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Add notes for 2020-01-27
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<meta name="twitter:card" content="summary"/>
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<meta name="twitter:title" content="Notes"/>
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<meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
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<meta name="generator" content="Hugo 0.62.2" />
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<!-- combined, minified CSS -->
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<!-- RSS 2.0 feed -->
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@ -80,7 +80,7 @@
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<header>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-01/">January, 2020</a></h2>
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<p class="blog-post-meta"><time datetime="2020-01-06T10:48:30+02:00">Mon Jan 06, 2020</time> by Alan Orth in
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<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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</p>
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@ -117,7 +117,7 @@
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<header>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-12/">December, 2019</a></h2>
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<p class="blog-post-meta"><time datetime="2019-12-01T11:22:30+02:00">Sun Dec 01, 2019</time> by Alan Orth in
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<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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</p>
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@ -149,7 +149,7 @@
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<header>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-11/">November, 2019</a></h2>
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<p class="blog-post-meta"><time datetime="2019-11-04T12:20:30+02:00">Mon Nov 04, 2019</time> by Alan Orth in
|
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<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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</p>
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@ -168,7 +168,7 @@
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1277694
|
||||
</code></pre><ul>
|
||||
<li>So 4.6 million from XMLUI and another 1.2 million from API requests</li>
|
||||
<li>Let's see how many of the REST API requests were for bitstreams (because they are counted in Solr stats):</li>
|
||||
<li>Let’s see how many of the REST API requests were for bitstreams (because they are counted in Solr stats):</li>
|
||||
</ul>
|
||||
<pre><code># zcat --force /var/log/nginx/rest.log.*.gz | grep -c -E "[0-9]{1,2}/Oct/2019"
|
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1183456
|
||||
@ -187,10 +187,10 @@
|
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<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="2019-10-28T13:27:35+02:00">Mon Oct 28, 2019</time> by Alan Orth in
|
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<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<i class="fa fa-tag" aria-hidden="true"></i> <a href="/cgspace-notes/tags/migration" rel="tag">Migration</a>
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<span class="fas fa-tag" aria-hidden="true"></span> <a href="/cgspace-notes/tags/migration" rel="tag">Migration</a>
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</p>
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</header>
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@ -208,12 +208,12 @@
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<header>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-10/">October, 2019</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2019-10-01T13:20:51+03:00">Tue Oct 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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||||
|
||||
</p>
|
||||
</header>
|
||||
2019-10-01 Udana from IWMI asked me for a CSV export of their community on CGSpace I exported it, but a quick run through the csv-metadata-quality tool shows that there are some low-hanging fruits we can fix before I send him the data I will limit the scope to the titles, regions, subregions, and river basins for now to manually fix some non-breaking spaces (U+00A0) there that would otherwise be removed by the csv-metadata-quality script's “unneccesary Unicode” fix: $ csvcut -c 'id,dc.
|
||||
2019-10-01 Udana from IWMI asked me for a CSV export of their community on CGSpace I exported it, but a quick run through the csv-metadata-quality tool shows that there are some low-hanging fruits we can fix before I send him the data I will limit the scope to the titles, regions, subregions, and river basins for now to manually fix some non-breaking spaces (U+00A0) there that would otherwise be removed by the csv-metadata-quality script’s “unneccesary Unicode” fix: $ csvcut -c 'id,dc.
