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Create an “AfricaRice books and book chapters” collection on CGSpace for AfricaRice
Last month Sisay asked why the following “most popular” statistics link for a range of months in 2018 works for the CIAT community on DSpace Test, but not on CGSpace:
DSpace Test
CGSpace
Abenet had another similar issue a few days ago when trying to find the stats for 2018 in the RTB community
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Create an “AfricaRice books and book chapters” collection on CGSpace for AfricaRice
Last month Sisay asked why the following “most popular” statistics link for a range of months in 2018 works for the CIAT community on DSpace Test, but not on CGSpace:
DSpace Test
CGSpace
Abenet had another similar issue a few days ago when trying to find the stats for 2018 in the RTB community
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<h1 class="blog-title"><a href="https://alanorth.github.io/cgspace-notes/" rel="home">CGSpace Notes</a></h1>
<p class="lead blog-description">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"><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-tag" aria-hidden="true"></i> <a href="/cgspace-notes/tags/notes" rel="tag">Notes</a>
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<h2 id="2019-07-01">2019-07-01</h2>
<ul>
<li>Create an “AfricaRice books and book chapters” collection on CGSpace for AfricaRice</li>
<li>Last month Sisay asked why the following “most popular” statistics link for a range of months in 2018 works for the CIAT community on DSpace Test, but not on CGSpace:
<ul>
<li><a href="https://dspacetest.cgiar.org/handle/10568/35697/most-popular/item#simplefilter=custom&time_filter_end_date=01%2F12%2F2018">DSpace Test</a></li>
<li><a href="https://cgspace.cgiar.org/handle/10568/35697/most-popular/item#simplefilter=custom&time_filter_end_date=01%2F12%2F2018">CGSpace</a></li>
</ul></li>
<li>Abenet had another similar issue a few days ago when trying to find the stats for 2018 in the RTB community</li>
</ul>
<ul>
<li>If I change the parameters to 2019 I see stats, so I’m really thinking it has something to do with the sharded yearly Solr statistics cores
<ul>
<li>I checked the Solr admin UI and I see all Solr cores loaded, so I don’t know what it could be</li>
<li>When I check the Atmire content and usage module it seems obvious that there is a problem with the old cores because I dont have anything before 2019-01</li>
</ul></li>
</ul>
<p><img src="/cgspace-notes/2019/07/atmire-cua-2018-missing.png" alt="Atmire CUA 2018 stats missing" /></p>
<ul>
<li>I don’t see anyone logged in right now so I’m going to try to restart Tomcat and see if the stats are accessible after Solr comes back up</li>
<li><p>I decided to run all system updates on the server (linode18) and reboot it</p>
<ul>
<li>After rebooting Tomcat came back up, but the the Solr statistics cores were not all loaded</li>
<li><p>The error is always (with a different core):</p>
<pre><code>org.apache.solr.common.SolrException: Error CREATEing SolrCore 'statistics-2010': Unable to create core [statistics-2010] Caused by: Lock obtain timed out: NativeFSLock@/home/cgspace.cgiar.org/solr/statistics-2010/data/index/write.lock
</code></pre></li>
</ul></li>
<li><p>I restarted Tomcat <em>ten times</em> and it never worked…</p></li>
<li><p>I tried to stop Tomcat and delete the write locks:</p>
<pre><code># systemctl stop tomcat7
# find /dspace/solr/statistics* -iname "*.lock" -print -delete
/dspace/solr/statistics/data/index/write.lock
/dspace/solr/statistics-2010/data/index/write.lock
/dspace/solr/statistics-2011/data/index/write.lock
/dspace/solr/statistics-2012/data/index/write.lock
