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Add some days of notes

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Alan Orth 2023-07-19 12:27:43 +03:00
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50
content/posts/2023-07.md
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@ -90,4 +90,54 @@ $ csvgrep -c 'match type' -r '^.+$' ~/Downloads/2023-07-07-cgspace-subjects-reso
- So that's 12,528 out of 26,443 unique terms (47.3%) - So that's 12,528 out of 26,443 unique terms (47.3%)
- I did a LOT of work on the OpenRXV frontend build dependencies to bring more in line with Angular 13 - I did a LOT of work on the OpenRXV frontend build dependencies to bring more in line with Angular 13
## 2023-07-10
- I did a lot more work on OpenRXV to test and update dependencies
- I deployed the latest version on the production server
## 2023-07-12
- CGSpace upgrade meeting with Americas and Africa group
## 2023-07-13
- Michael Victor asked me to help Aditi extract some information from CGSpace
- She was interested in journal articles published between 2018 and 2023 with a range of subjects related to drought, flooding, resilience, etc
- I used an advanced query with some AGROVOC terms:
```console
dcterms.issued:[2018 TO 2023] AND dcterms.type:"Journal Article" AND (dcterms.subject:flooding OR dcterms.subject:flood OR dcterms.subject:"extreme weather events" OR dcterms.subject:drought OR dcterms.subject:"drought resistance" OR dcterms.subject:"drought tolerance" OR dcterms.subject:"soil salinity" OR dcterms.subject:"pests of plants" OR dcterms.subject:pests OR dcterms.subject:heat OR dcterms.subject:fertilizers OR dcterms.subject:"fertilizer technology" OR dcterms.subject:"rice fields" OR dcterms.subject:"landscape conservation" OR dcterms.subject:"landscape restoration" OR dcterms.subject:livestock)
```
- Interestingly, some variations of this same exact query produce no search results, and I see this error in the DSpace log:
```console
org.dspace.discovery.SearchServiceException: org.apache.solr.search.SyntaxError: Cannot parse 'dcterms.issued:[2018 TO 2023] AND dcterms.type:"Journal Article" AND (dcterms.subject:flooding OR dcterms.subject:flood OR dcterms.subject:"extreme weather events" OR dcterms.subject:drought OR dcterms.subject:"drought resistance" OR dcterms.subject:"drought tolerance" OR dcterms.subject:"soil salinity" OR dcterms.subject:"pests of plants" OR dcterms.subject:pests OR dcterms.subject:heat OR dcterms.subject:fertilizers OR dcterms.subject:"fertilizer technology" OR dcterms.subject:"rice fields" OR dcterms.subject:livestock OR dcterms.subject:"landscape conservation" OR dcterms.subject:"landscape restoration\"\)': Lexical error at line 1, column 617. Encountered: <EOF> after : "\"landscape restoration\\\"\\)"
```
- It seems to be when there is a quoted search term at the end of the parenthesized group
- For what it's worth this same query worked fine on DSpace 7.6
## 2023-07-15
- Export CGSpace to fix missing Initiative collection mappings
- Start a harvest on AReS
## 2023-07-17
- Rasika had sent me a list of new ORCID identifiers for new IWMI staff so I combined them with our existing list and ran `resolve_orcids.py` to refresh the names in our database
- I updated the list, updated names in the database, and tagged new authors with missing identifiers in existing items
## 2023-07-18
- Meeting with IWMI, IRRI, and IITA colleagues about CGSpace upgrade plans
- Maria from the Alliance mentioned having some submissions stuck on CGSpace
- I looked and found a number of locks stuck for many nineteen, eighteen, and more hours...
- I killed them and told her to try again
```console
$ psql < locks-age.sql | less -S
$ psql < locks-age.sql | grep -E " (19|18|17|16|12):" | awk -F"|" '{print $10}' | sort -u | xargs kill
```
<!-- vim: set sw=2 ts=2: --> <!-- vim: set sw=2 ts=2: -->

