0a6c6ae0e873e8c95fc1d6a941a26b50d7e92f36 mspeir Wed Sep 16 11:40:45 2026 -0700 Add a blank line after the horizontal rules in the gb101 and gateway tutorials, no Redmine These two pages put a bare --- rule directly above the next heading or div. Pandoc reads a line of dashes as either a horizontal rule or a table rule depending on what follows it, so the parse can flip when the block underneath changes. It resolves to a rule today, but converting the divs on these pages to fenced divs was enough to turn 5 sections of gb101 into tables and drop every <hr>. The blank line removes the ambiguity. The built HTML is byte-identical before and after. Co-Authored-By: Claude Opus 5 (1M context) <noreply@anthropic.com> diff --git docs/tutorials/gatewayTutorial.md docs/tutorials/gatewayTutorial.md index a851fe2aafe..766c3ea011d 100644 --- docs/tutorials/gatewayTutorial.md +++ docs/tutorials/gatewayTutorial.md @@ -73,30 +73,31 @@ src=/images/tutorialImages/popularSpecies.png width=70% ``` </div> <div class="col-md-6"> The **Popular Species** section lists commonly used model organisms, allowing for quick selection of their genome browsers. Clicking on a species will display the default assembly version for that organism. </div> </div> --- + <div class="row"> <div class="col-md-6"> <a target="_blank" href='https://www.ncbi.nlm.nih.gov/datasets/docs/v2/glossary/' title=''>NCBI</a> defines an assembly or assembled genome as the set of chromosomes, unlocalized and unplaced (sometimes called "random") and alternate sequences used to represent an organism's genome. The <a target="_blank" href='https://www.ncbi.nlm.nih.gov/datasets/docs/v2/policies-annotation/data-model/' title=''>NCBI Assembly Data Model</a> defines assemblies as comprising one or more assembly units. The different assemblies often differ in their sequence content, with newer versions using newer technologies to fill in gaps, correct errors, and refine genome structure. Some regions of an older assembly may shift or change, while sequencing errors from previous data may be corrected in an @@ -107,30 +108,31 @@ To change the assembly version, click the **Assembly** option under **Find Position**. </div> <div class="col-md-6"> ```image src=/images/tutorialImages/assemblyVersion.png width=90% ``` </div> </div> --- + ### Using the search box <div class="row"> <div class="col-md-6"> The search box allows users to find genome assemblies by entering different types of queries: Searching by **species name**: Ovis aries Searching by **common name**: dog Searching by **GC accession number**: GCF_016699485.2 Results are grouped by source. Assemblies listed under **UCSC Genome Browser assemblies** are the long-standing browsers with tracks curated by UCSC. Those under **UCSC GenArk** come from