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12 changes: 0 additions & 12 deletions docs/04-billing_modules.md
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## Disable Terra Billing Project

By default this module includes a warning to make sure people understand they will lose access to their Workspace buckets. You can remove the warning from this module by setting `AnVIL_module_settings$warning` to `FALSE` before running `cow::borrow_chapter`:

```
AnVIL_module_settings <- list(
warning = FALSE
)
cow::borrow_chapter(
doc_path = "child/_child_terra_billing_project_disable.Rmd",
repo_name = "jhudsl/AnVIL_Template"
)
```

:::: {.borrowed_chunk}

:::{.warning}
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3 changes: 1 addition & 2 deletions docs/05-anvil_onboarding.md
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You can easily access the data on AnVIL by cloning the dedicated workspace. These sections guide you through creating an AnVIL account and accessing the workspace.

You can access the data on AnVIL by cloning the dedicated Workspace. These sections guide you through creating an AnVIL account and accessing the Workspace.

## Create Google Account

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308 changes: 45 additions & 263 deletions docs/08-student_guide.md
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60 changes: 21 additions & 39 deletions docs/404.html
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<li class="chapter" data-level="7.3" data-path="programming-platforms.html"><a href="programming-platforms.html#navigating-galaxy"><i class="fa fa-check"></i><b>7.3</b> Navigating Galaxy</a></li>
<li class="chapter" data-level="7.4" data-path="programming-platforms.html"><a href="programming-platforms.html#deleting-galaxy"><i class="fa fa-check"></i><b>7.4</b> Deleting Galaxy</a></li>
</ul></li>
<li class="part"><span><b>Student Guide to AnVIL</b></span></li>
<li class="chapter" data-level="8" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html"><i class="fa fa-check"></i><b>8</b> Using RStudio on AnVIL</a>
<li class="chapter" data-level="" data-path=""><a href="#part-student-activity"><i class="fa fa-check"></i>(PART*) Student Activity</a>
<ul>
<li class="chapter" data-level="8.1" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html#video-overview-of-rstudio-on-anvil"><i class="fa fa-check"></i><b>8.1</b> Video overview of RStudio on AnVIL</a>
<ul>
<li class="chapter" data-level="8.1.1" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html#objectives-1"><i class="fa fa-check"></i><b>8.1.1</b> Objectives</a></li>
<li class="chapter" data-level="8.1.2" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html#slides-1"><i class="fa fa-check"></i><b>8.1.2</b> Slides</a></li>
</ul></li>
<li class="chapter" data-level="8.2" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html#launching-rstudio"><i class="fa fa-check"></i><b>8.2</b> Launching RStudio</a></li>
<li class="chapter" data-level="8.3" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html#touring-rstudio"><i class="fa fa-check"></i><b>8.3</b> Touring RStudio</a></li>
<li class="chapter" data-level="8.4" data-path="using-rstudio-on-anvil.html"><a href="using-rstudio-on-anvil.html#pausing-rstudio"><i class="fa fa-check"></i><b>8.4</b> Pausing RStudio</a></li>
</ul></li>
<li class="chapter" data-level="9" data-path="using-galaxy-on-anvil.html"><a href="using-galaxy-on-anvil.html"><i class="fa fa-check"></i><b>9</b> Using Galaxy on AnVIL</a>
<ul>
<li class="chapter" data-level="9.1" data-path="using-galaxy-on-anvil.html"><a href="using-galaxy-on-anvil.html#video-overview-on-using-galaxy-1"><i class="fa fa-check"></i><b>9.1</b> Video overview on using Galaxy</a>
<ul>
<li class="chapter" data-level="9.1.1" data-path="using-galaxy-on-anvil.html"><a href="using-galaxy-on-anvil.html#objectives-2"><i class="fa fa-check"></i><b>9.1.1</b> Objectives</a></li>
<li class="chapter" data-level="9.1.2" data-path="using-galaxy-on-anvil.html"><a href="using-galaxy-on-anvil.html#slides-2"><i class="fa fa-check"></i><b>9.1.2</b> Slides</a></li>
</ul></li>
<li class="chapter" data-level="9.2" data-path="programming-platforms.html"><a href="programming-platforms.html#starting-galaxy"><i class="fa fa-check"></i><b>9.2</b> Starting Galaxy</a></li>
<li class="chapter" data-level="9.3" data-path="using-galaxy-on-anvil.html"><a href="using-galaxy-on-anvil.html#navigating-galaxy-1"><i class="fa fa-check"></i><b>9.3</b> Navigating Galaxy</a></li>
<li class="chapter" data-level="9.4" data-path="using-galaxy-on-anvil.html"><a href="using-galaxy-on-anvil.html#deleting-galaxy-1"><i class="fa fa-check"></i><b>9.4</b> Deleting Galaxy</a></li>
