Add notes for 2022-01-30

2024-06-09 13:25:10 +02:00 · 2022-01-31 09:00:59 +03:00 · 2022-01-31 09:00:59 +03:00 · ed9fb3fe99
commit ed9fb3fe99
parent 673f718ef3
26 changed files with 124 additions and 32 deletions
--- a/content/posts/2022-01.md
+++ b/content/posts/2022-01.md
@ -188,5 +188,37 @@ $ grep -E '^2022-01*' /var/log/postgresql/postgresql-10-main.log | grep -c 'stil
  - I included the id because I will need a unique field to join the resulting list of non-duplicates with the original CSV where the rest of the metadata and filenames are
  - Since these items are not in DSpace yet, I generated simple numeric IDs in OpenRefine using this GREL transform: `row.index + 1`
  - Then I ran `check-duplicates.py` on items 1–200 and sent the resulting CSV to Gaia
+- Delete one duplicate item I saw in IITA's Journal Articles that was uploaded earlier in WLE
+  - Also do some general cleanup on IITA's Journal Articles collection in OpenRefine
+- Delete one duplicate item I saw in ILRI's Journal Articles collection
+  - Also do some general cleanup on ILRI's Journal Articles collection in OpenRefine and csv-metadata-quality
+
+## 2022-01-29
+
+- I did some more cleanup on the ILRI Journal Articles
+  - I added missing journal titles for items that had ISSNs
+  - Then I added pages for items that had them in the citation
+  - First, I faceted the citation field based on whether or not the item had something like ": 232-234" present:
+
+```console
+value.contains(/:\s?\d+(-|–)\d+/)
+```
+
+- Then I faceted by blank on `dcterms.extent` and did a transform to extract the page information for over 1,000 items!
+
+```console
+'p. ' +
+cells['dcterms.bibliographicCitation[en_US]'].value.match(/.*:\s?(\d+)(-|–)(\d+).*/)[0] +
+'-' +
+cells['dcterms.bibliographicCitation[en_US]'].value.match(/.*:\s?(\d+)(-|–)(\d+).*/)[2]
+```
+
+- Then I did similar for `cg.volume` and `cg.issue`, also based on the citation, for example to extract the "16" from "Journal of Blah 16(1)", where "16" is the second capture group in a zero-based match:
+
+```console
+cells['dcterms.bibliographicCitation[en_US]'].value.match(/.*( |;)(\d+)\((\d+)\).*/)[1]
+```
+
+- This was 3,000 items so I imported the changes on CGSpace 1,000 at a time...

 <!-- vim: set sw=2 ts=2: -->
--- a/docs/2022-01/index.html
+++ b/docs/2022-01/index.html
@ -14,7 +14,7 @@ Start a full harvest on AReS
 <meta property="og:type" content="article" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2022-01/" />
 <meta property="article:published_time" content="2022-01-01T15:20:54+02:00" />
-<meta property="article:modified_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="article:modified_time" content="2022-01-28T16:59:40+03:00" />



