fix some text

Author: gmcdonald-sfg

04-hpc.Rmd

@@ -211,7 +211,7 @@ More resources for OOD are available on GRIT's bookstack:
 -   [VS Code
     Server](https://bookstack.grit.ucsb.edu/books/hpc-usage/page/vs-code-server)
 
-## Best practices for sharing our computational resources
+## Best practices
 
 Here we outline our best practices for using shared computational
 resources. These are meant to be living guidelines that will be adapted
@@ -244,7 +244,7 @@ by our team as needed:
     the standard recommend 24 cores and 256GB, coordinate with the team
     on the Slack channel `#hpc-core-dination`.
 
-## Specifying and monitoring resource allocation
+## Resource allocation
 
 It is up to each researcher to: 1) decide how much computational
 resources they need prior to starting each job (i.e., how many cores and
@@ -311,9 +311,9 @@ Available tools:
         temporarily in order to see the setup options.
     -   Sequoia has 192 cores so the default view with 4 columns means a
         pretty large display. In the Meters setup, you can change the
-        left column to be “CPUs (1-4/8) \[Bar\]” and the right column to
-        be “CPUs (5-8/8) \[Bar\]”. This will condense the output and
-        force 8 columns. 
+        left column to be `CPUs (1-4/8) [Bar]` and the right column to
+        be `CPUs (5-8/8) [Bar]` This will condense the output and force
+        8 columns. 
     -   I also like to add disc IO to the left column below memory. 
     -   In the “Display options” setup you can select some that will
         clean up the process information below the resources monitor. I

docs/1-file-structure.html

@@ -134,8 +134,8 @@
 <li class="chapter" data-level="4.3" data-path="4.3-installing-packages.html"><a href="4.3-installing-packages.html"><i class="fa fa-check"></i><b>4.3</b> Installing packages</a></li>
 <li class="chapter" data-level="4.4" data-path="4.4-setting-up-a-grit-account.html"><a href="4.4-setting-up-a-grit-account.html"><i class="fa fa-check"></i><b>4.4</b> Setting up a GRIT account</a></li>
 <li class="chapter" data-level="4.5" data-path="4.5-using-sequoia.html"><a href="4.5-using-sequoia.html"><i class="fa fa-check"></i><b>4.5</b> Using sequoia</a></li>
-<li class="chapter" data-level="4.6" data-path="4.6-best-practices-for-sharing-our-computational-resources.html"><a href="4.6-best-practices-for-sharing-our-computational-resources.html"><i class="fa fa-check"></i><b>4.6</b> Best practices for sharing our computational resources</a></li>
-<li class="chapter" data-level="4.7" data-path="4.7-specifying-and-monitoring-resource-allocation.html"><a href="4.7-specifying-and-monitoring-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Specifying and monitoring resource allocation</a></li>
+<li class="chapter" data-level="4.6" data-path="4.6-best-practices.html"><a href="4.6-best-practices.html"><i class="fa fa-check"></i><b>4.6</b> Best practices</a></li>
+<li class="chapter" data-level="4.7" data-path="4.7-resource-allocation.html"><a href="4.7-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Resource allocation</a></li>
 <li class="chapter" data-level="4.8" data-path="4.8-using-quebracho.html"><a href="4.8-using-quebracho.html"><i class="fa fa-check"></i><b>4.8</b> Using quebracho</a></li>
 <li class="chapter" data-level="4.9" data-path="4.9-accessing-data.html"><a href="4.9-accessing-data.html"><i class="fa fa-check"></i><b>4.9</b> Accessing data</a></li>
 <li class="chapter" data-level="4.10" data-path="4.10-accessing-code.html"><a href="4.10-accessing-code.html"><i class="fa fa-check"></i><b>4.10</b> Accessing code</a></li>
@@ -237,20 +237,6 @@ <h1><span class="header-section-number">1</span> File Structure<a href="1-file-s
 });
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docs/1.1-folder-naming.html

