproducibility.html
Original file line number Diff line number Diff line change
Expand Up @@ -344,13 +344,18 @@ <h3>References</h3>
Broman, Karl. 2016. <span>“Tools for <span>Reproducible</span> <span>Research</span>.”</span> <a href="https://kbroman.org/Tools4RR/">https://kbroman.org/Tools4RR/</a>.
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/engaging-in-code-review---as-a-reviewer.html
Original file line number Diff line number Diff line change
Expand Up @@ -366,13 +366,18 @@ <h3>References</h3>
Hildebr, Mischa. 2020. <span>“Your <span>Code</span> <span>Sucks</span>! – <span>Code</span> <span>Review</span> <span>Best</span> <span>Practices</span>.”</span> <em>QuickBird Studios Blog</em>. <a href="https://quickbirdstudios.com/blog/code-review-best-practices-guidelines/">https://quickbirdstudios.com/blog/code-review-best-practices-guidelines/</a>.
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/engaging-in-code-review---as-an-author.html
Original file line number Diff line number Diff line change
Expand Up @@ -405,13 +405,18 @@ <h3>References</h3>
Smartbear Team. 2021. <span>“Best <span>Practices</span> for <span>Code</span> <span>Review</span>.”</span> <em>Smartbear.com</em>. <a href="https://smartbear.com/en/learn/code-review/best-practices-for-peer-code-review/">https://smartbear.com/en/learn/code-review/best-practices-for-peer-code-review/</a>.
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/index.html
Original file line number Diff line number Diff line change
Expand Up @@ -281,13 +281,18 @@ <h2><span class="header-section-number">0.1</span> Available course formats</h2>

</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/introduction.html
Original file line number Diff line number Diff line change
Expand Up @@ -304,13 +304,18 @@ <h3>References</h3>
Beaulieu-Jones, Brett K, and Casey S Greene. 2017. <span>“Reproducibility of Computational Workflows Is Automated Using Continuous Analysis.”</span> <em>Nature Biotechnology</em> 35 (4): 342–46. <a href="https://doi.org/10.1038/nbt.3780">https://doi.org/10.1038/nbt.3780</a>.
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/launching-a-docker-image.html
Original file line number Diff line number Diff line change
Expand Up @@ -400,13 +400,18 @@ <h3>References</h3>
Srivastav, Prakhar. 2018. <span>“A <span>Docker</span> <span>Tutorial</span> for <span>Beginners</span>.”</span> <em>A Docker Tutorial for Beginners</em>. <a href="https://docker-curriculum.com/">https://docker-curriculum.com/</a>.
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/modifying-a-docker-image.html
Original file line number Diff line number Diff line change
Expand Up @@ -414,13 +414,18 @@ <h3><span class="header-section-number">8.3.7</span> A list of handy Docker comm
</div>
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/providing-data.html
Original file line number Diff line number Diff line change
Expand Up @@ -312,13 +312,18 @@ <h3>References</h3>
Shapiro, Joshua A., Candace L. Savonen, Allegra G. Hawkins, Chante J. Bethell, Deepashree Venkatesh Prasad, Casey S. Greene, and Jaclyn N. Taroni. 2021. <em><span>Childhood Cancer Data Lab Training Modules</span></em> (version 2021-june).
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
11 changes: 8 additions & 3 deletions docs/references.html
Original file line number Diff line number Diff line change
Expand Up @@ -340,13 +340,18 @@ <h1>References</h1>
</div>
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down
2 changes: 1 addition & 1 deletion docs/search_index.json

Large diffs are not rendered by default.

11 changes: 8 additions & 3 deletions docs/using-version-control-with-github.html
Original file line number Diff line number Diff line change
Expand Up @@ -435,13 +435,18 @@ <h3>References</h3>
Vickery, Rebecca. 2019. <span>“Introduction to <span>Github</span> for <span>Data</span> <span>Scientists</span>.”</span> <em>Medium</em>. <a href="https://towardsdatascience.com/introduction-to-github-for-data-scientists-2cf8b9b25fba">https://towardsdatascience.com/introduction-to-github-for-data-scientists-2cf8b9b25fba</a>.
</div>
</div>
<hr>
<center>
<div class="container">
<iframe class="responsive-iframe" src="https://c-savonen.shinyapps.io/widget-survey/?course_name=advanced_reproducibility" style="width: 400px; height: 220px; overflow: auto;"></iframe>
</div>
</div>
</center>

<hr>
<center>
<div class="footer">
Please provide any feedback with <a href="https://forms.gle/hc8Xt3Y2Znjb6M4Y7">This form!</a> We appreciate your thoughts.
<br>
All illustrations <a href="https://creativecommons.org/licenses/by/4.0/">CC-BY. </a>
<br>
All other materials <a href= "https://creativecommons.org/licenses/by/4.0/"> CC-BY </a> unless noted otherwise.
</div>
</center>
Expand Down

0 comments on commit cbe62fc

Please sign in to comment.