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<h1 class="blog-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/" rel="home">CGSpace Notes</a></h1>
<p class="lead blog-description" dir="auto">Documenting day-to-day work on the <a href="https://cgspace.cgiar.org">CGSpace</a> repository.</p>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-08/">August, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-08-01T09:01:07+03:00">Sun Aug 01, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
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<h2 id="2021-08-01">2021-08-01</h2>
<ul>
<li>Update Docker images on AReS server (linode20) and reboot the server:</li>
</ul>
<pre><code class="language-console" data-lang="console"># docker images | grep -v ^REPO | sed 's/ \+/:/g' | cut -d: -f1,2 | grep -v none | xargs -L1 docker pull
</code></pre><ul>
<li>I decided to upgrade linode20 from Ubuntu 18.04 to 20.04</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2021-08/'>Read more →</a>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-07/">July, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-07-01T08:53:07+03:00">Thu Jul 01, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
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<h2 id="2021-07-01">2021-07-01</h2>
<ul>
<li>Export another list of ALL subjects on CGSpace, including AGROVOC and non-AGROVOC for Enrico:</li>
</ul>
<pre><code class="language-console" data-lang="console">localhost/dspace63= &gt; \COPY (SELECT DISTINCT LOWER(text_value) AS subject, count(*) FROM metadatavalue WHERE dspace_object_id in (SELECT dspace_object_id FROM item) AND metadata_field_id IN (119, 120, 127, 122, 128, 125, 135, 203, 208, 210, 215, 123, 236, 242, 187) GROUP BY subject ORDER BY count DESC) to /tmp/2021-07-01-all-subjects.csv WITH CSV HEADER;
COPY 20994
</code></pre>
<a href='https://alanorth.github.io/cgspace-notes/2021-07/'>Read more →</a>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-06/">June, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-06-01T10:51:07+03:00">Tue Jun 01, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
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<h2 id="2021-06-01">2021-06-01</h2>
<ul>
<li>IWMI notified me that AReS was down with an HTTP 502 error
<ul>
<li>Looking at UptimeRobot I see it has been down for 33 hours, but I never got a notification</li>
<li>I don&rsquo;t see anything in the Elasticsearch container logs, or the systemd journal on the host, but I notice that the <code>angular_nginx</code> container isn&rsquo;t running</li>
<li>I simply started it and AReS was running again:</li>
</ul>
</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2021-06/'>Read more →</a>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-05/">May, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-05-02T09:50:54+03:00">Sun May 02, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
</p>
</header>
<h2 id="2021-05-01">2021-05-01</h2>
<ul>
<li>I looked at the top user agents and IPs in the Solr statistics for last month and I see these user agents:
<ul>
<li>&ldquo;RI/1.0&rdquo;, 1337</li>
<li>&ldquo;Microsoft Office Word 2014&rdquo;, 941</li>
</ul>
</li>
<li>I will add the RI/1.0 pattern to our DSpace agents overload and purge them from Solr (we had previously seen this agent with 9,000 hits or so in 2020-09), but I think I will leave the Microsoft Word one&hellip; as that&rsquo;s an actual user&hellip;</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2021-05/'>Read more →</a>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-04/">April, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-04-01T09:50:54+03:00">Thu Apr 01, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
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<h2 id="2021-04-01">2021-04-01</h2>
<ul>
<li>I wrote a script to query Sherpa&rsquo;s API for our ISSNs: <code>sherpa-issn-lookup.py</code>
<ul>
<li>I&rsquo;m curious to see how the results compare with the results from Crossref yesterday</li>
</ul>
</li>
<li>AReS Explorer was down since this morning, I didn&rsquo;t see anything in the systemd journal
<ul>
<li>I simply took everything down with docker-compose and then back up, and then it was OK</li>
<li>Perhaps one of the containers crashed, I should have looked closer but I was in a hurry</li>
</ul>
</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2021-04/'>Read more →</a>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-03/">March, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-03-01T10:13:54+02:00">Mon Mar 01, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
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</header>
<h2 id="2021-03-01">2021-03-01</h2>
<ul>
<li>Discuss some OpenRXV issues with Abdullah from CodeObia
<ul>
<li>He&rsquo;s trying to work on the DSpace 6+ metadata schema autoimport using the DSpace 6+ REST API</li>
<li>Also, we found some issues building and running OpenRXV currently due to ecosystem shift in the Node.js dependencies</li>
</ul>
</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2021-03/'>Read more →</a>
</article>
<article class="blog-post">
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/cgspace-cgcorev2-migration/">CGSpace CG Core v2 Migration</a></h2>