@ -34,9 +34,9 @@ Start a full harvest on AReS
  "@type": "BlogPosting",
  "headline": "January, 2022",
  "url": "https://alanorth.github.io/cgspace-notes/2022-01/",
-  "wordCount": "855",
+  "wordCount": "1223",
  "datePublished": "2022-01-01T15:20:54+02:00",
-  "dateModified": "2022-01-19T18:14:26+03:00",
+  "dateModified": "2022-01-28T16:59:40+03:00",
  "author": {
    "@type": "Person",
    "name": "Alan Orth"
@ -297,7 +297,67 @@ UPDATE 9433
 $ grep -E <span style="color:#e6db74">&#39;^2022-01*&#39;</span> /var/log/postgresql/postgresql-10-main.log | grep -c <span style="color:#e6db74">&#39;still waiting for&#39;</span>
 3
 </code></pre></div><ul>
-<li>I set a system alert on CGSpace and then restarted Tomcat and PostgreSQL</li>
+<li>I set a system alert on CGSpace and then restarted Tomcat and PostgreSQL
+<ul>
+<li>The issue in Francesca&rsquo;s case was actually that someone had taken the task, not that PostgreSQL transactions were locked!</li>
+</ul>
+</li>
+</ul>
+<h2 id="2022-01-28">2022-01-28</h2>
+<ul>
+<li>Finalize the last ~100 WLE Journal Article items without licensese and DOIs
+<ul>
+<li>I did as many as I could, also updating http links to https for many journal links</li>
+</ul>
+</li>
+<li>Federica Bottamedi contacted us from the system office to say that she took over for Vini (Abhilasha Vaid)
+<ul>
+<li>She created an account on CGSpace and now we need to see which workflows she should belong to</li>
+</ul>
+</li>
+<li>Start a fresh harvesting on AReS</li>
+<li>I adjusted the <code>check-duplicates.py</code> script to write the output to a CSV file including the id, both titles, both dates, and the handle link
+<ul>
+<li>I included the id because I will need a unique field to join the resulting list of non-duplicates with the original CSV where the rest of the metadata and filenames are</li>
+<li>Since these items are not in DSpace yet, I generated simple numeric IDs in OpenRefine using this GREL transform: <code>row.index + 1</code></li>
+<li>Then I ran <code>check-duplicates.py</code> on items 1–200 and sent the resulting CSV to Gaia</li>
+</ul>
+</li>
+<li>Delete one duplicate item I saw in IITA&rsquo;s Journal Articles that was uploaded earlier in WLE
+<ul>
+<li>Also do some general cleanup on IITA&rsquo;s Journal Articles collection in OpenRefine</li>
+</ul>
+</li>
+<li>Delete one duplicate item I saw in ILRI&rsquo;s Journal Articles collection
+<ul>
+<li>Also do some general cleanup on ILRI&rsquo;s Journal Articles collection in OpenRefine and csv-metadata-quality</li>
+</ul>
+</li>
+</ul>
+<h2 id="2022-01-29">2022-01-29</h2>
+<ul>
+<li>I did some more cleanup on the ILRI Journal Articles
+<ul>
+<li>I added missing journal titles for items that had ISSNs</li>
+<li>Then I added pages for items that had them in the citation</li>
+<li>First, I faceted the citation field based on whether or not the item had something like &ldquo;: 232-234&rdquo; present:</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">value.contains(/:\s?\d+(-|–)\d+/)
+</code></pre></div><ul>
+<li>Then I faceted by blank on <code>dcterms.extent</code> and did a transform to extract the page information for over 1,000 items!</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">&#39;p. &#39; +
+cells[&#39;dcterms.bibliographicCitation[en_US]&#39;].value.match(/.*:\s?(\d+)(-|–)(\d+).*/)[0] +
+&#39;-&#39; +
+cells[&#39;dcterms.bibliographicCitation[en_US]&#39;].value.match(/.*:\s?(\d+)(-|–)(\d+).*/)[2]
+</code></pre></div><ul>
+<li>Then I did similar for <code>cg.volume</code> and <code>cg.issue</code>, also based on the citation, for example to extract the &ldquo;16&rdquo; from &ldquo;Journal of Blah 16(1)&rdquo;, where &ldquo;16&rdquo; is the second capture group in a zero-based match:</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">cells[&#39;dcterms.bibliographicCitation[en_US]&#39;].value.match(/.*( |;)(\d+)\((\d+)\).*/)[1]
+</code></pre></div><ul>
+<li>This was 3,000 items so I imported the changes on CGSpace 1,000 at a time&hellip;</li>
 </ul>
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--- a/docs/categories/index.html
+++ b/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/categories/notes/index.html
+++ b/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/categories/notes/page/2/index.html
+++ b/docs/categories/notes/page/2/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/categories/notes/page/3/index.html
+++ b/docs/categories/notes/page/3/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/categories/notes/page/4/index.html
+++ b/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/categories/notes/page/5/index.html
+++ b/docs/categories/notes/page/5/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/categories/notes/page/6/index.html
+++ b/docs/categories/notes/page/6/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="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/index.html
+++ b/docs/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/2/index.html
+++ b/docs/page/2/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/3/index.html
+++ b/docs/page/3/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/4/index.html
+++ b/docs/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/5/index.html
+++ b/docs/page/5/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/6/index.html
+++ b/docs/page/6/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/7/index.html
+++ b/docs/page/7/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/page/8/index.html
+++ b/docs/page/8/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/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/index.html
+++ b/docs/posts/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/posts/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/page/2/index.html
+++ b/docs/posts/page/2/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/posts/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/page/3/index.html
+++ b/docs/posts/page/3/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/posts/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/page/4/index.html
+++ b/docs/posts/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/posts/" />
-<meta property="og:updated_time" content="2022-01-19T18:14:26+03:00" />
+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/page/5/index.html
+++ b/docs/posts/page/5/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/posts/" />
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--- a/docs/posts/page/6/index.html
+++ b/docs/posts/page/6/index.html
@ -10,7 +10,7 @@
 <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/posts/" />
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+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/page/7/index.html
+++ b/docs/posts/page/7/index.html
@ -10,7 +10,7 @@
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 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/posts/" />
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+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/posts/page/8/index.html
+++ b/docs/posts/page/8/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/posts/" />
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+<meta property="og:updated_time" content="2022-01-28T16:59:40+03:00" />



--- a/docs/sitemap.xml
+++ b/docs/sitemap.xml
@ -3,19 +3,19 @@
  xmlns:xhtml="http://www.w3.org/1999/xhtml">
  <url>
    <loc>https://alanorth.github.io/cgspace-notes/categories/</loc>
-    <lastmod>2022-01-27T16:58:05+03:00</lastmod>
+    <lastmod>2022-01-28T16:59:40+03:00</lastmod>
  </url><url>
    <loc>https://alanorth.github.io/cgspace-notes/</loc>
-    <lastmod>2022-01-27T16:58:05+03:00</lastmod>
+    <lastmod>2022-01-28T16:59:40+03:00</lastmod>
  </url><url>
    <loc>https://alanorth.github.io/cgspace-notes/2022-01/</loc>
-    <lastmod>2022-01-27T16:58:05+03:00</lastmod>
+    <lastmod>2022-01-28T16:59:40+03:00</lastmod>
  </url><url>
    <loc>https://alanorth.github.io/cgspace-notes/categories/notes/</loc>
-    <lastmod>2022-01-27T16:58:05+03:00</lastmod>
+    <lastmod>2022-01-28T16:59:40+03:00</lastmod>
  </url><url>
    <loc>https://alanorth.github.io/cgspace-notes/posts/</loc>
-    <lastmod>2022-01-27T16:58:05+03:00</lastmod>
+    <lastmod>2022-01-28T16:59:40+03:00</lastmod>
  </url><url>
    <loc>https://alanorth.github.io/cgspace-notes/2021-12/</loc>
    <lastmod>2022-01-09T10:39:51+02:00</lastmod>