@@ -134,8 +134,8 @@
 <li class="chapter" data-level="4.3" data-path="4.3-installing-packages.html"><a href="4.3-installing-packages.html"><i class="fa fa-check"></i><b>4.3</b> Installing packages</a></li>
 <li class="chapter" data-level="4.4" data-path="4.4-setting-up-a-grit-account.html"><a href="4.4-setting-up-a-grit-account.html"><i class="fa fa-check"></i><b>4.4</b> Setting up a GRIT account</a></li>
 <li class="chapter" data-level="4.5" data-path="4.5-using-sequoia.html"><a href="4.5-using-sequoia.html"><i class="fa fa-check"></i><b>4.5</b> Using sequoia</a></li>
-<li class="chapter" data-level="4.6" data-path="4.6-best-practices-for-sharing-our-computational-resources.html"><a href="4.6-best-practices-for-sharing-our-computational-resources.html"><i class="fa fa-check"></i><b>4.6</b> Best practices for sharing our computational resources</a></li>
-<li class="chapter" data-level="4.7" data-path="4.7-specifying-and-monitoring-resource-allocation.html"><a href="4.7-specifying-and-monitoring-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Specifying and monitoring resource allocation</a></li>
+<li class="chapter" data-level="4.6" data-path="4.6-best-practices.html"><a href="4.6-best-practices.html"><i class="fa fa-check"></i><b>4.6</b> Best practices</a></li>
+<li class="chapter" data-level="4.7" data-path="4.7-resource-allocation.html"><a href="4.7-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Resource allocation</a></li>
 <li class="chapter" data-level="4.8" data-path="4.8-using-quebracho.html"><a href="4.8-using-quebracho.html"><i class="fa fa-check"></i><b>4.8</b> Using quebracho</a></li>
 <li class="chapter" data-level="4.9" data-path="4.9-accessing-data.html"><a href="4.9-accessing-data.html"><i class="fa fa-check"></i><b>4.9</b> Accessing data</a></li>
 <li class="chapter" data-level="4.10" data-path="4.10-accessing-code.html"><a href="4.10-accessing-code.html"><i class="fa fa-check"></i><b>4.10</b> Accessing code</a></li>
@@ -238,20 +238,6 @@ <h2><span class="header-section-number">1.1</span> Folder Naming<a href="1.1-fol
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docs/1.2-google-shared-drive.html

@@ -134,8 +134,8 @@
 <li class="chapter" data-level="4.3" data-path="4.3-installing-packages.html"><a href="4.3-installing-packages.html"><i class="fa fa-check"></i><b>4.3</b> Installing packages</a></li>
 <li class="chapter" data-level="4.4" data-path="4.4-setting-up-a-grit-account.html"><a href="4.4-setting-up-a-grit-account.html"><i class="fa fa-check"></i><b>4.4</b> Setting up a GRIT account</a></li>
 <li class="chapter" data-level="4.5" data-path="4.5-using-sequoia.html"><a href="4.5-using-sequoia.html"><i class="fa fa-check"></i><b>4.5</b> Using sequoia</a></li>
-<li class="chapter" data-level="4.6" data-path="4.6-best-practices-for-sharing-our-computational-resources.html"><a href="4.6-best-practices-for-sharing-our-computational-resources.html"><i class="fa fa-check"></i><b>4.6</b> Best practices for sharing our computational resources</a></li>
-<li class="chapter" data-level="4.7" data-path="4.7-specifying-and-monitoring-resource-allocation.html"><a href="4.7-specifying-and-monitoring-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Specifying and monitoring resource allocation</a></li>
+<li class="chapter" data-level="4.6" data-path="4.6-best-practices.html"><a href="4.6-best-practices.html"><i class="fa fa-check"></i><b>4.6</b> Best practices</a></li>
+<li class="chapter" data-level="4.7" data-path="4.7-resource-allocation.html"><a href="4.7-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Resource allocation</a></li>
 <li class="chapter" data-level="4.8" data-path="4.8-using-quebracho.html"><a href="4.8-using-quebracho.html"><i class="fa fa-check"></i><b>4.8</b> Using quebracho</a></li>
 <li class="chapter" data-level="4.9" data-path="4.9-accessing-data.html"><a href="4.9-accessing-data.html"><i class="fa fa-check"></i><b>4.9</b> Accessing data</a></li>
 <li class="chapter" data-level="4.10" data-path="4.10-accessing-code.html"><a href="4.10-accessing-code.html"><i class="fa fa-check"></i><b>4.10</b> Accessing code</a></li>
@@ -285,20 +285,6 @@ <h3><span class="header-section-number">1.2.2</span> Project Folder Structure<a
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docs/1.3-grit-data-storage-space.html

