MIRA url fix

[ci skip]

This build is based on
2afe9b4.

This commit was created by the following CI build and job:
https://github.com/plantbreeding/BrAPI-Manuscript2/commit/2afe9b485405236f56640f2fb300883843a1bb86/checks
https://github.com/plantbreeding/BrAPI-Manuscript2/actions/runs/10454679906

README.md

@@ -1,7 +1,7 @@
 # Output directory containing the formatted manuscript
 
 The [`gh-pages`](https://github.com/plantbreeding/BrAPI-Manuscript2/tree/gh-pages) branch hosts the contents of this directory at <https://plantbreeding.github.io/BrAPI-Manuscript2/>.
-The permalink for this webpage version is <https://plantbreeding.github.io/BrAPI-Manuscript2/v/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7/>.
+The permalink for this webpage version is <https://plantbreeding.github.io/BrAPI-Manuscript2/v/2afe9b485405236f56640f2fb300883843a1bb86/>.
 To redirect to the permalink for the latest manuscript version at anytime, use the link <https://plantbreeding.github.io/BrAPI-Manuscript2/v/freeze/>.
 
 ## Files
@@ -35,4 +35,4 @@ Verifying timestamps with the `ots verify` command requires running a local bitc
 ## Source
 
 The manuscripts in this directory were built from
-[`859cbdb7358f52659c3a5a98c9b0411b7fcec5f7`](https://github.com/plantbreeding/BrAPI-Manuscript2/commit/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7).
+[`2afe9b485405236f56640f2fb300883843a1bb86`](https://github.com/plantbreeding/BrAPI-Manuscript2/commit/2afe9b485405236f56640f2fb300883843a1bb86).