<li class="chapter" data-level="7.5" data-path=""><a href="#anvil-account-setup"><i class="fa fa-check"></i><b>7.5</b> AnVIL Account Setup</a></li>
<li class="chapter" data-level="7.6" data-path="programming-platforms.html"><a href="programming-platforms.html#cloning-the-anvil-workspace"><i class="fa fa-check"></i><b>7.6</b> Cloning the AnVIL Workspace</a></li>
</ul></li>
<li class="part"><span><b>Instructor Checklist for AnVIL</b></span></li>
<li class="chapter" data-level="10" data-path="notes-for-instructors.html"><a href="notes-for-instructors.html"><i class="fa fa-check"></i><b>10</b> Notes for Instructors</a></li>
<li class="chapter" data-level="11" data-path="checklist-for-running-activities-on-anvil.html"><a href="checklist-for-running-activities-on-anvil.html"><i class="fa fa-check"></i><b>11</b> Checklist for Running Activities on AnVIL</a>
<li class="chapter" data-level="8" data-path="notes-for-instructors.html"><a href="notes-for-instructors.html"><i class="fa fa-check"></i><b>8</b> Notes for Instructors</a></li>
<li class="chapter" data-level="9" data-path="checklist-for-running-activities-on-anvil.html"><a href="checklist-for-running-activities-on-anvil.html"><i class="fa fa-check"></i><b>9</b> Checklist for Running Activities on AnVIL</a>
<ul>
<li class="chapter" data-level="" data-path="checklist-for-running-activities-on-anvil.html"><a href="checklist-for-running-activities-on-anvil.html#before-the-class-begins"><i class="fa fa-check"></i>Before the class begins</a></li>
<li class="chapter" data-level="" data-path="checklist-for-running-activities-on-anvil.html"><a href="checklist-for-running-activities-on-anvil.html#after-the-class-ends"><i class="fa fa-check"></i>After the class ends</a></li>
</ul></li>
<li class="chapter" data-level="12" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html"><i class="fa fa-check"></i><b>12</b> Setting up Billing on AnVIL</a>
<li class="chapter" data-level="10" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html"><i class="fa fa-check"></i><b>10</b> Setting up Billing on AnVIL</a>
<ul>
<li class="chapter" data-level="12.1" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#billing-project"><i class="fa fa-check"></i><b>12.1</b> Creating a billing project</a></li>
<li class="chapter" data-level="12.2" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#adding-instructors-as-owner"><i class="fa fa-check"></i><b>12.2</b> Adding Instructors as “Owner”</a></li>
<li class="chapter" data-level="12.3" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#adding-students-as-user"><i class="fa fa-check"></i><b>12.3</b> Adding Students as “User”</a></li>
<li class="chapter" data-level="12.4" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#understanding-the-various-billing-costs"><i class="fa fa-check"></i><b>12.4</b> Understanding the various billing costs</a></li>
<li class="chapter" data-level="12.5" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#estimating-costs-before-the-class-begins"><i class="fa fa-check"></i><b>12.5</b> Estimating costs before the class begins</a></li>
<li class="chapter" data-level="12.6" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#how-much-does-a-class-cost"><i class="fa fa-check"></i><b>12.6</b> How much does a class cost?</a></li>
<li class="chapter" data-level="10.1" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#billing-project"><i class="fa fa-check"></i><b>10.1</b> Creating a billing project</a></li>
<li class="chapter" data-level="10.2" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#adding-instructors-as-owner"><i class="fa fa-check"></i><b>10.2</b> Adding Instructors as “Owner”</a></li>
<li class="chapter" data-level="10.3" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#adding-students-as-user"><i class="fa fa-check"></i><b>10.3</b> Adding Students as “User”</a></li>
<li class="chapter" data-level="10.4" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#understanding-the-various-billing-costs"><i class="fa fa-check"></i><b>10.4</b> Understanding the various billing costs</a></li>
<li class="chapter" data-level="10.5" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#estimating-costs-before-the-class-begins"><i class="fa fa-check"></i><b>10.5</b> Estimating costs before the class begins</a></li>
<li class="chapter" data-level="10.6" data-path="setting-up-billing-on-anvil.html"><a href="setting-up-billing-on-anvil.html#how-much-does-a-class-cost"><i class="fa fa-check"></i><b>10.6</b> How much does a class cost?</a></li>
</ul></li>
<li class="chapter" data-level="13" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html"><i class="fa fa-check"></i><b>13</b> Setting up the Class Activity</a>
<li class="chapter" data-level="11" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html"><i class="fa fa-check"></i><b>11</b> Setting up the Class Activity</a>
