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New PostgreSQL JDBC driver version 42.2.5
I’ll update the DSpace role in our Ansible infrastructure playbooks and run the updated playbooks on CGSpace and DSpace Test
Also, I’ll re-run the postgresql 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
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:
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New PostgreSQL JDBC driver version 42.2.5
I’ll update the DSpace role in our Ansible infrastructure playbooks and run the updated playbooks on CGSpace and DSpace Test
Also, I’ll re-run the postgresql 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
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:
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<h2 class="blog-post-title"><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-tag" aria-hidden="true"></i> <a href="/cgspace-notes/tags/notes" rel="tag">Notes</a>
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<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>
</ul>
<p></p>
<pre><code>02-Sep-2018 11:18:52.678 SEVERE [localhost-startStop-1] org.apache.catalina.core.StandardContext.listenerStart Exception sending context initialized event to listener instance of class [org.dspace.servicemanager.servlet.DSpaceKernelServletContextListener]
java.lang.RuntimeException: Failure during filter init: Failed to startup the DSpace Service Manager: failure starting up spring service manager: Error creating bean with name 'conversionService' defined in file [/home/dspacetest.cgiar.org/config/spring/xmlui/spring-dspace-addon-cua-services.xml]: Cannot create inner bean 'com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter#4c5d5a2' of type [com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter] while setting bean property 'converters' with key [1]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter#4c5d5a2': Injection of autowired dependencies failed; nested exception is org.springframework.beans.factory.BeanCreationException: Could not autowire field: private com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$FilterConverter com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter.filterConverter; nested exception is org.springframework.beans.factory.NoSuchBeanDefinitionException: No matching bean of type [com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$FilterConverter] found for dependency: expected at least 1 bean which qualifies as autowire candidate for this dependency. Dependency annotations: {@org.springframework.beans.factory.annotation.Autowired(required=true)}
at org.dspace.servicemanager.servlet.DSpaceKernelServletContextListener.contextInitialized(DSpaceKernelServletContextListener.java:92)
at org.apache.catalina.core.StandardContext.listenerStart(StandardContext.java:4776)
at org.apache.catalina.core.StandardContext.startInternal(StandardContext.java:5240)
at org.apache.catalina.util.LifecycleBase.start(LifecycleBase.java:150)
at org.apache.catalina.core.ContainerBase.addChildInternal(ContainerBase.java:754)
at org.apache.catalina.core.ContainerBase.addChild(ContainerBase.java:730)
at org.apache.catalina.core.StandardHost.addChild(StandardHost.java:734)
at org.apache.catalina.startup.HostConfig.deployDescriptor(HostConfig.java:629)
at org.apache.catalina.startup.HostConfig$DeployDescriptor.run(HostConfig.java:1838)
at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:511)
at java.util.concurrent.FutureTask.run(FutureTask.java:266)
at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
at java.lang.Thread.run(Thread.java:748)
Caused by: java.lang.RuntimeException: Failed to startup the DSpace Service Manager: failure starting up spring service manager: Error creating bean with name 'conversionService' defined in file [/home/dspacetest.cgiar.org/config/spring/xmlui/spring-dspace-addon-cua-services.xml]: Cannot create inner bean 'com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter#4c5d5a2' of type [com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter] while setting bean property 'converters' with key [1]; nested exception is org.springframework.beans.factory.BeanCreationException: Error creating bean with name 'com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter#4c5d5a2': Injection of autowired dependencies failed; nested exception is org.springframework.beans.factory.BeanCreationException: Could not autowire field: private com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$FilterConverter com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$ColumnsConverter.filterConverter; nested exception is org.springframework.beans.factory.NoSuchBeanDefinitionException: No matching bean of type [com.atmire.app.xmlui.aspect.statistics.mostpopular.MostPopularConfig$FilterConverter] found for dependency: expected at least 1 bean which qualifies as autowire candidate for this dependency. Dependency annotations:
</code></pre>
<ul>
<li>Full log here: <a href="https://gist.github.com/alanorth/1e4ae567b853fea9d9dbf1a030ecd8c2">https://gist.github.com/alanorth/1e4ae567b853fea9d9dbf1a030ecd8c2</a></li>
<li>XMLUI fails to load, but the REST, SOLR, JSPUI, etc work</li>
<li>The old <code>5_x-prod-dspace-5.5</code> branch does work in Ubuntu 18.04 with Tomcat 8.5.30-1ubuntu1.4, however!</li>
<li>And the <code>5_x-prod</code> DSpace 5.8 branch does work in Tomcat 8.5.x on my Arch Linux laptop…</li>
<li>I’m not sure where the issue is then!</li>
</ul>
<h2 id="2018-09-03">2018-09-03</h2>
<ul>
<li>Abenet says she’s getting three emails about periodic statistics reports every day since the DSpace 5.8 upgrade last week</li>
<li>They are from the CUA module</li>
<li>Two of them have “no data” and one has a “null” title</li>
<li>The last one is a report of the top downloaded items, and includes a graph</li>
<li>She will try to click the “Unsubscribe” link in the first two to see if it works, otherwise we should contact Atmire</li>
<li>The only one she remembers subscribing to is the top downloads one</li>
</ul>
<h2 id="2018-09-04">2018-09-04</h2>
<ul>
<li>I’m looking over the latest round of IITA records from Sisay: <a href="https://dspacetest.cgiar.org/handle/10568/104230">Mercy1806_August_29</a>
<ul>
<li>All fields are split with multiple columns like <code>cg.authorship.types</code> and <code>cg.authorship.types[]</code></li>
<li>This makes it super annoying to do the checks and cleanup, so I will merge them (also time consuming)</li>
<li>Five items had <code>dc.date.issued</code> values like <code>2013-5</code> so I corrected them to be <code>2013-05</code></li>
<li>Several metadata fields had values with newlines in them (even in some titles!), which I fixed by trimming the consecutive whitespaces in Open Refine</li>
<li>Many (196!) items from before 2011 are indicated as having a CRP, but CRPs didn’t exist then so this is impossible</li>
<li>I got all items that were from 2011 and onwards using a custom facet with this GREL on the <code>dc.date.issued</code> column: <code>isNotNull(value.match(/201[1-8].*/))</code> and then blanking their CRPs</li>
<li>Some affiliations with only one separator (|) for multiple values</li>
<li>I replaced smart quotes like <code>’</code> with plain ones</li>
<li>Some inconsitencies in <code>cg.subject.iita</code> like COWPEA and COWPEAS, and YAM and YAMS, etc, as well as some spelling mistakes like IMPACT ASSESSMENTN</li>
<li>Some values in the <code>dc.identifier.isbn</code> are actually ISSNs so I moved them to the <code>dc.identifier.issn</code> column</li>
<li>I found one invalid ISSN using a custom text facet with the regex from the <a href="https://en.wikipedia.org/wiki/International_Standard_Serial_Number#Code_format">ISSN page on Wikipedia</a>: <code>isNotBlank(value.match(/^\d{4}-\d{3}[\dxX]$/))</code></li>
<li>One invalid value for <code>dc.type</code></li>
</ul></li>
</ul>
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<h4>Recent Posts</h4>
<ol class="list-unstyled">
<li><a href="/cgspace-notes/2018-09/">September, 2018</a></li>
<li><a href="/cgspace-notes/2018-08/">August, 2018</a></li>
<li><a href="/cgspace-notes/2018-07/">July, 2018</a></li>
<li><a href="/cgspace-notes/2018-06/">June, 2018</a></li>
<li><a href="/cgspace-notes/2018-05/">May, 2018</a></li>
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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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