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<meta name="twitter:card" content="summary"/>
<meta name="twitter:title" content="Notes"/>
<meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
<meta name="generator" content="Hugo 0.62.2" />
<meta name="generator" content="Hugo 0.63.1" />
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@ -80,7 +80,7 @@
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-04/">April, 2019</a></h2>
<p class="blog-post-meta"><time datetime="2019-04-01T09:00:43&#43;03:00">Mon Apr 01, 2019</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -121,16 +121,16 @@ $ ./delete-metadata-values.py -i /tmp/2019-02-21-delete-1-region.csv -db dspace
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-03/">March, 2019</a></h2>
<p class="blog-post-meta"><time datetime="2019-03-01T12:16:30&#43;01:00">Fri Mar 01, 2019</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<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="2019-03-01">2019-03-01</h2>
<ul>
<li>I checked IITA's 259 Feb 14 records from last month for duplicates using Atmire's Duplicate Checker on a fresh snapshot of CGSpace on my local machine and everything looks good</li>
<li>I checked IITA&rsquo;s 259 Feb 14 records from last month for duplicates using Atmire&rsquo;s Duplicate Checker on a fresh snapshot of CGSpace on my local machine and everything looks good</li>
<li>I am now only waiting to hear from her about where the items should go, though I assume Journal Articles go to IITA Journal Articles collection, etc&hellip;</li>
<li>Looking at the other half of Udana's WLE records from 2018-11
<li>Looking at the other half of Udana&rsquo;s WLE records from 2018-11
<ul>
<li>I finished the ones for Restoring Degraded Landscapes (RDL), but these are for Variability, Risks and Competing Uses (VRC)</li>
<li>I did the usual cleanups for whitespace, added regions where they made sense for certain countries, cleaned up the DOI link formats, added rights information based on the publications page for a few items</li>
@ -153,7 +153,7 @@ $ ./delete-metadata-values.py -i /tmp/2019-02-21-delete-1-region.csv -db dspace
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-02/">February, 2019</a></h2>
<p class="blog-post-meta"><time datetime="2019-02-01T21:37:30&#43;02:00">Fri Feb 01, 2019</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -198,7 +198,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-01/">January, 2019</a></h2>
<p class="blog-post-meta"><time datetime="2019-01-02T09:48:30&#43;02:00">Wed Jan 02, 2019</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -206,7 +206,7 @@ sys 0m1.979s
<h2 id="2019-01-02">2019-01-02</h2>
<ul>
<li>Linode alerted that CGSpace (linode18) had a higher outbound traffic rate than normal early this morning</li>
<li>I don't see anything interesting in the web server logs around that time though:</li>
<li>I don&rsquo;t see anything interesting in the web server logs around that time though:</li>
</ul>
<pre><code># zcat --force /var/log/nginx/*.log /var/log/nginx/*.log.1 | grep -E &quot;02/Jan/2019:0(1|2|3)&quot; | awk '{print $1}' | sort | uniq -c | sort -n | tail -n 10
92 40.77.167.4
@ -232,7 +232,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-12/">December, 2018</a></h2>
<p class="blog-post-meta"><time datetime="2018-12-02T02:09:30&#43;02:00">Sun Dec 02, 2018</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -259,7 +259,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-11/">November, 2018</a></h2>
<p class="blog-post-meta"><time datetime="2018-11-01T16:41:30&#43;02:00">Thu Nov 01, 2018</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -286,7 +286,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-10/">October, 2018</a></h2>
<p class="blog-post-meta"><time datetime="2018-10-01T22:31:54&#43;03:00">Mon Oct 01, 2018</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -294,7 +294,7 @@ sys 0m1.979s
<h2 id="2018-10-01">2018-10-01</h2>
<ul>
<li>Phil Thornton got an ORCID identifier so we need to add it to the list on CGSpace and tag his existing items</li>
