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2 changes: 2 additions & 0 deletions config_automation.yml
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Expand Up @@ -12,6 +12,8 @@ spell-check: yes
style-code: yes
# Test build the docker image if any docker-relevant files have been changed
docker-test: no
# generate book_txt automatically?
make_book_txt: yes

##### Renderings run upon merge to main branch #####
# Rendering each platform's content
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11 changes: 8 additions & 3 deletions docs/no_toc/404.html
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Expand Up @@ -268,13 +268,18 @@ <h1>Page not found</h1>
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2 changes: 1 addition & 1 deletion docs/no_toc/About.md
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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
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13 changes: 9 additions & 4 deletions docs/no_toc/about-the-authors.html
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Expand Up @@ -388,7 +388,7 @@ <h1>About the Authors</h1>
## collate en_US.UTF-8
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## date 2024-03-12
## date 2024-03-25
##
## ─ Packages ───────────────────────────────────────────────────────────────────
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11 changes: 8 additions & 3 deletions docs/no_toc/automation-as-a-reproducibility-tool.html
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Expand Up @@ -346,13 +346,18 @@ <h3><span class="header-section-number">9.3.1</span> Resources for setting up yo
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11 changes: 8 additions & 3 deletions docs/no_toc/defining-reproducibility.html
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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>.
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11 changes: 8 additions & 3 deletions docs/no_toc/engaging-in-code-review---as-a-reviewer.html
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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>.
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11 changes: 8 additions & 3 deletions docs/no_toc/engaging-in-code-review---as-an-author.html
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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>.
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11 changes: 8 additions & 3 deletions docs/no_toc/index.html
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Expand Up @@ -281,13 +281,18 @@ <h2><span class="header-section-number">0.1</span> Available course formats</h2>

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11 changes: 8 additions & 3 deletions docs/no_toc/introduction.html
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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>.
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11 changes: 8 additions & 3 deletions docs/no_toc/launching-a-docker-image.html
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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>.
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11 changes: 8 additions & 3 deletions docs/no_toc/modifying-a-docker-image.html
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Expand Up @@ -414,13 +414,18 @@ <h3><span class="header-section-number">8.3.7</span> A list of handy Docker comm
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11 changes: 8 additions & 3 deletions docs/no_toc/providing-data.html
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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).
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11 changes: 8 additions & 3 deletions docs/no_toc/references.html
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Expand Up @@ -340,13 +340,18 @@ <h1>References</h1>
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11 changes: 8 additions & 3 deletions docs/no_toc/using-version-control-with-github.html
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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>.
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