|
||||
<a href='https://alanorth.github.io/cgspace-notes/2019-10/'>Read more →</a>
|
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</article>
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@ -226,7 +226,7 @@
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<header>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-09/">September, 2019</a></h2>
|
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<p class="blog-post-meta"><time datetime="2019-09-01T10:17:51+03:00">Sun Sep 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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</p>
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@ -271,14 +271,14 @@
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<header>
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<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-08/">August, 2019</a></h2>
|
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<p class="blog-post-meta"><time datetime="2019-08-03T12:39:51+03:00">Sat Aug 03, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
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</p>
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</header>
|
||||
<h2 id="2019-08-03">2019-08-03</h2>
|
||||
<ul>
|
||||
<li>Look at Bioversity's latest migration CSV and now I see that Francesco has cleaned up the extra columns and the newline at the end of the file, but many of the column headers have an extra space in the name…</li>
|
||||
<li>Look at Bioversity’s latest migration CSV and now I see that Francesco has cleaned up the extra columns and the newline at the end of the file, but many of the column headers have an extra space in the name…</li>
|
||||
</ul>
|
||||
<h2 id="2019-08-04">2019-08-04</h2>
|
||||
<ul>
|
||||
@ -286,7 +286,7 @@
|
||||
<li>Run system updates on CGSpace (linode18) and reboot it
|
||||
<ul>
|
||||
<li>Before updating it I checked Solr and verified that all statistics cores were loaded properly…</li>
|
||||
<li>After rebooting, all statistics cores were loaded… wow, that's lucky.</li>
|
||||
<li>After rebooting, all statistics cores were loaded… wow, that’s lucky.</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li>Run system updates on DSpace Test (linode19) and reboot it</li>
|
||||
@ -303,7 +303,7 @@
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-07/">July, 2019</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2019-07-01T12:13:51+03:00">Mon Jul 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
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||||
@ -331,7 +331,7 @@
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-06/">June, 2019</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2019-06-02T10:57:51+03:00">Sun Jun 02, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
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@ -357,7 +357,7 @@
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-05/">May, 2019</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2019-05-01T07:37:43+03:00">Wed May 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
|
||||
@ -82,7 +82,7 @@
|
||||
1277694
|
||||
</code></pre><ul>
|
||||
<li>So 4.6 million from XMLUI and another 1.2 million from API requests</li>
|
||||
<li>Let's see how many of the REST API requests were for bitstreams (because they are counted in Solr stats):</li>
|
||||
<li>Let&rsquo;s see how many of the REST API requests were for bitstreams (because they are counted in Solr stats):</li>
|
||||
</ul>
|
||||
<pre><code># zcat --force /var/log/nginx/rest.log.*.gz | grep -c -E &quot;[0-9]{1,2}/Oct/2019&quot;
|
||||
1183456
|
||||
@ -107,7 +107,7 @@
|
||||
<pubDate>Tue, 01 Oct 2019 13:20:51 +0300</pubDate>
|
||||
|
||||
<guid>https://alanorth.github.io/cgspace-notes/2019-10/</guid>
|
||||
<description>2019-10-01 Udana from IWMI asked me for a CSV export of their community on CGSpace I exported it, but a quick run through the csv-metadata-quality tool shows that there are some low-hanging fruits we can fix before I send him the data I will limit the scope to the titles, regions, subregions, and river basins for now to manually fix some non-breaking spaces (U+00A0) there that would otherwise be removed by the csv-metadata-quality script's &ldquo;unneccesary Unicode&rdquo; fix: $ csvcut -c 'id,dc.</description>
