Add notes for 2023-06-06

content/posts/2023-06.md

@@ -25,11 +25,29 @@ categories: ["Notes"]
 ```
 
 - In [2022-11]({{< relref "2022-11.md" >}}) an upstream Java update broke the DSpace 6 Handle server so we will have to pin this again after the upgrade to Ubuntu 22.04
-- After the upgrade I made sure CGSpace was working, then proceeded to upgrade PostgreSQL from 12 to 14, like I did on DSpace Test in 2023-03
+- After the upgrade I made sure CGSpace was working, then proceeded to upgrade PostgreSQL from 12 to 14, like I did on [DSpace Test in 2023-03]({{< relref "2023-03.md" >}})
 - Then I had to downgrade OpenJDK to fix the Handle server using the ones I had previously downloaded for Ubuntu 20.04 because they no longer exist on Launchpad:
 
 ```console
 # dpkg -i openjdk-8-j*8u342-b07*.deb
 ```
 
+- Export CGSpace to fix missing Initiative collection mappings
+- Start a harvest on AReS
+- Work on the DSpace 7 migration a bit more
+  - I decided to rebase and drop all the submission form edits because they conflict every time upstream changes!
+
+## 2023-06-06
+
+- Fix some incorrect ORCID identifiers for an Alliance author on CGSpace
+- Export our list of ORCID identifiers, resolve them, and update the records in CGSpace:
+
+```console
+$ cat dspace/config/controlled-vocabularies/cg-creator-identifier.xml 2022-09-22-add-orcids.csv| grep -oE '[A-Z0-9]{4}-[A-Z0-9]{4}-[A-Z0-9]{4}-[A-Z0-9]{4}' | sort -u > /tmp/2023-06-06-orcids.txt
+$ ./ilri/resolve_orcids.py -i /tmp/2023-06-06-orcids.txt -o /tmp/2023-06-06-orcids-names.txt -d
+$ ./ilri/update_orcids.py -i /tmp/2023-06-06-orcids-names.txt -db dspacetest -u dspace -p 'ffff' -m 247
+```
+
+- Start working on updating the MODS schema in CGSpace from 3.1 to 3.8 based on Stefano and Salem's work last year
+
 <!-- vim: set sw=2 ts=2: -->

docs/2023-06/index.html

@@ -24,7 +24,7 @@ From what I can see we need to upgrade the MODS schema from 3.1 to 3.7 and then
 <meta property="og:type" content="article" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2023-06/" />
 <meta property="article:published_time" content="2023-06-02T10:29:36+03:00" />
-<meta property="article:modified_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="article:modified_time" content="2023-06-04T11:00:30+03:00" />
 
 
 
@@ -54,9 +54,9 @@ From what I can see we need to upgrade the MODS schema from 3.1 to 3.7 and then
   "@type": "BlogPosting",
   "headline": "June, 2023",
   "url": "https://alanorth.github.io/cgspace-notes/2023-06/",
-  "wordCount": "209",
+  "wordCount": "327",
   "datePublished": "2023-06-02T10:29:36+03:00",
-  "dateModified": "2023-06-02T16:33:48+03:00",
+  "dateModified": "2023-06-04T11:00:30+03:00",
   "author": {
     "@type": "Person",
     "name": "Alan Orth"
@@ -155,11 +155,31 @@ From what I can see we need to upgrade the MODS schema from 3.1 to 3.7 and then
 <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># apt-mark hold openjdk-8-jdk-headless:amd64 openjdk-8-jre-headless:amd64
 </span></span></code></pre></div><ul>
 <li>In <a href="/cgspace-notes/2022-11/">2022-11</a> an upstream Java update broke the DSpace 6 Handle server so we will have to pin this again after the upgrade to Ubuntu 22.04</li>
-<li>After the upgrade I made sure CGSpace was working, then proceeded to upgrade PostgreSQL from 12 to 14, like I did on DSpace Test in 2023-03</li>
+<li>After the upgrade I made sure CGSpace was working, then proceeded to upgrade PostgreSQL from 12 to 14, like I did on <a href="/cgspace-notes/2023-03/">DSpace Test in 2023-03</a></li>
 <li>Then I had to downgrade OpenJDK to fix the Handle server using the ones I had previously downloaded for Ubuntu 20.04 because they no longer exist on Launchpad:</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># dpkg -i openjdk-8-j*8u342-b07*.deb
-</span></span></code></pre></div><!-- raw HTML omitted -->
+</span></span></code></pre></div><ul>
+<li>Export CGSpace to fix missing Initiative collection mappings</li>
+<li>Start a harvest on AReS</li>
+<li>Work on the DSpace 7 migration a bit more
+<ul>
+<li>I decided to rebase and drop all the submission form edits because they conflict every time upstream changes!</li>
+</ul>
+</li>
+</ul>
+<h2 id="2023-06-06">2023-06-06</h2>
+<ul>
+<li>Fix some incorrect ORCID identifiers for an Alliance author on CGSpace</li>
+<li>Export our list of ORCID identifiers, resolve them, and update the records in CGSpace:</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>$ cat dspace/config/controlled-vocabularies/cg-creator-identifier.xml 2022-09-22-add-orcids.csv| grep -oE <span style="color:#e6db74">&#39;[A-Z0-9]{4}-[A-Z0-9]{4}-[A-Z0-9]{4}-[A-Z0-9]{4}&#39;</span> | sort -u &gt; /tmp/2023-06-06-orcids.txt
+</span></span><span style="display:flex;"><span>$ ./ilri/resolve_orcids.py -i /tmp/2023-06-06-orcids.txt -o /tmp/2023-06-06-orcids-names.txt -d
+</span></span><span style="display:flex;"><span>$ ./ilri/update_orcids.py -i /tmp/2023-06-06-orcids-names.txt -db dspacetest -u dspace -p <span style="color:#e6db74">&#39;ffff&#39;</span> -m <span style="color:#ae81ff">247</span>
+</span></span></code></pre></div><ul>
+<li>Start working on updating the MODS schema in CGSpace from 3.1 to 3.8 based on Stefano and Salem&rsquo;s work last year</li>
+</ul>
+<!-- raw HTML omitted -->
 
   
 

docs/categories/index.html

@@ -10,7 +10,7 @@
 <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/categories/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+03:00" />
 
 
 

docs/categories/notes/index.html

@@ -10,7 +10,7 @@
 <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/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+03:00" />
 
 
 

docs/categories/notes/page/4/index.html

@@ -10,7 +10,7 @@
 <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/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+03:00" />
 
 
 

docs/categories/notes/page/5/index.html

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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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+03:00" />
 
 
 

docs/categories/notes/page/8/index.html

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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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/categories/notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
+<meta property="og:updated_time" content="2023-06-04T11:00:30+03:00" />
 
 
 

docs/index.html

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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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+03:00" />
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 <meta property="og:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository." />
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 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
-<meta property="og:updated_time" content="2023-06-02T16:33:48+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:type" content="website" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/" />
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