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@ -11,7 +11,7 @@
<meta property="og:type" content="article" /> <meta property="og:type" content="article" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2023-07/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2023-07/" />
<meta property="article:published_time" content="2023-07-01T17:14:36+03:00" /> <meta property="article:published_time" content="2023-07-01T17:14:36+03:00" />
<meta property="article:modified_time" content="2023-07-05T16:36:30+03:00" /> <meta property="article:modified_time" content="2023-07-08T23:20:53+03:00" />
@ -28,9 +28,9 @@
"@type": "BlogPosting", "@type": "BlogPosting",
"headline": "July, 2023", "headline": "July, 2023",
"url": "https://alanorth.github.io/cgspace-notes/2023-07/", "url": "https://alanorth.github.io/cgspace-notes/2023-07/",
"wordCount": "731", "wordCount": "1114",
"datePublished": "2023-07-01T17:14:36+03:00", "datePublished": "2023-07-01T17:14:36+03:00",
"dateModified": "2023-07-05T16:36:30+03:00", "dateModified": "2023-07-08T23:20:53+03:00",
"author": { "author": {
"@type": "Person", "@type": "Person",
"name": "Alan Orth" "name": "Alan Orth"
@ -210,7 +210,62 @@
<li>So that&rsquo;s 12,528 out of 26,443 unique terms (47.3%)</li> <li>So that&rsquo;s 12,528 out of 26,443 unique terms (47.3%)</li>
<li>I did a LOT of work on the OpenRXV frontend build dependencies to bring more in line with Angular 13</li> <li>I did a LOT of work on the OpenRXV frontend build dependencies to bring more in line with Angular 13</li>
</ul> </ul>
<!-- raw HTML omitted --> <h2 id="2023-07-10">2023-07-10</h2>
<ul>
<li>I did a lot more work on OpenRXV to test and update dependencies</li>
<li>I deployed the latest version on the production server</li>
</ul>
<h2 id="2023-07-12">2023-07-12</h2>
<ul>
<li>CGSpace upgrade meeting with Americas and Africa group</li>
</ul>
<h2 id="2023-07-13">2023-07-13</h2>
<ul>
<li>Michael Victor asked me to help Aditi extract some information from CGSpace
<ul>
<li>She was interested in journal articles published between 2018 and 2023 with a range of subjects related to drought, flooding, resilience, etc</li>
<li>I used an advanced query with some AGROVOC terms:</li>
</ul>
</li>
</ul>
<div class="highlight"><pre tabindex="0" style="color:#f8f8f2;background-color:#272822;-moz-tab-size:4;-o-tab-size:4;tab-size:4;"><code class="language-console" data-lang="console"><span style="display:flex;"><span>dcterms.issued:[2018 TO 2023] AND dcterms.type:&#34;Journal Article&#34; AND (dcterms.subject:flooding OR dcterms.subject:flood OR dcterms.subject:&#34;extreme weather events&#34; OR dcterms.subject:drought OR dcterms.subject:&#34;drought resistance&#34; OR dcterms.subject:&#34;drought tolerance&#34; OR dcterms.subject:&#34;soil salinity&#34; OR dcterms.subject:&#34;pests of plants&#34; OR dcterms.subject:pests OR dcterms.subject:heat OR dcterms.subject:fertilizers OR dcterms.subject:&#34;fertilizer technology&#34; OR dcterms.subject:&#34;rice fields&#34; OR dcterms.subject:&#34;landscape conservation&#34; OR dcterms.subject:&#34;landscape restoration&#34; OR dcterms.subject:livestock)
</span></span></code></pre></div><ul>
<li>Interestingly, some variations of this same exact query produce no search results, and I see this error in the DSpace log:</li>
</ul>
<div class="highlight"><pre tabindex="0" style="color:#f8f8f2;background-color:#272822;-moz-tab-size:4;-o-tab-size:4;tab-size:4;"><code class="language-console" data-lang="console"><span style="display:flex;"><span>org.dspace.discovery.SearchServiceException: org.apache.solr.search.SyntaxError: Cannot parse &#39;dcterms.issued:[2018 TO 2023] AND dcterms.type:&#34;Journal Article&#34; AND (dcterms.subject:flooding OR dcterms.subject:flood OR dcterms.subject:&#34;extreme weather events&#34; OR dcterms.subject:drought OR dcterms.subject:&#34;drought resistance&#34; OR dcterms.subject:&#34;drought tolerance&#34; OR dcterms.subject:&#34;soil salinity&#34; OR dcterms.subject:&#34;pests of plants&#34; OR dcterms.subject:pests OR dcterms.subject:heat OR dcterms.subject:fertilizers OR dcterms.subject:&#34;fertilizer technology&#34; OR dcterms.subject:&#34;rice fields&#34; OR dcterms.subject:livestock OR dcterms.subject:&#34;landscape conservation&#34; OR dcterms.subject:&#34;landscape restoration\&#34;\)&#39;: Lexical error at line 1, column 617. Encountered: &lt;EOF&gt; after : &#34;\&#34;landscape restoration\\\&#34;\\)&#34;
</span></span></code></pre></div><ul>
<li>It seems to be when there is a quoted search term at the end of the parenthesized group
<ul>
<li>For what it&rsquo;s worth this same query worked fine on DSpace 7.6</li>
</ul>
</li>
</ul>
<h2 id="2023-07-15">2023-07-15</h2>
<ul>
<li>Export CGSpace to fix missing Initiative collection mappings</li>
<li>Start a harvest on AReS</li>
</ul>
<h2 id="2023-07-17">2023-07-17</h2>
<ul>
<li>Rasika had sent me a list of new ORCID identifiers for new IWMI staff so I combined them with our existing list and ran <code>resolve_orcids.py</code> to refresh the names in our database
<ul>
<li>I updated the list, updated names in the database, and tagged new authors with missing identifiers in existing items</li>
</ul>
</li>
</ul>
<h2 id="2023-07-18">2023-07-18</h2>
<ul>
<li>Meeting with IWMI, IRRI, and IITA colleagues about CGSpace upgrade plans</li>
<li>Maria from the Alliance mentioned having some submissions stuck on CGSpace
<ul>
<li>I looked and found a number of locks stuck for many nineteen, eighteen, and more hours&hellip;</li>
<li>I killed them and told her to try again</li>
</ul>
</li>
</ul>
<div class="highlight"><pre tabindex="0" style="color:#f8f8f2;background-color:#272822;-moz-tab-size:4;-o-tab-size:4;tab-size:4;"><code class="language-console" data-lang="console"><span style="display:flex;"><span>$ psql &lt; locks-age.sql | less -S
</span></span><span style="display:flex;"><span>$ psql &lt; locks-age.sql | grep -E <span style="color:#e6db74">&#34; (19|18|17|16|12):&#34;</span> | awk -F<span style="color:#e6db74">&#34;|&#34;</span> <span style="color:#e6db74">&#39;{print $10}&#39;</span> | sort -u | xargs kill
</span></span></code></pre></div><!-- raw HTML omitted -->

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:type" content="website" /> <meta property="og:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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<meta property="og:type" content="website" /> <meta property="og:type" content="website" />
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<meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." /> <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:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
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<meta property="og:type" content="website" /> <meta property="og:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
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<meta property="og:type" content="website" /> <meta property="og:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
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<meta property="og:type" content="website" /> <meta property="og:type" content="website" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
<meta property="og:updated_time" content="2023-07-05T16:36:30+03:00" /> <meta property="og:updated_time" content="2023-07-08T23:20:53+03:00" />

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