|
||||
<description>2019-10-01 Udana from IWMI asked me for a CSV export of their community on CGSpace I exported it, but a quick run through the csv-metadata-quality tool shows that there are some low-hanging fruits we can fix before I send him the data I will limit the scope to the titles, regions, subregions, and river basins for now to manually fix some non-breaking spaces (U+00A0) there that would otherwise be removed by the csv-metadata-quality script&rsquo;s &ldquo;unneccesary Unicode&rdquo; fix: $ csvcut -c 'id,dc.</description>
|
||||
</item>
|
||||
|
||||
<item>
|
||||
@ -154,7 +154,7 @@
|
||||
<guid>https://alanorth.github.io/cgspace-notes/2019-08/</guid>
|
||||
<description><h2 id="2019-08-03">2019-08-03</h2>
|
||||
<ul>
|
||||
<li>Look at Bioversity's latest migration CSV and now I see that Francesco has cleaned up the extra columns and the newline at the end of the file, but many of the column headers have an extra space in the name&hellip;</li>
|
||||
<li>Look at Bioversity&rsquo;s latest migration CSV and now I see that Francesco has cleaned up the extra columns and the newline at the end of the file, but many of the column headers have an extra space in the name&hellip;</li>
|
||||
</ul>
|
||||
<h2 id="2019-08-04">2019-08-04</h2>
|
||||
<ul>
|
||||
@ -162,7 +162,7 @@
|
||||
<li>Run system updates on CGSpace (linode18) and reboot it
|
||||
<ul>
|
||||
<li>Before updating it I checked Solr and verified that all statistics cores were loaded properly&hellip;</li>
|
||||
<li>After rebooting, all statistics cores were loaded&hellip; wow, that's lucky.</li>
|
||||
<li>After rebooting, all statistics cores were loaded&hellip; wow, that&rsquo;s lucky.</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li>Run system updates on DSpace Test (linode19) and reboot it</li>
|
||||
@ -269,9 +269,9 @@ $ ./delete-metadata-values.py -i /tmp/2019-02-21-delete-1-region.csv -db dspace
|
||||
<guid>https://alanorth.github.io/cgspace-notes/2019-03/</guid>
|
||||
<description><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>
|
||||
@ -329,7 +329,7 @@ sys 0m1.979s
|
||||
<description><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
|
||||
@ -390,7 +390,7 @@ sys 0m1.979s
|
||||
<description><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></description>
|
||||
</item>
|
||||
|
||||
@ -403,9 +403,9 @@ sys 0m1.979s
|
||||
<description><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></description>
|
||||
</item>
|
||||
|
||||
@ -424,10 +424,10 @@ 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></description>
|
||||
</item>
|
||||
@ -460,7 +460,7 @@ sys 0m1.979s
|
||||
<ul>
|
||||
<li>Test the <a href="https://tracker.atmire.com/tickets-cgiar-ilri/view-ticket?id=560">DSpace 5.8 module upgrades from Atmire</a> (<a href="https://github.com/ilri/DSpace/pull/378">#378</a>)
|
||||
<ul>
|
||||
<li>There seems to be a problem with the CUA and L&amp;R versions in <code>pom.xml</code> because they are using SNAPSHOT and it doesn't build</li>
|
||||
<li>There seems to be a problem with the CUA and L&amp;R versions in <code>pom.xml</code> because they are using SNAPSHOT and it doesn&rsquo;t build</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li>I added the new CCAFS Phase II Project Tag <code>PII-FP1_PACCA2</code> and merged it into the <code>5_x-prod</code> branch (<a href="https://github.com/ilri/DSpace/pull/379">#379</a>)</li>
|
||||
@ -506,7 +506,7 @@ sys 2m7.289s
|
||||
<guid>https://alanorth.github.io/cgspace-notes/2018-04/</guid>
|
||||
<description><h2 id="2018-04-01">2018-04-01</h2>
|
||||
<ul>
|
||||
<li>I tried to test something on DSpace Test but noticed that it's down since god knows when</li>
|
||||
<li>I tried to test something on DSpace Test but noticed that it&rsquo;s down since god knows when</li>
|
||||
<li>Catalina logs at least show some memory errors yesterday:</li>
|
||||
</ul></description>
|
||||
</item>
|
||||
@ -532,9 +532,9 @@ sys 2m7.289s
|
||||
