Update main to current development state (20-06-2024)

.gitignore

@@ -1,2 +1,3 @@
 .DS_Store
 merged.css
+.idea

custom.css → ncct/custom.css

@@ -367,3 +367,37 @@ a[target="_blank"].btn:after {
   position: relative;
   bottom: 10px;
 }
+
+.ncct-information-icon {
+    background-size: 100% 100%;
+    display: inline-block;
+    height: 20px;
+    width: 20px;
+    position:absolute;
+    right:0px;
+}
+
+.ncct-tooltip-text {
+  visibility: hidden;
+  opacity: .9;
+  background-color: #027ba4;
+  color: #fff;
+  padding: 1em;
+  border-radius: 6px;
+  position: absolute;
+  z-index: 1;
+  top: -5px;
+  right: 10%;
+  line-height: 15px;
+  font-size: 0.875em;
+  width: max-content;
+  max-width: 300px;
+}
+
+@media (min-width: 1750px) {
+  .ncct-tooltip-text {
+    left: 105%;
+  }
+}
+
+

custom_bootstrap.css → ncct/custom_bootstrap.css

@@ -283,6 +283,8 @@
 
 .bs4-card-deck .bs4-card {
   margin-bottom: 15px;
+  min-width: 300px;
+  max-width:  470px;
 }
 
 @media (min-width: 576px) {

site/our-center/cc-network.html → ncct/site/our-center/cc-network.html

@@ -1,5 +1,5 @@
 <section id="cc-network">
-    <div class="bs4-container-fluid bs4-col-8 bs4-offset-2">
+    <div class="bs4-container-fluid bs4-col-8 bs4-offset-2 bs4-min-vh-100">
         <div class="section-title">&nbsp;</div>
 
         <div class="bs4-text-center bs4-h2 ">The Competence-Center Network</div>
@@ -34,4 +34,4 @@
             </ul>
         </div>
     </div>
-</section>
+</section>

ncct/site/our-center/institutes.html

@@ -0,0 +1,84 @@
+<section id="institutes">
+    <div class="bs4-container-fluid">
+        <div class="bs4-col-8 bs4-offset-2">
+            <div class="section-title">
+                <div class="bs4-h1 bs4-text-center">A collaborative effort</div>
+            </div>
+
+            <div class="bs4-card bs4-p-3 bg-ncct">
+                <div class="bs4-card-deck">
+                    <div class="bs4-card"><img class="bs4-img-thumbnail bs4-img-fluid"
+                                               src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/38618/Olaf+Riess+Portrait.jpg/8360e72d-16ee-43d3-998a-c3c615eda51c?t=1585825395000"/>
+                        <div class="bs4-card-body bs4-text-left">
+                            <div class="bs4-card-title bs4-text-center bs4-h5"><a
+                                href="http://www.medgen-tuebingen.de/#langsel" target="_blank">Institute
+                                of Medical Genetics and Applied Genomics</a></div>
+
+                            <div class="bs4-card-text">
+                                <p class="bs4-text-right bs4-font-italic">Prof. Olaf Riess,
+                                    coordinator</p>
+
+                                <p class="bs4-font-weight-bold">Contact Persons:</p>
+
+                                <p><a href="mailto:[email protected]">Dr. Nicolas
+                                    Casadei,</a></p>
+
+                                <p>Head of the Core Facility</p>
+
+                                <p><a href="mailto:[email protected]">Prof.
+                                    Stephan Ossowski,</a></p>
+
+                                <p>Head of Computational Genomics</p>
+                            </div>
+                        </div>
+                    </div>
+
+                    <div class="bs4-card"><img class="bs4-img-thumbnail bs4-img-fluid"
+                                               src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/38618/Silke+Peter+Portrait/e382ae58-b633-4251-b50f-da3c28cb9f3c?t=1625481141496"/>
+                        <div class="bs4-card-body bs4-text-left">
+                            <div class="bs4-card-title bs4-text-center bs4-h5"><a
+                                href="https://www.medizin.uni-tuebingen.de/de/das-klinikum/einrichtungen/institute/med-mikrobiologie-und-hygiene"
+                                target="_blank">Institute of Medical Microbiology and Hygiene</a>
+                            </div>
+
+                            <div class="bs4-card-text">
+                                <p class="bs4-text-right bs4-font-italic ">Apl. Prof. Silke
+                                    Peter</p>
+
+                                <p class="bs4-font-weight-bold">Contact Persons:</p>
+                                <a href="mailto:[email protected]">Dr. Janina Vogt</a>
+
+                                <p>Project Manager and Research Scientist</p>
+                                <a href="mailto:[email protected]">Dr. Janina Geißert-Janek</a>
+
+                                <p>Project Manager and Research Scientist</p>
+                            </div>
+                        </div>
+                    </div>
+
+                    <div class="bs4-card"><img class="bs4-img-thumbnail bs4-img-fluid"
+                                               src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/38618/Sven+Nahnsen+Portrait.jpg/aae86abb-fbf6-4e08-9d0f-bce4eaffa398?t=1585825395000"/>
+                        <div class="bs4-card-body bs4-text-left">
+                            <div class="bs4-card-title bs4-text-center bs4-h5 bs4-mb-md-1"><a
+                                _blank=""
+                                href="https://uni-tuebingen.de/en/facilities/zentrale-einrichtungen/quantitative-biology-center-qbic.html"
+                                target="_blank">Quantitative Biology Center (QBiC)</a></div>
+
+                            <div class="bs4-h5">&nbsp;</div>
+
+                            <div class="bs4-card-text">
+                                <p class="bs4-text-right bs4-font-italic">Dr. Sven Nahnsen</p>
+
+                                <p class="bs4-font-weight-bold">Contact Persons:</p>
+                                <a href="mailto:[email protected]">Stefan
+                                    Czemmel, </a>
+
+                                <p>Team Leader Project Management & Bioinfomatics Support</p>
+                            </div>
+                        </div>
+                    </div>
+                </div>
+            </div>
+        </div>
+    </div>
+</section>