<li>I created a GitHub issue to track this <a href="https://github.com/ilri/DSpace/issues/389">#389</a>, because I'm super busy in Nairobi right now</li>
<li>I created a GitHub issue to track this <a href="https://github.com/ilri/DSpace/issues/389">#389</a>, because I&rsquo;m super busy in Nairobi right now</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2018-10/'>Read more →</a>
</article>
@ -308,7 +308,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-09/">September, 2018</a></h2>
<p class="blog-post-meta"><time datetime="2018-09-02T09:55:54&#43;03:00">Sun Sep 02, 2018</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -316,9 +316,9 @@ sys 0m1.979s
<h2 id="2018-09-02">2018-09-02</h2>
<ul>
<li>New <a href="https://jdbc.postgresql.org/documentation/changelog.html#version_42.2.5">PostgreSQL JDBC driver version 42.2.5</a></li>
<li>I'll update the DSpace role in our <a href="https://github.com/ilri/rmg-ansible-public">Ansible infrastructure playbooks</a> and run the updated playbooks on CGSpace and DSpace Test</li>
<li>Also, I'll re-run the <code>postgresql</code> tasks because the custom PostgreSQL variables are dynamic according to the system's RAM, and we never re-ran them after migrating to larger Linodes last month</li>
<li>I'm testing the new DSpace 5.8 branch in my Ubuntu 18.04 environment and I'm getting those autowire errors in Tomcat 8.5.30 again:</li>
<li>I&rsquo;ll update the DSpace role in our <a href="https://github.com/ilri/rmg-ansible-public">Ansible infrastructure playbooks</a> and run the updated playbooks on CGSpace and DSpace Test</li>
<li>Also, I&rsquo;ll re-run the <code>postgresql</code> tasks because the custom PostgreSQL variables are dynamic according to the system&rsquo;s RAM, and we never re-ran them after migrating to larger Linodes last month</li>
<li>I&rsquo;m testing the new DSpace 5.8 branch in my Ubuntu 18.04 environment and I&rsquo;m getting those autowire errors in Tomcat 8.5.30 again:</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2018-09/'>Read more →</a>
</article>
@ -332,7 +332,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-08/">August, 2018</a></h2>
<p class="blog-post-meta"><time datetime="2018-08-01T11:52:54&#43;03:00">Wed Aug 01, 2018</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>
@ -346,10 +346,10 @@ sys 0m1.979s
[Tue Jul 31 00:00:41 2018] oom_reaper: reaped process 1394 (java), now anon-rss:0kB, file-rss:0kB, shmem-rss:0kB
</code></pre><ul>
<li>Judging from the time of the crash it was probably related to the Discovery indexing that starts at midnight</li>
<li>From the DSpace log I see that eventually Solr stopped responding, so I guess the <code>java</code> process that was OOM killed above was Tomcat's</li>
<li>I'm not sure why Tomcat didn't crash with an OutOfMemoryError&hellip;</li>
<li>From the DSpace log I see that eventually Solr stopped responding, so I guess the <code>java</code> process that was OOM killed above was Tomcat&rsquo;s</li>
<li>I&rsquo;m not sure why Tomcat didn&rsquo;t crash with an OutOfMemoryError&hellip;</li>
<li>Anyways, perhaps I should increase the JVM heap from 5120m to 6144m like we did a few months ago when we tried to run the whole CGSpace Solr core</li>
<li>The server only has 8GB of RAM so we'll eventually need to upgrade to a larger one because we'll start starving the OS, PostgreSQL, and command line batch processes</li>
<li>The server only has 8GB of RAM so we&rsquo;ll eventually need to upgrade to a larger one because we&rsquo;ll start starving the OS, PostgreSQL, and command line batch processes</li>
<li>I ran all system updates on DSpace Test and rebooted it</li>
</ul>
<a href='https://alanorth.github.io/cgspace-notes/2018-08/'>Read more →</a>
@ -364,7 +364,7 @@ sys 0m1.979s
<header>
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-07/">July, 2018</a></h2>
<p class="blog-post-meta"><time datetime="2018-07-01T12:56:54&#43;03:00">Sun Jul 01, 2018</time> by Alan Orth in
<i class="fa fa-folder" aria-hidden="true"></i>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
<span class="fas fa-folder" aria-hidden="true"></span>&nbsp;<a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
</p>