<description><h2 id="2018-02-01">2018-02-01</h2>
|
||||
<ul>
|
||||
<li>Peter gave feedback on the <code>dc.rights</code> proof of concept that I had sent him last week</li>
|
||||
<li>We don't need to distinguish between internal and external works, so that makes it just a simple list</li>
|
||||
<li>We don&rsquo;t need to distinguish between internal and external works, so that makes it just a simple list</li>
|
||||
<li>Yesterday I figured out how to monitor DSpace sessions using JMX</li>
|
||||
<li>I copied the logic in the <code>jmx_tomcat_dbpools</code> provided by Ubuntu's <code>munin-plugins-java</code> package and used the stuff I discovered about JMX <a href="https://alanorth.github.io/cgspace-notes/cgspace-notes/2018-01/">in 2018-01</a></li>
|
||||
<li>I copied the logic in the <code>jmx_tomcat_dbpools</code> provided by Ubuntu&rsquo;s <code>munin-plugins-java</code> package and used the stuff I discovered about JMX <a href="https://alanorth.github.io/cgspace-notes/cgspace-notes/2018-01/">in 2018-01</a></li>
|
||||
</ul></description>
|
||||
</item>
|
||||
|
||||
@ -547,7 +547,7 @@ sys 2m7.289s
|
||||
<description><h2 id="2018-01-02">2018-01-02</h2>
|
||||
<ul>
|
||||
<li>Uptime Robot noticed that CGSpace went down and up a few times last night, for a few minutes each time</li>
|
||||
<li>I didn't get any load alerts from Linode and the REST and XMLUI logs don't show anything out of the ordinary</li>
|
||||
<li>I didn&rsquo;t get any load alerts from Linode and the REST and XMLUI logs don&rsquo;t show anything out of the ordinary</li>
|
||||
<li>The nginx logs show HTTP 200s until <code>02/Jan/2018:11:27:17 +0000</code> when Uptime Robot got an HTTP 500</li>
|
||||
<li>In dspace.log around that time I see many errors like &ldquo;Client closed the connection before file download was complete&rdquo;</li>
|
||||
<li>And just before that I see this:</li>
|
||||
@ -555,8 +555,8 @@ sys 2m7.289s
|
||||
<pre><code>Caused by: org.apache.tomcat.jdbc.pool.PoolExhaustedException: [http-bio-127.0.0.1-8443-exec-980] Timeout: Pool empty. Unable to fetch a connection in 5 seconds, none available[size:50; busy:50; idle:0; lastwait:5000].
|
||||
</code></pre><ul>
|
||||
<li>Ah hah! So the pool was actually empty!</li>
|
||||
<li>I need to increase that, let's try to bump it up from 50 to 75</li>
|
||||
<li>After that one client got an HTTP 499 but then the rest were HTTP 200, so I don't know what the hell Uptime Robot saw</li>
|
||||
<li>I need to increase that, let&rsquo;s try to bump it up from 50 to 75</li>
|
||||
<li>After that one client got an HTTP 499 but then the rest were HTTP 200, so I don&rsquo;t know what the hell Uptime Robot saw</li>
|
||||
<li>I notice this error quite a few times in dspace.log:</li>
|
||||
</ul>
|
||||
<pre><code>2018-01-02 01:21:19,137 ERROR org.dspace.app.xmlui.aspect.discovery.SidebarFacetsTransformer @ Error while searching for sidebar facets
|
||||
@ -609,7 +609,7 @@ dspace.log.2017-12-31:53
|
||||
dspace.log.2018-01-01:45
|
||||
dspace.log.2018-01-02:34
|
||||
</code></pre><ul>
|
||||
<li>Danny wrote to ask for help renewing the wildcard ilri.org certificate and I advised that we should probably use Let's Encrypt if it's just a handful of domains</li>
|
||||
<li>Danny wrote to ask for help renewing the wildcard ilri.org certificate and I advised that we should probably use Let&rsquo;s Encrypt if it&rsquo;s just a handful of domains</li>
|
||||
</ul></description>
|
||||
</item>
|
||||
|
||||
@ -664,7 +664,7 @@ COPY 54701
|
||||
</ul>
|
||||
<pre><code>http://hdl.handle.net/10568/78495||http://hdl.handle.net/10568/79336
|
||||
</code></pre><ul>
|
||||
<li>There appears to be a pattern but I'll have to look a bit closer and try to clean them up automatically, either in SQL or in OpenRefine</li>
|
||||
<li>There appears to be a pattern but I&rsquo;ll have to look a bit closer and try to clean them up automatically, either in SQL or in OpenRefine</li>
|
||||
<li>Add Katherine Lutz to the groups for content submission and edit steps of the CGIAR System collections</li>
|
||||
</ul></description>
|
||||
</item>
|
||||
|
||||
@ -14,7 +14,7 @@
|
||||