site/our-center/ncct-contact.html → ncct/site/our-center/ncct-contact.html

@@ -1,7 +1,7 @@
 <section id="ncct-contact">
     <div class="bs4-container-fluid">
         <div class="bs4-col-8 bs4-offset-2">
-            <div class="section-title">
+            <div class="section-title"
                 <div class="bs4-text-center bs4-h1">We'd love to hear from you!</div>
             </div>
 
@@ -13,8 +13,14 @@
                         <div class="bs4-card-textbox bs4-mt-3">
                             <div class="bs4-card-title bs4-h4">Address</div>
 
-                            <p class="bs4-card-text bs4-h6">NGS Competence Center Tübingen<br />
+                            <p class="bs4-card-text bs4-h6"><a href="https://goo.gl/maps/J37UrVYNgUCZUtz76" target="_blank">Institute of Medical Genetics and Applied Genomics</a><br />
                                 Calwerstraße 7, 72076 Tübingen.</p>
+
+                            <p class="bs4-card-text bs4-h6"><a href="https://goo.gl/maps/5sHjmTi29TWH4GR68" target="_blank">Institute of Medical Microbiology and Hygiene</a><br />
+                                Elfriede-Aulhorn-Straße 6, 72076 Tübingen.</p>
+
+                            <p class="bs4-card-text bs4-h6"><a href="https://goo.gl/maps/ze2EdqoMxER4obx86" target="_blank">Quantitative Biology Center</a><br />
+                                Auf der Morgenstelle 10, 72076 Tübingen.</p>
                         </div>
                     </div>
                 </div>
@@ -44,4 +50,4 @@
             </div>
         </div>
     </div>
-</section>
+</section>

site/our-center/vision.html → ncct/site/our-center/vision.html

@@ -11,7 +11,7 @@
                 strengthening the use of <strong>high-throughput sequencing</strong> methods in Germany.<br />
                 <br />
                 The center offers <strong>automated</strong> high-throughput services and a rich portfolio of sequencing
-                solutions using the latest <strong>Illumina</strong> and <strong>Oxford Nanopore Technologies</strong>
+                solutions using the latest <strong>Illumina</strong>, <strong>Pacific Biosciences (PACBIO)</strong>and <strong>Oxford Nanopore Technologies (ONT)</strong>
                 sequencers. As part of the <a href="http://qbic.life" target="_blank">Quantitative Biology Center</a>
                 (QBiC), NCCT builds on established core facility structures and integrates with the existing
                 infrastructure for data management and bioinformatics support.</div>

