<!DOCTYPE html> <html lang="en" > <head> <meta charset="utf-8"> <meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"> <meta property="og:title" content="CGSpace Notes" /> <meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <meta property="og:type" content="website" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:updated_time" content="2022-03-22T22:03:59+03:00" /> <meta name="twitter:card" content="summary"/> <meta name="twitter:title" content="CGSpace Notes"/> <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/> <meta name="generator" content="Hugo 0.95.0" /> <script type="application/ld+json"> { "@context": "http://schema.org", "@type": "Blog", "headline": "CGSpace Notes", "url" : "https://alanorth.github.io/cgspace-notes/", "author": { "@type": 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href="https://alanorth.github.io/cgspace-notes/index.xml" title="CGSpace Notes" /> </head> <body> <div class="blog-masthead"> <div class="container"> <nav class="nav blog-nav"> <a class="nav-link active" href="https://alanorth.github.io/cgspace-notes/">Home</a> </nav> </div> </div> <header class="blog-header"> <div class="container"> <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> </div> </header> <div class="container"> <div class="row"> <div class="col-sm-8 blog-main"> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-09/">September, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-09-02T15:35:54+03:00">Wed Sep 02, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-09-02">2020-09-02</h2> <ul> <li>Replace Marissa van Epp for Rhys Bucknall in the CCAFS groups on CGSpace because Marissa no longer works at CCAFS</li> <li>The AReS Explorer hasn’t updated its index since 2020-08-22 when I last forced it <ul> <li>I restarted it again now and told Moayad that the automatic indexing isn’t working</li> </ul> </li> <li>Add <code>Alliance of Bioversity International and CIAT</code> to affiliations on CGSpace</li> <li>Abenet told me that the general search text on AReS doesn’t get reset when you use the “Reset Filters” button <ul> <li>I filed a bug on OpenRXV: <a href="https://github.com/ilri/OpenRXV/issues/39">https://github.com/ilri/OpenRXV/issues/39</a></li> </ul> </li> <li>I filed an issue on OpenRXV to make some minor edits to the admin UI: <a href="https://github.com/ilri/OpenRXV/issues/40">https://github.com/ilri/OpenRXV/issues/40</a></li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-09/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-08/">August, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-08-02T15:35:54+03:00">Sun Aug 02, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-08-02">2020-08-02</h2> <ul> <li>I spent a few days working on a Java-based curation task to tag items with ISO 3166-1 Alpha2 country codes based on their <code>cg.coverage.country</code> text values <ul> <li>It looks up the names in ISO 3166-1 first, and then in our CGSpace countries mapping (which has five or so of Peter’s preferred “display” country names)</li> <li>It implements a “force” mode too that will clear existing country codes and re-tag everything</li> <li>It is class based so I can easily add support for other vocabularies, and the technique could even be used for organizations with mappings to ROR and Clarisa…</li> </ul> </li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-08/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-07/">July, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-07-01T10:53:54+03:00">Wed Jul 01, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-07-01">2020-07-01</h2> <ul> <li>A few users noticed that CGSpace wasn’t loading items today, item pages seem blank <ul> <li>I looked at the PostgreSQL locks but they don’t seem unusual</li> <li>I guess this is the same “blank item page” issue that we had a few times in 2019 that we never solved</li> <li>I restarted Tomcat and PostgreSQL and the issue was gone</li> </ul> </li> <li>Since I was restarting Tomcat anyways I decided to redeploy the latest changes from the <code>5_x-prod</code> branch and I added a note about COVID-19 items to the CGSpace frontpage at Peter’s request</li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-07/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-06/">June, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-06-01T13:55:39+03:00">Mon Jun 01, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-06-01">2020-06-01</h2> <ul> <li>I tried to run the <code>AtomicStatisticsUpdateCLI</code> CUA migration script on DSpace Test (linode26) again and it is still going very slowly and has tons of errors like I noticed yesterday <ul> <li>I sent Atmire the dspace.log from today and told them to log into the server to debug the process</li> </ul> </li> <li>In other news, I checked the statistics API on DSpace 6 and it’s working</li> <li>I tried to build the OAI registry on the freshly migrated DSpace 6 on DSpace Test and I get an error:</li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-06/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-05/">May, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-05-02T09:52:04+03:00">Sat May 02, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-05-02">2020-05-02</h2> <ul> <li>Peter said that CTA is having problems submitting an item to CGSpace <ul> <li>Looking at the PostgreSQL stats it seems to be the same issue that Tezira was having last week, as I see the number of connections in ‘idle in transaction’ and ‘waiting for lock’ state are increasing again</li> <li>I see that CGSpace (linode18) is still using PostgreSQL JDBC driver version 42.2.11, and there were some bugs related to transactions fixed in 42.2.12 (which I had updated in the Ansible playbooks, but not deployed yet)</li> </ul> </li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-05/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-04/">April, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-04-02T10:53:24+03:00">Thu Apr 02, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-04-02">2020-04-02</h2> <ul> <li>Maria asked me to update Charles Staver’s ORCID iD in the submission template and on CGSpace, as his name was lower case before, and now he has corrected it <ul> <li>I updated the fifty-eight