<p class="blog-post-meta"><time datetime="2021-02-21T13:27:35+02:00">Sun Feb 21, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
<span class="fas fa-tag" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/tags/migration/" rel="tag">Migration</a>
</p>
</header>
<p>Changes to CGSpace metadata fields to align more with DC, QDC, and DCTERMS as well as CG Core v2. Implemented on 2021-02-21.</p>
<p>With reference to <a href="https://agriculturalsemantics.github.io/cg-core/cgcore.html">CG Core v2 draft standard</a> by Marie-Angélique as well as <a href="http://www.dublincore.org/specifications/dublin-core/dcmi-terms/">DCMI DCTERMS</a>.</p>
<a href='https://alanorth.github.io/cgspace-notes/cgspace-cgcorev2-migration/'>Read more →</a>
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<article class="blog-post">
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-02/">February, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-02-01T10:13:54+02:00">Mon Feb 01, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
</p>
</header>
<h2 id="2021-02-01">2021-02-01</h2>
<ul>
<li>Abenet said that CIP found more duplicate records in their export from AReS
<ul>
<li>I re-opened <a href="https://github.com/ilri/OpenRXV/issues/67">the issue</a> on OpenRXV where we had previously noticed this</li>
<li>The shared link where the duplicates are is here: <a href="https://cgspace.cgiar.org/explorer/shared/heEOz3YBnXdK69bR2ra6">https://cgspace.cgiar.org/explorer/shared/heEOz3YBnXdK69bR2ra6</a></li>
</ul>
</li>
<li>I had a call with CodeObia to discuss the work on OpenRXV</li>
<li>Check the results of the AReS harvesting from last night:</li>
</ul>
<pre><code class="language-console" data-lang="console">$ curl -s 'http://localhost:9200/openrxv-items-temp/_count?q=*&amp;pretty'
{
&quot;count&quot; : 100875,
&quot;_shards&quot; : {
&quot;total&quot; : 1,
&quot;successful&quot; : 1,
&quot;skipped&quot; : 0,
&quot;failed&quot; : 0
}
}
</code></pre>
<a href='https://alanorth.github.io/cgspace-notes/2021-02/'>Read more →</a>
</article>
<article class="blog-post">
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2021-01/">January, 2021</a></h2>
<p class="blog-post-meta"><time datetime="2021-01-03T10:13:54+02:00">Sun Jan 03, 2021</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
</p>
</header>
<h2 id="2021-01-03">2021-01-03</h2>
<ul>
<li>Peter notified me that some filters on AReS were broken again
<ul>
<li>It&rsquo;s the same issue with the field names getting <code>.keyword</code> appended to the end that I already <a href="https://github.com/ilri/OpenRXV/issues/66">filed an issue on OpenRXV about last month</a></li>
<li>I fixed the broken filters (careful to not edit any others, lest they break too!)</li>
</ul>
</li>
<li>Fix an issue with start page number for the DSpace REST API and statistics API in OpenRXV
<ul>
<li>The start page had been &ldquo;1&rdquo; in the UI, but in the backend they were doing some gymnastics to adjust to the zero-based offset/limit/page of the DSpace REST API and the statistics API</li>
<li>I adjusted it to default to 0 and added a note to the admin screen</li>
<li>I realized that this issue was actually causing the first page of 100 statistics to be missing&hellip;</li>
<li>For example, <a href="https://cgspace.cgiar.org/handle/10568/66839">this item</a> has 51 views on CGSpace, but 0 on AReS</li>
</ul>
</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2021-01/'>Read more →</a>
</article>
<article class="blog-post">
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-12/">December, 2020</a></h2>
<p class="blog-post-meta"><time datetime="2020-12-01T11:32:54+02:00">Tue Dec 01, 2020</time> by Alan Orth in
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a>
</p>
</header>
<h2 id="2020-12-01">2020-12-01</h2>
<ul>
<li>Atmire responded about the issue with duplicate data in our Solr statistics
<ul>
<li>They noticed that some records in the statistics-2015 core haven&rsquo;t been migrated with the AtomicStatisticsUpdateCLI tool yet and assumed that I haven&rsquo;t migrated any of the records yet</li>
<li>That&rsquo;s strange, as I checked all ten cores and 2015 is the only one with some unmigrated documents, as according to the <code>cua_version</code> field</li>
<li>I started processing those (about 411,000 records):</li>
</ul>
</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2020-12/'>Read more →</a>
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<h4>Recent Posts</h4>
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<li><a href="/cgspace-notes/2021-08/">August, 2021</a></li>
<li><a href="/cgspace-notes/2021-07/">July, 2021</a></li>
<li><a href="/cgspace-notes/2021-06/">June, 2021</a></li>
<li><a href="/cgspace-notes/2021-05/">May, 2021</a></li>
<li><a href="/cgspace-notes/2021-04/">April, 2021</a></li>
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<h4>Links</h4>
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<li><a href="https://cgspace.cgiar.org">CGSpace</a></li>
<li><a href="https://dspacetest.cgiar.org">DSpace Test</a></li>
<li><a href="https://github.com/ilri/DSpace">CGSpace @ GitHub</a></li>
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