/dspace/solr/statistics-2013/data/index/write.lock
/dspace/solr/statistics-2014/data/index/write.lock
/dspace/solr/statistics-2015/data/index/write.lock
/dspace/solr/statistics-2016/data/index/write.lock
/dspace/solr/statistics-2017/data/index/write.lock
/dspace/solr/statistics-2018/data/index/write.lock
# find /dspace/solr/statistics* -iname "*.lock" -print -delete
# systemctl start tomcat7
</code></pre></li>
<li><p>But it still didn’t work!</p></li>
<li><p>I stopped Tomcat, deleted the old locks, and will try to use the “simple” lock file type in <code>solr/statistics/conf/solrconfig.xml</code>:</p>
<pre><code><lockType>${solr.lock.type:simple}</lockType>
</code></pre></li>
<li><p>And after restarting Tomcat it still doesn’t work</p></li>
<li><p>Now I’ll try going back to “native” locking with <code>unlockAtStartup</code>:</p>
<pre><code><unlockOnStartup>true</unlockOnStartup>
</code></pre></li>
<li><p>Now the cores seem to load, but I still see an error in the Solr Admin UI and I still can’t access any stats before 2018</p></li>
<li><p>I filed an <a href="https://tracker.atmire.com/tickets-cgiar-ilri/view-ticket?id=685">issue with Atmire</a>, so let’s see if they can help</p></li>
<li><p>And since I’m annoyed and it’s been a few months, I’m going to move the JVM heap settings that I’ve been testing on DSpace Test to CGSpace</p></li>
<li><p>The old ones were:</p>
<pre><code>-Djava.awt.headless=true -Xms8192m -Xmx8192m -XX:+UseConcMarkSweepGC -Dfile.encoding=UTF-8 -Dcom.sun.management.jmxremote -Dcom.sun.management.jmxremote.port=5400 -Dcom.sun.management.jmxremote.ssl=false -Dcom.sun.management.jmxremote.authenticate=false
</code></pre></li>
<li><p>And the new ones come from Solr 4.10.x’s startup scripts:</p>
<pre><code>-Djava.awt.headless=true
-Xms8192m -Xmx8192m
-Dfile.encoding=UTF-8
-XX:NewRatio=3
-XX:SurvivorRatio=4
-XX:TargetSurvivorRatio=90
-XX:MaxTenuringThreshold=8
-XX:+UseConcMarkSweepGC
-XX:+UseParNewGC
-XX:ConcGCThreads=4 -XX:ParallelGCThreads=4
-XX:+CMSScavengeBeforeRemark
-XX:PretenureSizeThreshold=64m
-XX:+UseCMSInitiatingOccupancyOnly
-XX:CMSInitiatingOccupancyFraction=50
-XX:CMSMaxAbortablePrecleanTime=6000
-XX:+CMSParallelRemarkEnabled
-XX:+ParallelRefProcEnabled
-Dcom.sun.management.jmxremote
-Dcom.sun.management.jmxremote.port=1337
-Dcom.sun.management.jmxremote.ssl=false
-Dcom.sun.management.jmxremote.authenticate=false
</code></pre></li>
</ul>
<h2 id="2019-07-02">2019-07-02</h2>
<ul>
<li><p>Help upload twenty-seven posters from the 2019-05 Sharefair to CGSpace</p>
<ul>
<li><p>Sisay had already done the SAFBundle so I did some minor corrections to and uploaded them to a temporary collection so I could check them in OpenRefine:</p>
<pre><code>$ sed -i 's/CC-BY 4.0/CC-BY-4.0/' item_*/dublin_core.xml
$ echo "10568/101992" >> item_*/collections
$ dspace import -a -e me@cgiar.org -m 2019-07-02-Sharefair.map -s /tmp/Sharefair_mapped
</code></pre></li>
</ul></li>
<li><p>I noticed that all twenty-seven items had double dates like “2019-05||2019-05” so I fixed those, but the rest of the metadata looked good so I unmapped them from the temporary collection</p></li>
<li><p>Finish looking at the fifty-six AfricaRice items and upload them to CGSpace:</p>
<pre><code>$ dspace import -a -e me@cgiar.org -m 2019-07-02-AfricaRice-11to73.map -s /tmp/SimpleArchiveFormat
</code></pre></li>
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<li><a href="/cgspace-notes/2019-07/">July, 2019</a></li>
<li><a href="/cgspace-notes/posts/">Posts</a></li>
<li><a href="/cgspace-notes/2019-06/">June, 2019</a></li>
<li><a href="/cgspace-notes/2019-05/">May, 2019</a></li>
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