ncct/site/resources/resources-header.html

@@ -0,0 +1,9 @@
+<section id="Resources-Header">
+    <div class="bs4-container">
+        <div class="bs4-col-8 bs4-offset-2">
+            <div class="section-title">
+                <div class="bs4-h1 bs4-text-center">Resources</div>
+            </div>
+        </div>
+    </div>
+</section>

ncct/site/resources/resources-mandatory-information.html

@@ -0,0 +1,36 @@
+<section id="mandatory-information">
+  <div class="bs4-col-8 bs4-offset-2">
+    <div class="section-title">
+      <div class="bs4-h1 bs4-text-center">Mandatory Information</div>
+    </div>
+
+    <div class="bs4-card-deck bs4-text-center">
+      <div class="bs4-card bs4-border-0">
+        <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/71284/NCCT_General-Guidelines.pdf/9241f0c8-989e-4f08-8669-dc233601794e"><img alt="General Information" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/informationIconCropped.png/a62cc9ee-6480-4ebe-9970-4332ba5574d0?t=1674231383000" /> </a>
+
+          <div class="bs4-card-textbox bs4-mt-3">
+            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/71284/NCCT_General-Guidelines.pdf/9241f0c8-989e-4f08-8669-dc233601794e">General Information</a></div>
+          </div>
+        </div>
+      </div>
+
+      <div class="bs4-card bs4-border-0">
+        <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/71284/NCCT_NGS_Metadata_Sheet_1-7-5.xlsx/41701ec2-520d-4d41-976b-04207596701d"><img alt="Metadata Sheet" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/FileIcon.png/74c134aa-21a4-408c-86c2-b91afc7c8698?t=1674231383554" /> </a>
+
+          <div class="bs4-card-textbox bs4-mt-3">
+            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/71284/NCCT_NGS_Metadata_Sheet_1-7-5.xlsx/41701ec2-520d-4d41-976b-04207596701d" target="_blank">Metadata Sheet</a></div>
+          </div>
+        </div>
+      </div>
+
+      <div class="bs4-card bs4-border-0">
+        <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/71284/NCCT_Sample-Isolation_Guidelines.pdf/703eafdd-7658-4b82-b5ea-924493b1d21b"><img alt="Sample Isolation Guidelines" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/sample.png/1607c6fa-6b85-44ba-8df7-51cc09fcd602?t=1674231382000" /> </a>
+
+          <div class="bs4-card-textbox bs4-mt-3">
+            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/71284/NCCT_Sample-Isolation_Guidelines.pdf/703eafdd-7658-4b82-b5ea-924493b1d21b" target="_blank">Sample Isolation</a></div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</section>

ncct/site/resources/resources-sample-sequencing-guidelines.html

@@ -0,0 +1,47 @@
+<section id="sequencing-guidelines">
+    <div class="bs4-container-fluid">
+        <div class="bs4-col-8 bs4-offset-2">
+            <div class="section-title">
+                <div class="bs4-h1 bs4-text-center">Sequencing Guidelines</div>
+            </div>
+
+            <div class="bs4-card-deck bs4-text-center">
+                <div class="bs4-card bs4-border-0">
+                    <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_Amplicon_Sequencing_Guidelines.pdf/fa05f125-7bbd-40d3-abde-bb8988586213"><img alt="AmpliconGuidelines" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/amplicon.png/4d780ef0-4ae1-4a89-b28e-85c3f6005e4d?t=1674231384117" /> </a>
+
+                        <div class="bs4-card-textbox bs4-mt-3">
+                            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_Amplicon_Sequencing_Guidelines.pdf/fa05f125-7bbd-40d3-abde-bb8988586213" target="_blank">Amplicon</a></div>
+                        </div>
+                    </div>
+                </div>
+
+                <div class="bs4-card bs4-border-0">
+                    <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_Bacterial-Cells_Sequencing_Guidelines.pdf/574f6853-c306-4fa7-a89b-ccb2ab4062e4"><img alt="BacterialGuidelines" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/cell_pellet.png/8f1e6827-668d-4980-8ac8-16bd2402b2b5?t=1690806075046" /> </a>
+
+                        <div class="bs4-card-textbox bs4-mt-3">
+                            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_Bacterial-Cells_Sequencing_Guidelines.pdf/574f6853-c306-4fa7-a89b-ccb2ab4062e4" target="_blank">Bacterial cell pellets</a></div>
+                        </div>
+                    </div>
+                </div>
+
+                <div class="bs4-card bs4-border-0">
+                    <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_Nucleic-Acids_Sequencing_Guidelines.pdf/875183b4-4be3-43aa-aa53-6f9d44041860"><img alt="NucleicRequirements" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/dna-nucleotide.png/3a13bf14-273d-4eed-815a-fe367aa2afe4?t=1674231383983" /> </a>
+
+                        <div class="bs4-card-textbox bs4-mt-3">
+                            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_Nucleic-Acids_Sequencing_Guidelines.pdf/875183b4-4be3-43aa-aa53-6f9d44041860" target="_blank">Nucleic acid</a></div>
+                        </div>
+                    </div>
+                </div>
+
+                <div class="bs4-card bs4-border-0">
+                    <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_RNA-Single-Cells_Sequencing_Guidelines.pdf/b05b49f6-de35-4dca-a7ae-db9d6b16d153"><img alt="RNA_Single_Cell" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/rna_single_cell.png/4f9e057d-f095-4489-b90f-7097ad6ba2f2?t=1690806074793" /> </a>
+
+                        <div class="bs4-card-textbox bs4-mt-3">
+                            <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67903/NCCT_RNA-Single-Cells_Sequencing_Guidelines.pdf/b05b49f6-de35-4dca-a7ae-db9d6b16d153" target="_blank">RNA Single Cell</a></div>
+                        </div>
+                    </div>
+                </div>
+            </div>
+        </div>
+    </div>
+</section>

