Skip to content

Commit

Permalink
Render bookdown
Browse files Browse the repository at this point in the history
  • Loading branch information
jhudsl-robot committed May 24, 2023
1 parent 536411b commit d9ec495
Show file tree
Hide file tree
Showing 10 changed files with 167 additions and 92 deletions.
12 changes: 11 additions & 1 deletion docs/404.html
Original file line number Diff line number Diff line change
Expand Up @@ -23,7 +23,7 @@



<meta name="date" content="2023-03-22" />
<meta name="date" content="2023-05-24" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -52,6 +52,16 @@

<link href="libs/anchor-sections-1.0.1/anchor-sections.css" rel="stylesheet" />
<script src="libs/anchor-sections-1.0.1/anchor-sections.js"></script>

<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-SY6HTV4PFP"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());

gtag('config', 'G-SY6HTV4PFP');
</script>



Expand Down
84 changes: 43 additions & 41 deletions docs/About.md
Original file line number Diff line number Diff line change
Expand Up @@ -47,55 +47,57 @@ These credits are based on our [course contributors table guidelines](https://gi
## ─ Session info ───────────────────────────────────────────────────────────────
## setting value
## version R version 4.0.2 (2020-06-22)
## os Ubuntu 20.04.3 LTS
## os Ubuntu 20.04.5 LTS
## system x86_64, linux-gnu
## ui X11
## language (EN)
## collate en_US.UTF-8
## ctype en_US.UTF-8
## tz Etc/UTC
## date 2023-03-22
## date 2023-05-24
##
## ─ Packages ───────────────────────────────────────────────────────────────────
## package * version date lib source
## assertthat 0.2.1 2019-03-21 [1] RSPM (R 4.0.3)
## bookdown 0.24 2022-02-15 [1] Github (rstudio/bookdown@88bc4ea)
## callr 3.4.4 2020-09-07 [1] RSPM (R 4.0.2)
## cli 2.0.2 2020-02-28 [1] RSPM (R 4.0.0)
## crayon 1.3.4 2017-09-16 [1] RSPM (R 4.0.0)
## desc 1.2.0 2018-05-01 [1] RSPM (R 4.0.3)
## devtools 2.3.2 2020-09-18 [1] RSPM (R 4.0.3)
## digest 0.6.25 2020-02-23 [1] RSPM (R 4.0.0)
## ellipsis 0.3.1 2020-05-15 [1] RSPM (R 4.0.3)
## evaluate 0.14 2019-05-28 [1] RSPM (R 4.0.3)
## fansi 0.4.1 2020-01-08 [1] RSPM (R 4.0.0)
## fs 1.5.0 2020-07-31 [1] RSPM (R 4.0.3)
## glue 1.6.1 2022-01-22 [1] CRAN (R 4.0.2)
## htmltools 0.5.0 2020-06-16 [1] RSPM (R 4.0.1)
## jquerylib 0.1.4 2021-04-26 [1] CRAN (R 4.0.2)
## knitr 1.33 2022-02-15 [1] Github (yihui/knitr@a1052d1)
## lifecycle 1.0.0 2021-02-15 [1] CRAN (R 4.0.2)
## magrittr 2.0.2 2022-01-26 [1] CRAN (R 4.0.2)
## memoise 1.1.0 2017-04-21 [1] RSPM (R 4.0.0)
## pkgbuild 1.1.0 2020-07-13 [1] RSPM (R 4.0.2)
## pkgload 1.1.0 2020-05-29 [1] RSPM (R 4.0.3)
## prettyunits 1.1.1 2020-01-24 [1] RSPM (R 4.0.3)
## processx 3.4.4 2020-09-03 [1] RSPM (R 4.0.2)
## ps 1.3.4 2020-08-11 [1] RSPM (R 4.0.2)
## purrr 0.3.4 2020-04-17 [1] RSPM (R 4.0.3)
## R6 2.4.1 2019-11-12 [1] RSPM (R 4.0.0)