<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" />
|
||||
|
||||
|
||||
|
||||
@ -28,7 +28,7 @@
|
||||
|
||||
<!-- combined, minified CSS -->
|
||||
|
||||
<link href="https://alanorth.github.io/cgspace-notes/css/style.a20c1a4367639632cdb341d23c27ca44fedcc75b0f8b3cbea6203010da153d3c.css" rel="stylesheet" integrity="sha256-ogwaQ2djljLNs0HSPCfKRP7cx1sPizy+piAwENoVPTw=" crossorigin="anonymous">
|
||||
<link href="https://alanorth.github.io/cgspace-notes/css/style.23e2c3298bcc8c1136c19aba330c211ec94c36f7c4454ea15cf4d3548370042a.css" rel="stylesheet" integrity="sha256-I+LDKYvMjBE2wZq6MwwhHslMNvfERU6hXPTTVINwBCo=" crossorigin="anonymous">
|
||||
|
||||
|
||||
<!-- RSS 2.0 feed -->
|
||||
@ -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+03:00">Mon Apr 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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+01:00">Fri Mar 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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’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 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…</li>
|
||||
<li>Looking at the other half of Udana's WLE records from 2018-11
|
||||
<li>Looking at the other half of Udana’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+02:00">Fri Feb 01, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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+02:00">Wed Jan 02, 2019</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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’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 "02/Jan/2019:0(1|2|3)" | 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+02:00">Sun Dec 02, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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+02:00">Thu Nov 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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+03:00">Mon Oct 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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’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+03:00">Sun Sep 02, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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’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>
|
||||
</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+03:00">Wed Aug 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <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…</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…</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’ll eventually need to upgrade to a larger one because we’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+03:00">Sun Jul 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
|
||||
@ -14,7 +14,7 @@
|
||||
<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" />
|
||||
|
||||
|
||||
|
||||
@ -28,7 +28,7 @@
|
||||
|
||||
<!-- combined, minified CSS -->
|
||||
|
||||
<link href="https://alanorth.github.io/cgspace-notes/css/style.a20c1a4367639632cdb341d23c27ca44fedcc75b0f8b3cbea6203010da153d3c.css" rel="stylesheet" integrity="sha256-ogwaQ2djljLNs0HSPCfKRP7cx1sPizy+piAwENoVPTw=" crossorigin="anonymous">
|
||||
<link href="https://alanorth.github.io/cgspace-notes/css/style.23e2c3298bcc8c1136c19aba330c211ec94c36f7c4454ea15cf4d3548370042a.css" rel="stylesheet" integrity="sha256-I+LDKYvMjBE2wZq6MwwhHslMNvfERU6hXPTTVINwBCo=" crossorigin="anonymous">
|
||||
|
||||
|
||||
<!-- RSS 2.0 feed -->
|
||||
@ -80,7 +80,7 @@
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-06/">June, 2018</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2018-06-04T19:49:54-07:00">Mon Jun 04, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -89,7 +89,7 @@
|
||||
<ul>
|
||||
<li>Test the <a href="https://tracker.atmire.com/tickets-cgiar-ilri/view-ticket?id=560">DSpace 5.8 module upgrades from Atmire</a> (<a href="https://github.com/ilri/DSpace/pull/378">#378</a>)
|
||||
<ul>
|
||||
<li>There seems to be a problem with the CUA and L&R versions in <code>pom.xml</code> because they are using SNAPSHOT and it doesn't build</li>
|
||||
