mirror of
https://github.com/alanorth/cgspace-notes.git
synced 2024-12-28 16:04:31 +01:00
451 lines
16 KiB
HTML
451 lines
16 KiB
HTML
<!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="2020-11-19T22:40:48+02:00" />
|
|
|
|
<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 0.78.1" />
|
|
|
|
|
|
|
|
<script type="application/ld+json">
|
|
{
|
|
"@context": "http://schema.org",
|
|
"@type": "Blog",
|
|
"headline": "CGSpace Notes",
|
|
"url" : "https://alanorth.github.io/cgspace-notes/",
|
|
"author": {
|
|
"@type": "Person",
|
|
"name": "Alan Orth"
|
|
},
|
|
"dateModified": "2020-11-15T13:27:35+02:00",
|
|
"keywords": "notes, migration, notes",
|
|
"description":"Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."
|
|
}
|
|
</script>
|
|
|
|
|
|
<link rel="canonical" href="https://alanorth.github.io/cgspace-notes/">
|
|
|
|
<title>CGSpace Notes</title>
|
|
|
|
|
|
<!-- combined, minified CSS -->
|
|
|
|
<link href="https://alanorth.github.io/cgspace-notes/css/style.d20c61b183eb27beb5b2c48f70a38b91c8bb5fb929e77b447d5f77c7285221ad.css" rel="stylesheet" integrity="sha256-0gxhsYPrJ761ssSPcKOLkci7X7kp53tEfV93xyhSIa0=" crossorigin="anonymous">
|
|
|
|
|
|
<!-- minified Font Awesome for SVG icons -->
|
|
|
|
<script defer src="https://alanorth.github.io/cgspace-notes/js/fontawesome.min.4ed405d7c7002b970d34cbe6026ff44a556b0808cb98a9db4008752110ed964b.js" integrity="sha256-TtQF18cAK5cNNMvmAm/0SlVrCAjLmKnbQAh1IRDtlks=" crossorigin="anonymous"></script>
|
|
|
|
<!-- RSS 2.0 feed -->
|
|
<link rel="alternate" type="application/rss+xml" 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/cgspace-dspace6-upgrade/">CGSpace DSpace 6 Upgrade</a></h2>
|
|
<p class="blog-post-meta"><time datetime="2020-11-15T13:27:35+02:00">Sun Nov 15, 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>
|
|
|
|
|
|
<span class="fas fa-tag" aria-hidden="true"></span> <a href="/cgspace-notes/tags/migration/" rel="tag">Migration</a>
|
|
|
|
</p>
|
|
</header>
|
|
<p>Notes about the DSpace 6 upgrade on CGSpace in 2020-11.</p>
|
|
<a href='https://alanorth.github.io/cgspace-notes/cgspace-dspace6-upgrade/'>Read more →</a>
|
|
</article>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<article class="blog-post">
|
|
<header>
|
|
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-11/">November, 2020</a></h2>
|
|
<p class="blog-post-meta"><time datetime="2020-11-01T13:11:54+02:00">Sun Nov 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="2020-11-01">2020-11-01</h2>
|
|
<ul>
|
|
<li>Continue with processing the statistics-2019 Solr core with the AtomicStatisticsUpdateCLI tool on DSpace Test
|
|
<ul>
|
|
<li>So far we’ve spent at least fifty hours to process the statistics and statistics-2019 core… wow.</li>
|
|
</ul>
|
|
</li>
|
|
</ul>
|
|
<a href='https://alanorth.github.io/cgspace-notes/2020-11/'>Read more →</a>
|
|
</article>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<article class="blog-post">
|
|
<header>
|
|
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-10/">October, 2020</a></h2>
|
|
<p class="blog-post-meta"><time datetime="2020-10-06T16:55:54+03:00">Tue Oct 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="2020-10-06">2020-10-06</h2>
|
|
<ul>
|
|
<li>Add tests for the new <code>/items</code> POST handlers to the DSpace 6.x branch of my <a href="https://github.com/ilri/dspace-statistics-api/tree/v6_x">dspace-statistics-api</a>
|
|
<ul>
|
|
<li>It took a bit of extra work because I had to learn how to mock the responses for when Solr is not available</li>
|
|
<li>Tag and release version 1.3.0 on GitHub: <a href="https://github.com/ilri/dspace-statistics-api/releases/tag/v1.3.0">https://github.com/ilri/dspace-statistics-api/releases/tag/v1.3.0</a></li>
|
|
</ul>
|
|
</li>
|
|
<li>Trying to test the changes Atmire sent last week but I had to re-create my local database from a recent CGSpace dump
|
|
<ul>
|
|
<li>During the FlywayDB migration I got an error:</li>
|
|
</ul>
|
|
</li>
|
|
</ul>
|
|
<a href='https://alanorth.github.io/cgspace-notes/2020-10/'>Read more →</a>
|
|
</article>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<article class="blog-post">
|
|
<header>
|
|
<h2 class="blog-post-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2020-09/">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>
|
|
|
|
|
|
|
|
|
|
|
|
<nav class="blog-pagination">
|
|
|
|
|
|
|
|
<a class="btn btn-outline-primary disabled" href="#" role="button" aria-disabled="true">Previous page</a>
|
|
<a class="btn btn-outline-primary" href="/cgspace-notes/page/2/" 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/cgspace-dspace6-upgrade/">CGSpace DSpace 6 Upgrade</a></li>
|
|
|
|
<li><a href="/cgspace-notes/2020-11/">November, 2020</a></li>
|
|
|
|
<li><a href="/cgspace-notes/2020-10/">October, 2020</a></li>
|
|
|
|
<li><a href="/cgspace-notes/2020-09/">September, 2020</a></li>
|
|
|
|
<li><a href="/cgspace-notes/2020-08/">August, 2020</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>
|