existing items on CGSpace</li> </ul> </li> <li>Looking into the items Udana had asked about last week that were missing Altmetric donuts: <ul> <li><a href="https://hdl.handle.net/10568/103225">The first</a> is still missing its DOI, so I added it and <a href="https://twitter.com/mralanorth/status/1245632619661766657">tweeted its handle</a> (after a few hours there was a donut with score 222)</li> <li><a href="https://hdl.handle.net/10568/106899">The second item</a> now has a donut with score 2 since I <a href="https://twitter.com/mralanorth/status/1243158045540134913">tweeted its handle</a> last week</li> <li><a href="https://hdl.handle.net/10568/107258">The third item</a> now has a donut with score 1 since I <a href="https://twitter.com/mralanorth/status/1243158786392625153">tweeted it</a> last week</li> </ul> </li> <li>On the same note, the <a href="https://hdl.handle.net/10568/106573">one item</a> Abenet pointed out last week now has a donut with score of 104 after I <a href="https://twitter.com/mralanorth/status/1243163710241345536">tweeted it</a> last week</li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-04/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-03/">March, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-03-02T12:31:30+02:00">Mon Mar 02, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-03-02">2020-03-02</h2> <ul> <li>Update <a href="https://github.com/ilri/dspace-statistics-api">dspace-statistics-api</a> for DSpace 6+ UUIDs <ul> <li>Tag version 1.2.0 on GitHub</li> </ul> </li> <li>Test migrating legacy Solr statistics to UUIDs with the as-of-yet unreleased <a href="https://github.com/DSpace/DSpace/commit/184f2b2153479045fba6239342c63e7f8564b8b6#diff-0350ce2e13b28d5d61252b7a8f50a059">SolrUpgradePre6xStatistics.java</a> <ul> <li>You need to download this into the DSpace 6.x source and compile it</li> </ul> </li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-03/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-02/">February, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-02-02T11:56:30+02:00">Sun Feb 02, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-02-02">2020-02-02</h2> <ul> <li>Continue working on porting CGSpace’s DSpace 5 code to DSpace 6.3 that I started yesterday <ul> <li>Sign up for an account with MaxMind so I can get the GeoLite2-City.mmdb database</li> <li>I still need to wire up the API credentials and cron job into the Ansible infrastructure playbooks</li> <li>Fix some minor issues in the config and XMLUI themes, like removing Atmire stuff</li> <li>The code finally builds and runs with a fresh install</li> </ul> </li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-02/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-01/">January, 2020</a></h2> <p class="blog-post-meta"><time datetime="2020-01-06T10:48:30+02:00">Mon Jan 06, 2020</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2020-01-06">2020-01-06</h2> <ul> <li>Open <a href="https://tracker.atmire.com/tickets-cgiar-ilri/view-ticket?id=706">a ticket</a> with Atmire to request a quote for the upgrade to DSpace 6</li> <li>Last week Altmetric responded about the <a href="https://hdl.handle.net/10568/97087">item</a> that had a lower score than than its DOI <ul> <li>The score is now linked to the DOI</li> <li>Another <a href="https://hdl.handle.net/10568/91278">item</a> that had the same problem in 2019 has now also linked to the score for its DOI</li> <li>Another <a href="https://hdl.handle.net/10568/81236">item</a> that had the same problem in 2019 has also been fixed</li> </ul> </li> </ul> <h2 id="2020-01-07">2020-01-07</h2> <ul> <li>Peter Ballantyne highlighted one more WLE <a href="https://hdl.handle.net/10568/101286">item</a> that is missing the Altmetric score that its DOI has <ul> <li>The DOI has a score of 259, but the Handle has no score at all</li> <li>I <a href="https://twitter.com/mralanorth/status/1214471427157626881">tweeted</a> the CGSpace repository link</li> </ul> </li> </ul> <a href='https://alanorth.github.io/cgspace-notes/2020-01/'>Read more →</a> </article> <article class="blog-post"> <header> <h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2019-12/">December, 2019</a></h2> <p class="blog-post-meta"><time datetime="2019-12-01T11:22:30+02:00">Sun Dec 01, 2019</time> by Alan Orth in <span class="fas fa-folder" aria-hidden="true"></span> <a href="/cgspace-notes/categories/notes/" rel="category tag">Notes</a> </p> </header> <h2 id="2019-12-01">2019-12-01</h2> <ul> <li>Upgrade CGSpace (linode18) to Ubuntu 18.04: <ul> <li>Check any packages that have residual configs and purge them:</li> <li><!-- raw HTML omitted --># dpkg -l | grep -E ‘^rc’ | awk ‘{print $2}’ | xargs dpkg -P<!-- raw HTML omitted --></li> <li>Make sure all packages are up to date and the package manager is up to date, then reboot:</li> </ul> </li> </ul> <pre tabindex="0"><code># apt update && apt full-upgrade # apt-get autoremove && apt-get autoclean # dpkg -C # reboot </code></pre> <a href='https://alanorth.github.io/cgspace-notes/2019-12/'>Read more →</a> </article> <nav class="blog-pagination"> <a class="btn btn-outline-primary" href="/cgspace-notes/page/2/" rel="prev" role="button">Previous page</a> <a class="btn btn-outline-primary" href="/cgspace-notes/page/4/" rel="next" role="button">Next page</a> </nav> </div> <!-- /.blog-main --> <aside class="col-sm-3 ml-auto blog-sidebar"> <section class="sidebar-module"> <h4>Recent Posts</h4> <ol class="list-unstyled"> <li><a href="/cgspace-notes/2022-03/">March, 2022</a></li> <li><a href="/cgspace-notes/2022-02/">February, 2022</a></li> <li><a href="/cgspace-notes/2022-01/">January, 2022</a></li> <li><a href="/cgspace-notes/2021-12/">December, 2021</a></li> <li><a href="/cgspace-notes/2021-11/">November, 2021</a></li> </ol> </section> <section class="sidebar-module"> <h4>Links</h4> <ol class="list-unstyled"> <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> </ol> </section> </aside> </div> <!-- /.row --> </div> <!-- /.container --> <footer class="blog-footer"> <p dir="auto"> Blog template created by <a href="https://twitter.com/mdo">@mdo</a>, ported to Hugo by <a href='https://twitter.com/mralanorth'>@mralanorth</a>. </p> <p> <a href="#">Back to top</a> </p> </footer> </body> </html>