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Add notes for 2022-11-30

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Alan Orth
2022-11-30 12:35:31 +03:00
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@ -24,7 +24,7 @@ I reverted the Cocoon autosave change because it was more of a nuissance that Pe
<meta property="og:type" content="article" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2022-11/" />
<meta property="article:published_time" content="2022-11-01T09:11:36+03:00" />
<meta property="article:modified_time" content="2022-11-28T17:42:46+03:00" />
<meta property="article:modified_time" content="2022-11-28T23:19:19+03:00" />
@ -54,9 +54,9 @@ I reverted the Cocoon autosave change because it was more of a nuissance that Pe
"@type": "BlogPosting",
"headline": "November, 2022",
"url": "https://alanorth.github.io/cgspace-notes/2022-11/",
"wordCount": "2853",
"wordCount": "3206",
"datePublished": "2022-11-01T09:11:36+03:00",
"dateModified": "2022-11-28T17:42:46+03:00",
"dateModified": "2022-11-28T23:19:19+03:00",
"author": {
"@type": "Person",
"name": "Alan Orth"
@ -656,6 +656,57 @@ I reverted the Cocoon autosave change because it was more of a nuissance that Pe
<li>I updated them all on CGSpace</li>
</ul>
</li>
<li>Also, I ran an <code>index-discovery</code> without the <code>-b</code> since now my metadata update scripts update the <code>last_modified</code> timestamp as well and it finished in fifteen minutes, and I see the changes in the Discovery search and facets</li>
</ul>
<h2 id="2022-11-29">2022-11-29</h2>
<ul>
<li>Meeting with Marie-Angelique, Abenet, Sara, Valentina, and Margarita about <code>dcterms.type</code> for CG Core
<ul>
<li>We discussed some of the feedback from Peter</li>
</ul>
</li>
<li>Peter and Abenet and I agreed to update some of our metadata in response to the PRMS feedback
<ul>
<li>I updated Pacific to Oceania, and Central Africa to Middle Africa, and removed the old ones from the submission form</li>
<li>These are UN M.49 regions</li>
</ul>
</li>
</ul>
<h2 id="2022-11-30">2022-11-30</h2>
<ul>
<li>I ran csv-metadata-quality on an export of the ILRI community on CGSpace, but only with title, country, and region fields
<ul>
<li>It fixed some whitespace issues and added missing regions to about 1,200 items</li>
</ul>
</li>
<li>I thought of a way to delete duplicate metadata values, since the CSV upload method can&rsquo;t detect them correctly
<ul>
<li>First, I wrote a <a href="https://chartio.com/learn/databases/how-to-find-duplicate-values-in-a-sql-table/">SQL query</a> to identify metadata falues with the same <code>text_value</code>, <code>metadata_field_id</code>, and <code>dspace_object_id</code>:</li>
</ul>
</li>
</ul>
<div class="highlight"><pre tabindex="0" style="color:#f8f8f2;background-color:#272822;-moz-tab-size:4;-o-tab-size:4;tab-size:4;"><code class="language-console" data-lang="console"><span style="display:flex;"><span>\COPY (SELECT a.text_value, a.metadata_value_id, a.metadata_field_id, a.dspace_object_id
</span></span><span style="display:flex;"><span> FROM metadatavalue a
</span></span><span style="display:flex;"><span> JOIN (
</span></span><span style="display:flex;"><span> SELECT dspace_object_id, text_value, metadata_field_id, COUNT(*) FROM metadatavalue WHERE dspace_object_id IN (SELECT uuid FROM item) AND metadata_field_id NOT IN (11, 12, 28, 136, 159) GROUP BY dspace_object_id, text_value, metadata_field_id HAVING COUNT(*) &gt; 1
</span></span><span style="display:flex;"><span> ) b
</span></span><span style="display:flex;"><span> ON a.dspace_object_id = b.dspace_object_id
</span></span><span style="display:flex;"><span> AND a.text_value = b.text_value
</span></span><span style="display:flex;"><span> AND a.metadata_field_id = b.metadata_field_id
</span></span><span style="display:flex;"><span> ORDER BY a.text_value) TO /tmp/duplicates.txt
</span></span></code></pre></div><ul>
<li>(This query excludes metadata for accession and available dates, provenance, format, etc)</li>
<li>Then, I sorted the file by fields four and one (<code>dspace_object_id</code> and <code>text_value</code>) so that the duplicate metadata for each item were next to each other, used awk to print the second field (<code>metadata_field_id</code>) from every <em>other</em> line, and created a SQL script to delete the metadata</li>
</ul>
<div class="highlight"><pre tabindex="0" style="color:#f8f8f2;background-color:#272822;-moz-tab-size:4;-o-tab-size:4;tab-size:4;"><code class="language-console" data-lang="console"><span style="display:flex;"><span>$ sort -k4,1 /tmp/duplicates.txt | <span style="color:#ae81ff">\
</span></span></span><span style="display:flex;"><span><span style="color:#ae81ff"></span> awk -F&#39;\t&#39; &#39;NR%2==0 {print $2}&#39; | \
</span></span><span style="display:flex;"><span> sed &#39;s/^\(.*\)$/DELETE FROM metadatavalue WHERE metadata_value_id=\1;/&#39; &gt; /tmp/delete-duplicates.sql
</span></span></code></pre></div><ul>
<li>This worked very well, but there were some metadata values that were tripled or quadrupled, so it only deleted the first duplicate
<ul>
<li>I just ran it again two more times to find the last duplicates, now we have none!</li>
</ul>
</li>
</ul>
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