@@ -134,8 +134,8 @@
 <li class="chapter" data-level="4.3" data-path="4.3-installing-packages.html"><a href="4.3-installing-packages.html"><i class="fa fa-check"></i><b>4.3</b> Installing packages</a></li>
 <li class="chapter" data-level="4.4" data-path="4.4-setting-up-a-grit-account.html"><a href="4.4-setting-up-a-grit-account.html"><i class="fa fa-check"></i><b>4.4</b> Setting up a GRIT account</a></li>
 <li class="chapter" data-level="4.5" data-path="4.5-using-sequoia.html"><a href="4.5-using-sequoia.html"><i class="fa fa-check"></i><b>4.5</b> Using sequoia</a></li>
-<li class="chapter" data-level="4.6" data-path="4.6-best-practices-for-sharing-our-computational-resources.html"><a href="4.6-best-practices-for-sharing-our-computational-resources.html"><i class="fa fa-check"></i><b>4.6</b> Best practices for sharing our computational resources</a></li>
-<li class="chapter" data-level="4.7" data-path="4.7-specifying-and-monitoring-resource-allocation.html"><a href="4.7-specifying-and-monitoring-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Specifying and monitoring resource allocation</a></li>
+<li class="chapter" data-level="4.6" data-path="4.6-best-practices.html"><a href="4.6-best-practices.html"><i class="fa fa-check"></i><b>4.6</b> Best practices</a></li>
+<li class="chapter" data-level="4.7" data-path="4.7-resource-allocation.html"><a href="4.7-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Resource allocation</a></li>
 <li class="chapter" data-level="4.8" data-path="4.8-using-quebracho.html"><a href="4.8-using-quebracho.html"><i class="fa fa-check"></i><b>4.8</b> Using quebracho</a></li>
 <li class="chapter" data-level="4.9" data-path="4.9-accessing-data.html"><a href="4.9-accessing-data.html"><i class="fa fa-check"></i><b>4.9</b> Accessing data</a></li>
 <li class="chapter" data-level="4.10" data-path="4.10-accessing-code.html"><a href="4.10-accessing-code.html"><i class="fa fa-check"></i><b>4.10</b> Accessing code</a></li>
@@ -397,20 +397,6 @@ <h4><span class="header-section-number">1.3.3.2</span> <code>emlab/data</code><a
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docs/1.4-github-structure.html