## remotes 2.2.0 2020-07-21 [1] RSPM (R 4.0.3)
## rlang 0.4.10 2022-02-15 [1] Github (r-lib/rlang@f0c9be5)
## rmarkdown 2.10 2022-02-15 [1] Github (rstudio/rmarkdown@02d3c25)
## rprojroot 2.0.2 2020-11-15 [1] CRAN (R 4.0.2)
## sessioninfo 1.1.1 2018-11-05 [1] RSPM (R 4.0.3)
## stringi 1.5.3 2020-09-09 [1] RSPM (R 4.0.3)
## stringr 1.4.0 2019-02-10 [1] RSPM (R 4.0.3)
## testthat 3.0.1 2022-02-15 [1] Github (R-lib/testthat@e99155a)
## usethis 2.1.5.9000 2022-02-15 [1] Github (r-lib/usethis@57b109a)
## withr 2.3.0 2020-09-22 [1] RSPM (R 4.0.2)
## xfun 0.26 2022-02-15 [1] Github (yihui/xfun@74c2a66)
## yaml 2.2.1 2020-02-01 [1] RSPM (R 4.0.3)
## package * version date lib source
## assertthat 0.2.1 2019-03-21 [1] RSPM (R 4.0.5)
## bookdown 0.24 2023-03-28 [1] Github (rstudio/bookdown@88bc4ea)
## bslib 0.4.2 2022-12-16 [1] CRAN (R 4.0.2)
## cachem 1.0.7 2023-02-24 [1] CRAN (R 4.0.2)
## callr 3.5.0 2020-10-08 [1] RSPM (R 4.0.2)
## cli 3.6.1 2023-03-23 [1] CRAN (R 4.0.2)
## crayon 1.3.4 2017-09-16 [1] RSPM (R 4.0.0)
## desc 1.2.0 2018-05-01 [1] RSPM (R 4.0.3)
## devtools 2.3.2 2020-09-18 [1] RSPM (R 4.0.3)
## digest 0.6.25 2020-02-23 [1] RSPM (R 4.0.0)
## ellipsis 0.3.1 2020-05-15 [1] RSPM (R 4.0.3)
## evaluate 0.20 2023-01-17 [1] CRAN (R 4.0.2)
## fastmap 1.1.1 2023-02-24 [1] CRAN (R 4.0.2)
## fs 1.5.0 2020-07-31 [1] RSPM (R 4.0.3)
## glue 1.4.2 2020-08-27 [1] RSPM (R 4.0.5)
## htmltools 0.5.5 2023-03-23 [1] CRAN (R 4.0.2)
## jquerylib 0.1.4 2021-04-26 [1] CRAN (R 4.0.2)
## jsonlite 1.7.1 2020-09-07 [1] RSPM (R 4.0.2)
## knitr 1.33 2023-03-28 [1] Github (yihui/knitr@a1052d1)
## magrittr 2.0.3 2022-03-30 [1] CRAN (R 4.0.2)
## memoise 2.0.1 2021-11-26 [1] CRAN (R 4.0.2)
## pkgbuild 1.1.0 2020-07-13 [1] RSPM (R 4.0.2)
## pkgload 1.1.0 2020-05-29 [1] RSPM (R 4.0.3)
## prettyunits 1.1.1 2020-01-24 [1] RSPM (R 4.0.3)
## processx 3.4.4 2020-09-03 [1] RSPM (R 4.0.2)
## ps 1.4.0 2020-10-07 [1] RSPM (R 4.0.2)
## R6 2.4.1 2019-11-12 [1] RSPM (R 4.0.0)
## remotes 2.2.0 2020-07-21 [1] RSPM (R 4.0.3)
## rlang 1.1.0 2023-03-14 [1] CRAN (R 4.0.2)
## rmarkdown 2.10 2023-03-28 [1] Github (rstudio/rmarkdown@02d3c25)
## rprojroot 2.0.3 2022-04-02 [1] CRAN (R 4.0.2)
## sass 0.4.5 2023-01-24 [1] CRAN (R 4.0.2)
## sessioninfo 1.1.1 2018-11-05 [1] RSPM (R 4.0.3)
## stringi 1.5.3 2020-09-09 [1] RSPM (R 4.0.3)
## stringr 1.4.0 2019-02-10 [1] RSPM (R 4.0.3)
## testthat 3.0.1 2023-03-28 [1] Github (R-lib/testthat@e99155a)
## usethis 1.6.3 2020-09-17 [1] RSPM (R 4.0.2)
## withr 2.3.0 2020-09-22 [1] RSPM (R 4.0.2)
## xfun 0.26 2023-03-28 [1] Github (yihui/xfun@74c2a66)
## yaml 2.2.1 2020-02-01 [1] RSPM (R 4.0.3)
##
## [1] /usr/local/lib/R/site-library
## [2] /usr/local/lib/R/library
Expand Down
96 changes: 54 additions & 42 deletions docs/about-the-authors.html
Original file line number Diff line number Diff line change
Expand Up @@ -23,7 +23,7 @@