index.html

@@ -81,7 +81,7 @@
   <meta name="author" content="Stephan Weise" />
   <meta name="author" content="Shawn C. Yarnes" />
   <meta name="author" content="The BrAPI Consortium" />
-  <meta name="dcterms.date" content="2024-08-16" />
+  <meta name="dcterms.date" content="2024-08-19" />
   <meta name="keywords" content="brapi, breeding, api, standards, community" />
   <title>BrAPI Success Stories</title>
   <style>
@@ -126,11 +126,11 @@
   <meta name="citation_title" content="BrAPI Success Stories" />
   <meta property="og:title" content="BrAPI Success Stories" />
   <meta property="twitter:title" content="BrAPI Success Stories" />
-  <meta name="dc.date" content="2024-08-16" />
-  <meta name="citation_publication_date" content="2024-08-16" />
-  <meta property="article:published_time" content="2024-08-16" />
-  <meta name="dc.modified" content="2024-08-16T23:02:39+00:00" />
-  <meta property="article:modified_time" content="2024-08-16T23:02:39+00:00" />
+  <meta name="dc.date" content="2024-08-19" />
+  <meta name="citation_publication_date" content="2024-08-19" />
+  <meta property="article:published_time" content="2024-08-19" />
+  <meta name="dc.modified" content="2024-08-19T13:52:24+00:00" />
+  <meta property="article:modified_time" content="2024-08-19T13:52:24+00:00" />
   <meta name="dc.language" content="en-US" />
   <meta name="citation_language" content="en-US" />
   <meta name="dc.relation.ispartof" content="Manubot" />
@@ -368,9 +368,9 @@
   <meta name="citation_fulltext_html_url" content="https://plantbreeding.github.io/BrAPI-Manuscript2/" />
   <meta name="citation_pdf_url" content="https://plantbreeding.github.io/BrAPI-Manuscript2/manuscript.pdf" />
   <link rel="alternate" type="application/pdf" href="https://plantbreeding.github.io/BrAPI-Manuscript2/manuscript.pdf" />
-  <link rel="alternate" type="text/html" href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7/" />
-  <meta name="manubot_html_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7/" />
-  <meta name="manubot_pdf_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/2afe9b485405236f56640f2fb300883843a1bb86/" />
+  <meta name="manubot_html_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/2afe9b485405236f56640f2fb300883843a1bb86/" />
+  <meta name="manubot_pdf_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/2afe9b485405236f56640f2fb300883843a1bb86/manuscript.pdf" />
   <meta property="og:type" content="article" />
   <meta property="twitter:card" content="summary_large_image" />
   <link rel="icon" type="image/png" sizes="192x192" href="https://manubot.org/favicon-192x192.png" />
@@ -387,10 +387,10 @@ <h1 class="title">BrAPI Success Stories</h1>
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7/">permalink</a>)
+(<a href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/2afe9b485405236f56640f2fb300883843a1bb86/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/tree/859cbdb7358f52659c3a5a98c9b0411b7fcec5f7">plantbreeding/BrAPI-Manuscript2@859cbdb</a>
-on August 16, 2024.
+from <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/tree/2afe9b485405236f56640f2fb300883843a1bb86">plantbreeding/BrAPI-Manuscript2@2afe9b4</a>
+on August 19, 2024.
 </em></small></p>
 <h2 id="authors">Authors</h2>
 <ul>
@@ -1351,7 +1351,7 @@ <h4 id="brapimapper">BrAPIMapper</h4>
 <h4 id="mira-and-brapi2isa">MIRA and BrAPI2ISA</h4>
 <!-- Manuel & Bert -->
 <p>Since the release of BrAPI 1.3, efforts have been made to incorporate support for the <a href="https://www.miappe.org/">MIAPPE</a> (Minimal Information About a Plant Phenotyping Experiment)<span class="citation" data-cites="kWLsm7g6"><sup><a href="#ref-kWLsm7g6" role="doc-biblioref">10</a></sup></span> standard into the specification, achieving full compatibility in BrAPI 2.0. Consequently, BrAPI now includes all attributes necessary for MIAPPE compliance, adhering to standardized descriptions in accordance with MIAPPE guidelines. In some communities and projects, phenotyping data and metadata are archived and published as structured ISA-Tab files, validated using the <a href="https://github.com/ELIXIR-Belgium/isatab-validation">MIAPPE ISA configuration</a><span class="citation" data-cites="KZc5ayvK"><sup><a href="#ref-KZc5ayvK" role="doc-biblioref">50</a></sup></span>. Although ISA-Tab is easy to read for non-technical experts due to its file-based approach, it lacks programmatic accessibility, particularly for web applications.</p>
-<p><a href="https://github.com/USDA-ARS-GBRU/SugarcaneCrossingTool">MIRA</a> enables the automatic deployment of a BrAPI server on a MIAPPE-compliant dataset in ISA-Tab format, facilitating programmatic access to these datasets. It is deployable from a Docker image with the dataset mounted. The tool leverages the mapping between MIAPPE, ISA-Tab, and BrAPI, eliminating the need for parsing or manual mapping of datasets compliant with (meta-)data standards. By providing programmatic access through BrAPI, MIRA facilitates the integration of phenotyping datasets into web applications.</p>
+<p><a href="https://github.com/IPK-BIT/mira">MIRA</a> enables the automatic deployment of a BrAPI server on a MIAPPE-compliant dataset in ISA-Tab format, facilitating programmatic access to these datasets. It is deployable from a Docker image with the dataset mounted. The tool leverages the mapping between MIAPPE, ISA-Tab, and BrAPI, eliminating the need for parsing or manual mapping of datasets compliant with (meta-)data standards. By providing programmatic access through BrAPI, MIRA facilitates the integration of phenotyping datasets into web applications.</p>
 <p>The <a href="https://github.com/elixir-europe/plant-brapi-to-isa">BrAPI2ISA</a> service functions as a converter between a BrAPI-compatible server and the ISA-Tab format. The tool simplifies, automates, and facilitates the archiving of data, thereby enhancing data preservation and accessibility. The BrAPI2ISA tool is compatible with BrAPI 1.3 and welcomes community contributions to support the latest versions of BrAPI.</p>
 <h4 id="graphql-data-warehouse">GraphQL Data-warehouse</h4>
 <!-- Asis Hallab -->
@@ -1391,6 +1391,7 @@ <h2 id="acknowledgements">Acknowledgements</h2>
 <li>U.S. Department of Agriculture, under agreement numbers [8062-21000-043-004-A, 8062-21000-052-002-A, and 8062-21000-052-003-A]</li>
 <li>This work was funded and supported by ELIXIR, the research infrastructure for life science data.</li>
 <li>The French Networks of Biological Resource Centres for Agricultural, Environmental and Life Sciences, doi: 10.15454/b4ec-tf49</li>
+<li>The work was supported by the German Research Foundation DFG under the grant agreement number 442032008 (NFDI4Biodiversity). NFDI4Biodiversity is part of NFDI, the National Research Data Infrastructure in Germany (&lt;www.nfdi.de&gt;).</li>
 <li>The Bill and Malinda Gates Foundation in cooperation with the Excellence in Breeding Platform of the CGIAR</li>
 </ul>
 <h2 class="page_break_before" id="author-contributions">Author Contributions</h2>