@@ -134,8 +134,8 @@
 <li class="chapter" data-level="4.3" data-path="4.3-installing-packages.html"><a href="4.3-installing-packages.html"><i class="fa fa-check"></i><b>4.3</b> Installing packages</a></li>
 <li class="chapter" data-level="4.4" data-path="4.4-setting-up-a-grit-account.html"><a href="4.4-setting-up-a-grit-account.html"><i class="fa fa-check"></i><b>4.4</b> Setting up a GRIT account</a></li>
 <li class="chapter" data-level="4.5" data-path="4.5-using-sequoia.html"><a href="4.5-using-sequoia.html"><i class="fa fa-check"></i><b>4.5</b> Using sequoia</a></li>
-<li class="chapter" data-level="4.6" data-path="4.6-best-practices-for-sharing-our-computational-resources.html"><a href="4.6-best-practices-for-sharing-our-computational-resources.html"><i class="fa fa-check"></i><b>4.6</b> Best practices for sharing our computational resources</a></li>
-<li class="chapter" data-level="4.7" data-path="4.7-specifying-and-monitoring-resource-allocation.html"><a href="4.7-specifying-and-monitoring-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Specifying and monitoring resource allocation</a></li>
+<li class="chapter" data-level="4.6" data-path="4.6-best-practices.html"><a href="4.6-best-practices.html"><i class="fa fa-check"></i><b>4.6</b> Best practices</a></li>
+<li class="chapter" data-level="4.7" data-path="4.7-resource-allocation.html"><a href="4.7-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Resource allocation</a></li>
 <li class="chapter" data-level="4.8" data-path="4.8-using-quebracho.html"><a href="4.8-using-quebracho.html"><i class="fa fa-check"></i><b>4.8</b> Using quebracho</a></li>
 <li class="chapter" data-level="4.9" data-path="4.9-accessing-data.html"><a href="4.9-accessing-data.html"><i class="fa fa-check"></i><b>4.9</b> Accessing data</a></li>
 <li class="chapter" data-level="4.10" data-path="4.10-accessing-code.html"><a href="4.10-accessing-code.html"><i class="fa fa-check"></i><b>4.10</b> Accessing code</a></li>
@@ -292,20 +292,6 @@ <h3><span class="header-section-number">1.4.2</span> A repo inside a repo<a href
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docs/2-data.html

@@ -134,8 +134,8 @@
 <li class="chapter" data-level="4.3" data-path="4.3-installing-packages.html"><a href="4.3-installing-packages.html"><i class="fa fa-check"></i><b>4.3</b> Installing packages</a></li>
 <li class="chapter" data-level="4.4" data-path="4.4-setting-up-a-grit-account.html"><a href="4.4-setting-up-a-grit-account.html"><i class="fa fa-check"></i><b>4.4</b> Setting up a GRIT account</a></li>
 <li class="chapter" data-level="4.5" data-path="4.5-using-sequoia.html"><a href="4.5-using-sequoia.html"><i class="fa fa-check"></i><b>4.5</b> Using sequoia</a></li>
-<li class="chapter" data-level="4.6" data-path="4.6-best-practices-for-sharing-our-computational-resources.html"><a href="4.6-best-practices-for-sharing-our-computational-resources.html"><i class="fa fa-check"></i><b>4.6</b> Best practices for sharing our computational resources</a></li>
-<li class="chapter" data-level="4.7" data-path="4.7-specifying-and-monitoring-resource-allocation.html"><a href="4.7-specifying-and-monitoring-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Specifying and monitoring resource allocation</a></li>
+<li class="chapter" data-level="4.6" data-path="4.6-best-practices.html"><a href="4.6-best-practices.html"><i class="fa fa-check"></i><b>4.6</b> Best practices</a></li>
+<li class="chapter" data-level="4.7" data-path="4.7-resource-allocation.html"><a href="4.7-resource-allocation.html"><i class="fa fa-check"></i><b>4.7</b> Resource allocation</a></li>
 <li class="chapter" data-level="4.8" data-path="4.8-using-quebracho.html"><a href="4.8-using-quebracho.html"><i class="fa fa-check"></i><b>4.8</b> Using quebracho</a></li>
 <li class="chapter" data-level="4.9" data-path="4.9-accessing-data.html"><a href="4.9-accessing-data.html"><i class="fa fa-check"></i><b>4.9</b> Accessing data</a></li>
 <li class="chapter" data-level="4.10" data-path="4.10-accessing-code.html"><a href="4.10-accessing-code.html"><i class="fa fa-check"></i><b>4.10</b> Accessing code</a></li>
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