Skip to content

Commit

Permalink
Deploying to gh-pages from @ cc17873 🚀
Browse files Browse the repository at this point in the history
  • Loading branch information
@glass-ships
glass-ships committed Dec 8, 2023
1 parent 7bdef68 commit c6c8563
Show file tree
Hide file tree
Showing 4 changed files with 33 additions and 33 deletions.
4 changes: 2 additions & 2 deletions docs/Create-an-Ingest/4. Implement/index.html
View file
Original file line number Diff line number Diff line change
Expand Up @@ -899,7 +899,7 @@ <h1 id="implement">Implement</h1>
<h5 id="imports-and-setup">Imports and setup</h5>
<p>Start with the imports, and make sure to set the source_name, which will be used for communicating with the reader and writer.</p>
<div class="highlight"><pre><span></span><code><span class="kn">from</span> <span class="nn">koza.cli_runner</span> <span class="kn">import</span> <span class="n">koza_app</span>
<span class="kn">from</span> <span class="nn">biolink.pydanticmodel</span> <span class="kn">import</span> <span class="n">Gene</span>
<span class="kn">from</span> <span class="nn">biolink.pydanticmodel_v2</span> <span class="kn">import</span> <span class="n">Gene</span>

<span class="c1"># The source name is used for reading and writing</span>
<span class="n">source_name</span> <span class="o">=</span> <span class="s2">&quot;gene-information&quot;</span>
Expand All @@ -916,7 +916,7 @@ <h4 id="extras">Extras</h4>
</code></pre></div>
<h4 id="creating-entities">Creating entities</h4>
<p>At this step, hopefully your documentation is so good that you're just letting your fingers take on the last step of converting what you've already planned into Python syntax. Ideally not much logic will be needed here, and if there's a lot, it might be worth considering whether an ingest (even on the same file) can be split across multiple transforms so that each is as easy to read as possible. Aim to add all properties when creating the instance, but in some cases adding optional lists might need to happen below. </p>
<div class="highlight"><pre><span></span><code><span class="kn">from</span> <span class="nn">biolink.pydanticmodel</span> <span class="kn">import</span> <span class="n">Gene</span>
<div class="highlight"><pre><span></span><code><span class="kn">from</span> <span class="nn">biolink.pydanticmodel_v2</span> <span class="kn">import</span> <span class="n">Gene</span>
<span class="n">gene</span> <span class="o">=</span> <span class="n">Gene</span><span class="p">(</span>
<span class="nb">id</span><span class="o">=</span><span class="s1">&#39;somethingbase:&#39;</span><span class="o">+</span><span class="n">row</span><span class="p">[</span><span class="s1">&#39;ID&#39;</span><span class="p">],</span>
<span class="n">name</span><span class="o">=</span><span class="n">row</span><span class="p">[</span><span class="s1">&#39;Name&#39;</span><span class="p">]</span>
Expand Down
2 changes: 1 addition & 1 deletion docs/search/search_index.json
View file

Large diffs are not rendered by default.

60 changes: 30 additions & 30 deletions docs/sitemap.xml
View file
Original file line number Diff line number Diff line change
Expand Up @@ -2,152 +2,152 @@
<urlset xmlns="http://www.sitemaps.org/schemas/sitemap/0.9">
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/CLI/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Create-an-Ingest/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Create-an-Ingest/1.%20Propose/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Create-an-Ingest/2.%20Configure/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Create-an-Ingest/3.%20Document/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Create-an-Ingest/4.%20Implement/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Create-an-Ingest/5.%20Test/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/KG-Build-Process/kg-build-process/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Principles/modeling-principles/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/alliance/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/bgee/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/ctd/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/dictybase/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/flybase/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/goa/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/hgnc/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/hpoa/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/mgi/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/ncbi/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/panther/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/phenio/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/pombase/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/reactome/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/rgd/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/sgd/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/string/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/xenbase/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
<url>
<loc>https://monarch-initiative.github.io/monarch-ingest/Sources/zfin/</loc>
<lastmod>2023-11-22</lastmod>
<lastmod>2023-12-08</lastmod>
<changefreq>daily</changefreq>
</url>
</urlset>
Binary file modified docs/sitemap.xml.gz
View file
Binary file not shown.

0 comments on commit c6c8563

Please sign in to comment.