Deployed 212b90c to 2024.10 with MkDocs 1.6.0 and mike 2.1.3

sib-swiss · Oct 14, 2024 · 7e21009 · 7e21009
1 parent 45fb41c
commit 7e21009
Show file tree

Hide file tree

Showing 50 changed files with 7,133 additions and 3,046 deletions.
diff --git a/2024.10/404.html b/2024.10/404.html
@@ -527,7 +527,7 @@
 
 
     <li class="md-nav__item">
-      <a href="/course_material/day2/4_decorating_workflow/" class="md-nav__link">
+      <a href="/course_material/day2/4_optimising_snakemake/" class="md-nav__link">
 
 
   <span class="md-ellipsis">
@@ -562,6 +562,27 @@
 
 
 
+
+
+
+
+
+
+    <li class="md-nav__item">
+      <a href="/course_material/day2/6_debugging_snakemake/" class="md-nav__link">
+
+
+  <span class="md-ellipsis">
+    Additional concepts and workflow design/debugging
+  </span>
+
+
+      </a>
+    </li>
+
+
+
+
           </ul>
         </nav>
 
@@ -615,7 +636,7 @@ <h1>404 - Not found</h1>
       <div class="md-copyright">
 
     <div class="md-copyright__highlight">
-      Copyright &copy; 2021-2023 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
+      Copyright &copy; 2021-2024 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
 
     </div>
 

diff --git a/2024.10/assets/images/backbone_all.png b/2024.10/assets/images/backbone_all.png
diff --git a/2024.10/assets/pdf/day2/1_introduction_snakemake.pdf b/2024.10/assets/pdf/day2/1_introduction_snakemake.pdf
diff --git a/2024.10/assets/pdf/day2/2_introduction_snakemake.pdf b/2024.10/assets/pdf/day2/2_introduction_snakemake.pdf
diff --git a/...ets/pdf/day2/2_generalising_snakemake.pdf → ...ets/pdf/day2/3_generalising_snakemake.pdf b/...ets/pdf/day2/2_generalising_snakemake.pdf → ...ets/pdf/day2/3_generalising_snakemake.pdf
diff --git a/2024.10/assets/pdf/day2/3_reproducibility_snakemake.pdf b/2024.10/assets/pdf/day2/3_reproducibility_snakemake.pdf
diff --git a/...assets/pdf/day2/4_additional_concepts.pdf → ...ssets/pdf/day2/4_optimising_snakemake.pdf b/...assets/pdf/day2/4_additional_concepts.pdf → ...ssets/pdf/day2/4_optimising_snakemake.pdf
diff --git a/2024.10/assets/pdf/day2/5_reproducibility_snakemake.pdf b/2024.10/assets/pdf/day2/5_reproducibility_snakemake.pdf
diff --git a/2024.10/assets/pdf/day2/6_additional_concepts.pdf b/2024.10/assets/pdf/day2/6_additional_concepts.pdf
diff --git a/2024.10/course_material/day1/apptainer/index.html b/2024.10/course_material/day1/apptainer/index.html
@@ -661,7 +661,7 @@
 
 
     <li class="md-nav__item">
-      <a href="../../day2/4_decorating_workflow/" class="md-nav__link">
+      <a href="../../day2/4_optimising_snakemake/" class="md-nav__link">
 
 
   <span class="md-ellipsis">
@@ -696,6 +696,27 @@
 
 
 
+
+
+
+
+
+
+    <li class="md-nav__item">
+      <a href="../../day2/6_debugging_snakemake/" class="md-nav__link">
+
+
+  <span class="md-ellipsis">
+    Additional concepts and workflow design/debugging
+  </span>
+
+
+      </a>
+    </li>
+
+
+
+
           </ul>
         </nav>
 
@@ -1124,7 +1145,7 @@ <h3 id="a-bioinformatics-example-extra">A bioinformatics example (extra)</h3>
       <div class="md-copyright">
 
     <div class="md-copyright__highlight">
-      Copyright &copy; 2021-2023 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
+      Copyright &copy; 2021-2024 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
 
     </div>
 

diff --git a/2024.10/course_material/day1/dockerfiles/index.html b/2024.10/course_material/day1/dockerfiles/index.html
@@ -679,7 +679,7 @@
 
 
     <li class="md-nav__item">
-      <a href="../../day2/4_decorating_workflow/" class="md-nav__link">
+      <a href="../../day2/4_optimising_snakemake/" class="md-nav__link">
 
 
   <span class="md-ellipsis">
@@ -714,6 +714,27 @@
 
 
 
+
+
+
+
+
+
+    <li class="md-nav__item">
+      <a href="../../day2/6_debugging_snakemake/" class="md-nav__link">
+
+
+  <span class="md-ellipsis">
+    Additional concepts and workflow design/debugging
+  </span>
+
+
+      </a>
+    </li>
+
+
+
+
           </ul>
         </nav>
 
@@ -1735,7 +1756,7 @@ <h3 id="extra-building-an-image-with-a-browser-interface_1">Extra: Building an i
       <div class="md-copyright">
 
     <div class="md-copyright__highlight">
-      Copyright &copy; 2021-2023 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
+      Copyright &copy; 2021-2024 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
 
     </div>
 

diff --git a/2024.10/course_material/day1/introduction_containers/index.html b/2024.10/course_material/day1/introduction_containers/index.html
@@ -601,7 +601,7 @@
 
 
     <li class="md-nav__item">
-      <a href="../../day2/4_decorating_workflow/" class="md-nav__link">
+      <a href="../../day2/4_optimising_snakemake/" class="md-nav__link">
 
 
   <span class="md-ellipsis">
@@ -636,6 +636,27 @@
 
 
 
+
+
+
+
+
+
+    <li class="md-nav__item">
+      <a href="../../day2/6_debugging_snakemake/" class="md-nav__link">
+
+
+  <span class="md-ellipsis">
+    Additional concepts and workflow design/debugging
+  </span>
+
+
+      </a>
+    </li>
+
+
+
+
           </ul>
         </nav>
 
@@ -842,7 +863,7 @@ <h2 id="exercises">Exercises</h2>
       <div class="md-copyright">
 
     <div class="md-copyright__highlight">
-      Copyright &copy; 2021-2023 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
+      Copyright &copy; 2021-2024 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
 
     </div>
 

diff --git a/2024.10/course_material/day1/managing_docker/index.html b/2024.10/course_material/day1/managing_docker/index.html
@@ -670,7 +670,7 @@
 
 
     <li class="md-nav__item">
-      <a href="../../day2/4_decorating_workflow/" class="md-nav__link">
+      <a href="../../day2/4_optimising_snakemake/" class="md-nav__link">
 
 
   <span class="md-ellipsis">
@@ -705,6 +705,27 @@
 
 
 
+
+
+
+
+
+
+    <li class="md-nav__item">
+      <a href="../../day2/6_debugging_snakemake/" class="md-nav__link">
+
+
+  <span class="md-ellipsis">
+    Additional concepts and workflow design/debugging
+  </span>
+
+
+      </a>
+    </li>
+
+
+
+
           </ul>
         </nav>
 
@@ -1243,7 +1264,7 @@ <h3 id="extra-managing-permissions">Extra: Managing permissions</h3>
       <div class="md-copyright">
 
     <div class="md-copyright__highlight">
-      Copyright &copy; 2021-2023 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
+      Copyright &copy; 2021-2024 SIB Swiss institute of Bioinformatics - <a href="#__consent">Change cookie settings</a>
 
     </div>