<ul>
<li class="chapter" data-level="13.1" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#overview-of-class-setup"><i class="fa fa-check"></i><b>13.1</b> Overview of Class Setup</a></li>
<li class="chapter" data-level="13.2" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#collect-google-ids"><i class="fa fa-check"></i><b>13.2</b> Collect Google IDs</a></li>
<li class="chapter" data-level="13.3" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#set-up-groups"><i class="fa fa-check"></i><b>13.3</b> Set Up Groups</a>
<li class="chapter" data-level="11.1" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#overview-of-class-setup"><i class="fa fa-check"></i><b>11.1</b> Overview of Class Setup</a></li>
<li class="chapter" data-level="11.2" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#collect-google-ids"><i class="fa fa-check"></i><b>11.2</b> Collect Google IDs</a></li>
<li class="chapter" data-level="11.3" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#set-up-groups"><i class="fa fa-check"></i><b>11.3</b> Set Up Groups</a>
<ul>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#instructor-group-instructor-group"><i class="fa fa-check"></i>Instructor Group {#instructor-group}</a></li>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#student-group-student-group"><i class="fa fa-check"></i>Student Group {#student-group}</a></li>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#group-email-lists"><i class="fa fa-check"></i>Group Email Lists</a></li>
</ul></li>
<li class="chapter" data-level="13.4" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#set-up-billing-projects"><i class="fa fa-check"></i><b>13.4</b> Set Up Billing Projects</a>
<li class="chapter" data-level="11.4" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#set-up-billing-projects"><i class="fa fa-check"></i><b>11.4</b> Set Up Billing Projects</a>
<ul>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#instructor-billing-project-instructor-billing-project"><i class="fa fa-check"></i>Instructor Billing Project {#instructor-billing-project}</a></li>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#student-billing-project-student-billing-project"><i class="fa fa-check"></i>Student Billing Project {#student-billing-project}</a></li>
</ul></li>
<li class="chapter" data-level="13.5" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#set-permissions-on-the-workspace"><i class="fa fa-check"></i><b>13.5</b> Set Permissions on the Workspace</a>
<li class="chapter" data-level="11.5" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#set-permissions-on-the-workspace"><i class="fa fa-check"></i><b>11.5</b> Set Permissions on the Workspace</a>
<ul>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#add-instructors-as-owner"><i class="fa fa-check"></i>Add Instructors as “Owner”</a></li>
<li class="chapter" data-level="" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#add-students-as-reader"><i class="fa fa-check"></i>Add Students as “Reader”</a></li>
</ul></li>
<li class="chapter" data-level="13.6" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#notify-terra"><i class="fa fa-check"></i><b>13.6</b> Notify Terra</a></li>
<li class="chapter" data-level="11.6" data-path="setting-up-the-class-activity.html"><a href="setting-up-the-class-activity.html#notify-terra"><i class="fa fa-check"></i><b>11.6</b> Notify Terra</a></li>
</ul></li>
<li class="chapter" data-level="14" data-path="getting-credit-for-professional-development.html"><a href="getting-credit-for-professional-development.html"><i class="fa fa-check"></i><b>14</b> Getting Credit for Professional Development</a></li>
<li class="chapter" data-level="12" data-path="getting-credit-for-professional-development.html"><a href="getting-credit-for-professional-development.html"><i class="fa fa-check"></i><b>12</b> Getting Credit for Professional Development</a></li>
<li class="chapter" data-level="" data-path="about-the-authors.html"><a href="about-the-authors.html"><i class="fa fa-check"></i>About the Authors</a></li>
<li class="chapter" data-level="15" data-path="references.html"><a href="references.html"><i class="fa fa-check"></i><b>15</b> References</a></li>
<li class="chapter" data-level="13" data-path="references.html"><a href="references.html"><i class="fa fa-check"></i><b>13</b> References</a></li>
<li class="divider"></li>
<p style="text-align:center;"> <a href="https://github.com/jhudsl/OTTR_Template" target="blank" > This content was published with</a> <a href="https://bookdown.org/" target="blank"> bookdown by: </a> </p>
<p style="text-align:center;"> <a href="https://hutchdatascience.org/"> The Fred Hutch Data Science Lab </a></p>
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