<meta name="date" content="2023-03-22" />
<meta name="date" content="2023-05-24" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -52,6 +52,16 @@

<link href="libs/anchor-sections-1.0.1/anchor-sections.css" rel="stylesheet" />
<script src="libs/anchor-sections-1.0.1/anchor-sections.js"></script>

<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-SY6HTV4PFP"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());

gtag('config', 'G-SY6HTV4PFP');
</script>



Expand Down Expand Up @@ -277,55 +287,57 @@ <h1>About the Authors</h1>
<pre><code>## ─ Session info ───────────────────────────────────────────────────────────────
## setting value
## version R version 4.0.2 (2020-06-22)
## os Ubuntu 20.04.3 LTS
## os Ubuntu 20.04.5 LTS
## system x86_64, linux-gnu
## ui X11
## language (EN)
## collate en_US.UTF-8
## ctype en_US.UTF-8
## tz Etc/UTC
## date 2023-03-22
## date 2023-05-24
##
## ─ Packages ───────────────────────────────────────────────────────────────────
## package * version date lib source
## assertthat 0.2.1 2019-03-21 [1] RSPM (R 4.0.3)
## bookdown 0.24 2022-02-15 [1] Github (rstudio/bookdown@88bc4ea)
## callr 3.4.4 2020-09-07 [1] RSPM (R 4.0.2)
## cli 2.0.2 2020-02-28 [1] RSPM (R 4.0.0)
## crayon 1.3.4 2017-09-16 [1] RSPM (R 4.0.0)
## desc 1.2.0 2018-05-01 [1] RSPM (R 4.0.3)
## devtools 2.3.2 2020-09-18 [1] RSPM (R 4.0.3)
## digest 0.6.25 2020-02-23 [1] RSPM (R 4.0.0)
## ellipsis 0.3.1 2020-05-15 [1] RSPM (R 4.0.3)
## evaluate 0.14 2019-05-28 [1] RSPM (R 4.0.3)
## fansi 0.4.1 2020-01-08 [1] RSPM (R 4.0.0)
## fs 1.5.0 2020-07-31 [1] RSPM (R 4.0.3)
## glue 1.6.1 2022-01-22 [1] CRAN (R 4.0.2)
## htmltools 0.5.0 2020-06-16 [1] RSPM (R 4.0.1)
## jquerylib 0.1.4 2021-04-26 [1] CRAN (R 4.0.2)
## knitr 1.33 2022-02-15 [1] Github (yihui/knitr@a1052d1)
## lifecycle 1.0.0 2021-02-15 [1] CRAN (R 4.0.2)
## magrittr 2.0.2 2022-01-26 [1] CRAN (R 4.0.2)
## memoise 1.1.0 2017-04-21 [1] RSPM (R 4.0.0)
## pkgbuild 1.1.0 2020-07-13 [1] RSPM (R 4.0.2)
## pkgload 1.1.0 2020-05-29 [1] RSPM (R 4.0.3)
## prettyunits 1.1.1 2020-01-24 [1] RSPM (R 4.0.3)
## processx 3.4.4 2020-09-03 [1] RSPM (R 4.0.2)
## ps 1.3.4 2020-08-11 [1] RSPM (R 4.0.2)
## purrr 0.3.4 2020-04-17 [1] RSPM (R 4.0.3)
## R6 2.4.1 2019-11-12 [1] RSPM (R 4.0.0)
## remotes 2.2.0 2020-07-21 [1] RSPM (R 4.0.3)
## rlang 0.4.10 2022-02-15 [1] Github (r-lib/rlang@f0c9be5)
## rmarkdown 2.10 2022-02-15 [1] Github (rstudio/rmarkdown@02d3c25)
## rprojroot 2.0.2 2020-11-15 [1] CRAN (R 4.0.2)
## sessioninfo 1.1.1 2018-11-05 [1] RSPM (R 4.0.3)
## stringi 1.5.3 2020-09-09 [1] RSPM (R 4.0.3)
## stringr 1.4.0 2019-02-10 [1] RSPM (R 4.0.3)
## testthat 3.0.1 2022-02-15 [1] Github (R-lib/testthat@e99155a)
## usethis 2.1.5.9000 2022-02-15 [1] Github (r-lib/usethis@57b109a)
## withr 2.3.0 2020-09-22 [1] RSPM (R 4.0.2)
## xfun 0.26 2022-02-15 [1] Github (yihui/xfun@74c2a66)
## yaml 2.2.1 2020-02-01 [1] RSPM (R 4.0.3)
## package * version date lib source
## assertthat 0.2.1 2019-03-21 [1] RSPM (R 4.0.5)
## bookdown 0.24 2023-03-28 [1] Github (rstudio/bookdown@88bc4ea)
## bslib 0.4.2 2022-12-16 [1] CRAN (R 4.0.2)
## cachem 1.0.7 2023-02-24 [1] CRAN (R 4.0.2)
## callr 3.5.0 2020-10-08 [1] RSPM (R 4.0.2)
## cli 3.6.1 2023-03-23 [1] CRAN (R 4.0.2)
## crayon 1.3.4 2017-09-16 [1] RSPM (R 4.0.0)
## desc 1.2.0 2018-05-01 [1] RSPM (R 4.0.3)
## devtools 2.3.2 2020-09-18 [1] RSPM (R 4.0.3)
## digest 0.6.25 2020-02-23 [1] RSPM (R 4.0.0)
## ellipsis 0.3.1 2020-05-15 [1] RSPM (R 4.0.3)
## evaluate 0.20 2023-01-17 [1] CRAN (R 4.0.2)
## fastmap 1.1.1 2023-02-24 [1] CRAN (R 4.0.2)
## fs 1.5.0 2020-07-31 [1] RSPM (R 4.0.3)
## glue 1.4.2 2020-08-27 [1] RSPM (R 4.0.5)
## htmltools 0.5.5 2023-03-23 [1] CRAN (R 4.0.2)
## jquerylib 0.1.4 2021-04-26 [1] CRAN (R 4.0.2)
## jsonlite 1.7.1 2020-09-07 [1] RSPM (R 4.0.2)
## knitr 1.33 2023-03-28 [1] Github (yihui/knitr@a1052d1)
## magrittr 2.0.3 2022-03-30 [1] CRAN (R 4.0.2)
## memoise 2.0.1 2021-11-26 [1] CRAN (R 4.0.2)
## pkgbuild 1.1.0 2020-07-13 [1] RSPM (R 4.0.2)
## pkgload 1.1.0 2020-05-29 [1] RSPM (R 4.0.3)
## prettyunits 1.1.1 2020-01-24 [1] RSPM (R 4.0.3)
## processx 3.4.4 2020-09-03 [1] RSPM (R 4.0.2)
## ps 1.4.0 2020-10-07 [1] RSPM (R 4.0.2)
## R6 2.4.1 2019-11-12 [1] RSPM (R 4.0.0)
## remotes 2.2.0 2020-07-21 [1] RSPM (R 4.0.3)
## rlang 1.1.0 2023-03-14 [1] CRAN (R 4.0.2)
## rmarkdown 2.10 2023-03-28 [1] Github (rstudio/rmarkdown@02d3c25)
## rprojroot 2.0.3 2022-04-02 [1] CRAN (R 4.0.2)
## sass 0.4.5 2023-01-24 [1] CRAN (R 4.0.2)
## sessioninfo 1.1.1 2018-11-05 [1] RSPM (R 4.0.3)
## stringi 1.5.3 2020-09-09 [1] RSPM (R 4.0.3)
## stringr 1.4.0 2019-02-10 [1] RSPM (R 4.0.3)
## testthat 3.0.1 2023-03-28 [1] Github (R-lib/testthat@e99155a)
## usethis 1.6.3 2020-09-17 [1] RSPM (R 4.0.2)
## withr 2.3.0 2020-09-22 [1] RSPM (R 4.0.2)
## xfun 0.26 2023-03-28 [1] Github (yihui/xfun@74c2a66)
## yaml 2.2.1 2020-02-01 [1] RSPM (R 4.0.3)
##
## [1] /usr/local/lib/R/site-library
## [2] /usr/local/lib/R/library</code></pre>
Expand Down
12 changes: 11 additions & 1 deletion docs/customize-samples.html
Original file line number Diff line number Diff line change
Expand Up @@ -23,7 +23,7 @@