<li>There seems to be a problem with the CUA and L&R versions in <code>pom.xml</code> because they are using SNAPSHOT and it doesn’t build</li>
|
||||
</ul>
|
||||
</li>
|
||||
<li>I added the new CCAFS Phase II Project Tag <code>PII-FP1_PACCA2</code> and merged it into the <code>5_x-prod</code> branch (<a href="https://github.com/ilri/DSpace/pull/379">#379</a>)</li>
|
||||
@ -118,7 +118,7 @@ sys 2m7.289s
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-05/">May, 2018</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2018-05-01T16:43:54+03:00">Tue May 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -146,14 +146,14 @@ sys 2m7.289s
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-04/">April, 2018</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2018-04-01T16:13:54+02:00">Sun Apr 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
</header>
|
||||
<h2 id="2018-04-01">2018-04-01</h2>
|
||||
<ul>
|
||||
<li>I tried to test something on DSpace Test but noticed that it's down since god knows when</li>
|
||||
<li>I tried to test something on DSpace Test but noticed that it’s down since god knows when</li>
|
||||
<li>Catalina logs at least show some memory errors yesterday:</li>
|
||||
</ul>
|
||||
<a href='https://alanorth.github.io/cgspace-notes/2018-04/'>Read more →</a>
|
||||
@ -168,7 +168,7 @@ sys 2m7.289s
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-03/">March, 2018</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2018-03-02T16:07:54+02:00">Fri Mar 02, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -189,7 +189,7 @@ sys 2m7.289s
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-02/">February, 2018</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2018-02-01T16:28:54+02:00">Thu Feb 01, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -197,9 +197,9 @@ sys 2m7.289s
|
||||
<h2 id="2018-02-01">2018-02-01</h2>
|
||||
<ul>
|
||||
<li>Peter gave feedback on the <code>dc.rights</code> proof of concept that I had sent him last week</li>
|
||||
<li>We don't need to distinguish between internal and external works, so that makes it just a simple list</li>
|
||||
<li>We don’t need to distinguish between internal and external works, so that makes it just a simple list</li>
|
||||
<li>Yesterday I figured out how to monitor DSpace sessions using JMX</li>
|
||||
<li>I copied the logic in the <code>jmx_tomcat_dbpools</code> provided by Ubuntu's <code>munin-plugins-java</code> package and used the stuff I discovered about JMX <a href="/cgspace-notes/2018-01/">in 2018-01</a></li>
|
||||
<li>I copied the logic in the <code>jmx_tomcat_dbpools</code> provided by Ubuntu’s <code>munin-plugins-java</code> package and used the stuff I discovered about JMX <a href="/cgspace-notes/2018-01/">in 2018-01</a></li>
|
||||
</ul>
|
||||
<a href='https://alanorth.github.io/cgspace-notes/2018-02/'>Read more →</a>
|
||||
</article>
|
||||
@ -213,7 +213,7 @@ sys 2m7.289s
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2018-01/">January, 2018</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2018-01-02T08:35:54-08:00">Tue Jan 02, 2018</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -221,7 +221,7 @@ sys 2m7.289s
|
||||
<h2 id="2018-01-02">2018-01-02</h2>
|
||||
<ul>
|
||||
<li>Uptime Robot noticed that CGSpace went down and up a few times last night, for a few minutes each time</li>
|
||||
<li>I didn't get any load alerts from Linode and the REST and XMLUI logs don't show anything out of the ordinary</li>
|
||||
<li>I didn’t get any load alerts from Linode and the REST and XMLUI logs don’t show anything out of the ordinary</li>
|
||||
<li>The nginx logs show HTTP 200s until <code>02/Jan/2018:11:27:17 +0000</code> when Uptime Robot got an HTTP 500</li>
|
||||
<li>In dspace.log around that time I see many errors like “Client closed the connection before file download was complete”</li>
|
||||
<li>And just before that I see this:</li>
|
||||
@ -229,8 +229,8 @@ sys 2m7.289s
|
||||
<pre><code>Caused by: org.apache.tomcat.jdbc.pool.PoolExhaustedException: [http-bio-127.0.0.1-8443-exec-980] Timeout: Pool empty. Unable to fetch a connection in 5 seconds, none available[size:50; busy:50; idle:0; lastwait:5000].