ncct/site/resources/resources-sample-submission-guidelines.html

@@ -0,0 +1,38 @@
+<section id="sample-submission-guidelines">
+  <div class="bs4-container-fluid">
+    <div class="bs4-col-8 bs4-offset-2">
+      <div class="section-title">
+        <div class="bs4-h1 bs4-text-center">Sample Submission Guidelines</div>
+      </div>
+
+      <div class="bs4-card-deck bs4-text-center">
+        <div class="bs4-card bs4-border-0">
+          <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67907/NCCT_Prokaryote_Guidelines.pdf/b53ddd3f-242a-4563-8f22-3a5b43d07c74"><img alt="NCCT_Prokaryote_Guidelines" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/prokaryote.png/1a9a40a1-ffd6-48bb-9adf-261a02f66e13?t=1674231382000" /> </a>
+
+            <div class="bs4-card-textbox bs4-mt-3">
+              <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67907/NCCT_Prokaryote_Guidelines.pdf/b53ddd3f-242a-4563-8f22-3a5b43d07c74" target="_blank">Prokaryote Guidelines</a></div>
+            </div>
+          </div>
+        </div>
+
+        <div class="bs4-card bs4-border-0">
+          <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67907/NCCT_Eukaryote_Guidelines.pdf/f94ee4e0-a1e3-416f-9433-c0e5fe0ac2d0"><img alt="EukaryoteGuidelines" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/eukorayot.png/099d2845-1785-4dc7-b5ae-829bd283dffd?t=1674231383000" /> </a>
+
+            <div class="bs4-card-textbox bs4-mt-3">
+              <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67907/NCCT_Eukaryote_Guidelines.pdf/f94ee4e0-a1e3-416f-9433-c0e5fe0ac2d0" target="_blank">Eukaryote Guidelines</a></div>
+            </div>
+          </div>
+        </div>
+
+        <div class="bs4-card bs4-border-0">
+          <div class="bs4-card-body"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67907/NCCT_Library-Pools_Guidelines.pdf/96da347f-7f3f-40a2-b3b4-a1ff712f2347"><img alt="LibraryGuidelines" class="img-top bs4-img-fluid bs4-img-thumbnail bs4-w-25" src="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67603/library.png/35a2980f-43bc-46ce-8ba3-18123035d7e7?t=1674231383000" /> </a>
+
+            <div class="bs4-card-textbox bs4-mt-3">
+              <div class="bs4-card-title bs4-h4"><a href="https://portal.qbic.uni-tuebingen.de/portal/documents/33387/67907/NCCT_Library-Pools_Guidelines.pdf/96da347f-7f3f-40a2-b3b4-a1ff712f2347" target="_blank">Library and pools</a></div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</section>