<meta name="date" content="2023-03-22" />
<meta name="date" content="2023-05-24" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -52,6 +52,16 @@

<link href="libs/anchor-sections-1.0.1/anchor-sections.css" rel="stylesheet" />
<script src="libs/anchor-sections-1.0.1/anchor-sections.js"></script>

<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-SY6HTV4PFP"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());

gtag('config', 'G-SY6HTV4PFP');
</script>



Expand Down
14 changes: 12 additions & 2 deletions docs/index.html
Original file line number Diff line number Diff line change
Expand Up @@ -23,7 +23,7 @@



<meta name="date" content="2023-03-22" />
<meta name="date" content="2023-05-24" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -52,6 +52,16 @@

<link href="libs/anchor-sections-1.0.1/anchor-sections.css" rel="stylesheet" />
<script src="libs/anchor-sections-1.0.1/anchor-sections.js"></script>

<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-SY6HTV4PFP"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());

gtag('config', 'G-SY6HTV4PFP');
</script>



Expand Down Expand Up @@ -143,7 +153,7 @@ <h1>
</div>
<div id="header">
<h1 class="title">AnVIL: SRA Data</h1>
<p class="date"><em>March 22, 2023</em></p>
<p class="date"><em>May 24, 2023</em></p>
</div>
<div id="about-this-module" class="section level1 unnumbered">
<h1>About this Module</h1>
Expand Down
3 changes: 2 additions & 1 deletion docs/index.md
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
---
title: "AnVIL: SRA Data"
date: "March 22, 2023"
date: "May 24, 2023"
site: bookdown::bookdown_site
documentclass: book
bibliography: book.bib
Expand Down Expand Up @@ -53,3 +53,4 @@ _Programming skills_
## AnVIL Collection {-}

Please check out our full collection of AnVIL and related resources: https://hutchdatascience.org/AnVIL_Collection/

12 changes: 11 additions & 1 deletion docs/multiple-sra-files.html
Original file line number Diff line number Diff line change
Expand Up @@ -23,7 +23,7 @@



<meta name="date" content="2023-03-22" />
<meta name="date" content="2023-05-24" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -52,6 +52,16 @@

<link href="libs/anchor-sections-1.0.1/anchor-sections.css" rel="stylesheet" />
<script src="libs/anchor-sections-1.0.1/anchor-sections.js"></script>

<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-SY6HTV4PFP"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());

gtag('config', 'G-SY6HTV4PFP');
</script>



Expand Down
12 changes: 11 additions & 1 deletion docs/quick-start.html
Original file line number Diff line number Diff line change
Expand Up @@ -23,7 +23,7 @@



<meta name="date" content="2023-03-22" />
<meta name="date" content="2023-05-24" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -52,6 +52,16 @@

<link href="libs/anchor-sections-1.0.1/anchor-sections.css" rel="stylesheet" />
<script src="libs/anchor-sections-1.0.1/anchor-sections.js"></script>

<!-- Global site tag (gtag.js) - Google Analytics -->
<script async src="https://www.googletagmanager.com/gtag/js?id=G-SY6HTV4PFP"></script>
<script>
window.dataLayer = window.dataLayer || [];
function gtag(){dataLayer.push(arguments);}
gtag('js', new Date());

gtag('config', 'G-SY6HTV4PFP');
</script>



Expand Down
Loading

0 comments on commit d9ec495

Please sign in to comment.