|
||||
</code></pre><ul>
|
||||
<li>Ah hah! So the pool was actually empty!</li>
|
||||
<li>I need to increase that, let's try to bump it up from 50 to 75</li>
|
||||
<li>After that one client got an HTTP 499 but then the rest were HTTP 200, so I don't know what the hell Uptime Robot saw</li>
|
||||
<li>I need to increase that, let’s try to bump it up from 50 to 75</li>
|
||||
<li>After that one client got an HTTP 499 but then the rest were HTTP 200, so I don’t know what the hell Uptime Robot saw</li>
|
||||
<li>I notice this error quite a few times in dspace.log:</li>
|
||||
</ul>
|
||||
<pre><code>2018-01-02 01:21:19,137 ERROR org.dspace.app.xmlui.aspect.discovery.SidebarFacetsTransformer @ Error while searching for sidebar facets
|
||||
@ -283,7 +283,7 @@ dspace.log.2017-12-31:53
|
||||
dspace.log.2018-01-01:45
|
||||
dspace.log.2018-01-02:34
|
||||
</code></pre><ul>
|
||||
<li>Danny wrote to ask for help renewing the wildcard ilri.org certificate and I advised that we should probably use Let's Encrypt if it's just a handful of domains</li>
|
||||
<li>Danny wrote to ask for help renewing the wildcard ilri.org certificate and I advised that we should probably use Let’s Encrypt if it’s just a handful of domains</li>
|
||||
</ul>
|
||||
<a href='https://alanorth.github.io/cgspace-notes/2018-01/'>Read more →</a>
|
||||
</article>
|
||||
@ -297,7 +297,7 @@ dspace.log.2018-01-02:34
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2017-12/">December, 2017</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2017-12-01T13:53:54+03:00">Fri Dec 01, 2017</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -321,7 +321,7 @@ dspace.log.2018-01-02:34
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2017-11/">November, 2017</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2017-11-02T09:37:54+02:00">Thu Nov 02, 2017</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -354,7 +354,7 @@ COPY 54701
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2017-10/">October, 2017</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2017-10-01T08:07:54+03:00">Sun Oct 01, 2017</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
</p>
|
||||
@ -365,7 +365,7 @@ COPY 54701
|
||||
</ul>
|
||||
<pre><code>http://hdl.handle.net/10568/78495||http://hdl.handle.net/10568/79336
|
||||
</code></pre><ul>
|
||||
<li>There appears to be a pattern but I'll have to look a bit closer and try to clean them up automatically, either in SQL or in OpenRefine</li>
|
||||
<li>There appears to be a pattern but I’ll have to look a bit closer and try to clean them up automatically, either in SQL or in OpenRefine</li>
|
||||
<li>Add Katherine Lutz to the groups for content submission and edit steps of the CGIAR System collections</li>
|
||||
</ul>
|
||||
<a href='https://alanorth.github.io/cgspace-notes/2017-10/'>Read more →</a>
|
||||
@ -380,10 +380,10 @@ COPY 54701
|
||||
<header>
|
||||
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/cgiar-library-migration/">CGIAR Library Migration</a></h2>
|
||||
<p class="blog-post-meta"><time datetime="2017-09-18T16:38:35+03:00">Mon Sep 18, 2017</time> by Alan Orth in
|
||||
<i class="fa fa-folder" aria-hidden="true"></i> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
<span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes" rel="category tag">Notes</a>
|
||||
|
||||
|
||||
<i class="fa fa-tag" aria-hidden="true"></i> <a href="/cgspace-notes/tags/migration" rel="tag">Migration</a>
|
||||
<span class="fas fa-tag" aria-hidden="true"></span> <a href="/cgspace-notes/tags/migration" rel="tag">Migration</a>
|
||||
|
||||
</p>
|
||||
</header>
|
||||
|
||||
Reference in New Issue
Block a user