Add notes for 2021-08-09

2024-06-09 13:25:10 +02:00 · 2021-08-09 17:10:45 +03:00 · 2021-08-09 17:10:45 +03:00 · 46bdcb7a45
commit 46bdcb7a45
parent 3a1264b858
25 changed files with 94 additions and 30 deletions
--- a/content/posts/2021-08.md
+++ b/content/posts/2021-08.md
@ -178,5 +178,37 @@ $ csvcut -c 'id,cg.issn,cg.issn[],cg.issn[en],cg.issn[en_US],cg.isbn,cg.isbn[],c
 - Then in OpenRefine I merged all null, blank, and en fields into the `en_US` one for each, removed all spaces, fixed invalid multi-value separators, removed everything other than ISSN/ISBNs themselves
  - In total it was a few thousand metadata entries or so so I had to split the CSV with `xsv split` in order to process it
  - I was reminded again how DSpace 6 is very fucking slow when it comes to any database-related operations, as it takes over an hour to process 200 metadata changes...
+  - In total it was 1,195 changes to ISSN and ISBN metadata fields
+
+## 2021-08-09
+
+- Extract all unique ISSNs to look up on Sherpa Romeo and Crossref
+
+```console
+$ csvcut -c 'cg.issn[en_US]' ~/Downloads/2021-08-08-CGSpace-ISBN-ISSN.csv | csvgrep -c 1 -r '^[0-9]{4}' | sed 1d | sort | uniq > /tmp/2021-08-09-issns.txt
+$ ./ilri/sherpa-issn-lookup.py -a mehhhhhhhhhhhhh -i /tmp/2021-08-09-issns.txt -o /tmp/2021-08-09-journals-sherpa-romeo.csv
+$ ./ilri/crossref-issn-lookup.py -e me@cgiar.org -i /tmp/2021-08-09-issns.txt -o /tmp/2021-08-09-journals-crossref.csv
+```
+
+- Then I updated the CSV headers for each and joined the CSVs on the issn column:
+
+```console
+$ sed -i '1s/journal title/sherpa romeo journal title/' /tmp/2021-08-09-journals-sherpa-romeo.csv
+$ sed -i '1s/journal title/crossref journal title/' /tmp/2021-08-09-journals-crossref.csv
+$ csvjoin -c issn /tmp/2021-08-09-journals-sherpa-romeo.csv /tmp/2021-08-09-journals-crossref.csv > /tmp/2021-08-09-journals-all.csv
+```
+
+- In OpenRefine I faceted by blank in each column and copied the values from the other, then created a new column to indicate whether the values were the same with this GREL:
+
+```console
+if(cells['sherpa romeo journal title'].value == cells['crossref journal title'].value,"same","different")
+```
+
+- Then I exported the list of journals that differ and sent it to Peter for comments and corrections
+  - I want to build an updated controlled vocabulary so I can update CGSpace and reconcile our existing metadata against it
+- Convert my `generate-thumbnails.py` script to use libvips instead of Graphicsmagick
+  - It is faster and uses less memory than GraphicsMagick (and ImageMagick), and produces nice thumbnails from PDFs
+  - One drawback is that libvips uses Poppler instead of Graphicsmagick, which apparently means that it can't work in CMYK
+  - I tested one item (10568/51999) that uses CMYK and the thumbnail looked OK (closer to the original than GraphicsMagick), so I'm not sure...

 <!-- vim: set sw=2 ts=2: -->
--- a/docs/2021-08/index.html
+++ b/docs/2021-08/index.html
@ -18,7 +18,7 @@ I decided to upgrade linode20 from Ubuntu 18.04 to 20.04
 <meta property="og:type" content="article" />
 <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2021-08/" />
 <meta property="article:published_time" content="2021-08-01T09:01:07+03:00" />
-<meta property="article:modified_time" content="2021-08-06T09:08:15+03:00" />
+<meta property="article:modified_time" content="2021-08-09T08:38:44+03:00" />



@ -42,9 +42,9 @@ I decided to upgrade linode20 from Ubuntu 18.04 to 20.04
  "@type": "BlogPosting",
  "headline": "August, 2021",
  "url": "https://alanorth.github.io/cgspace-notes/2021-08/",
-  "wordCount": "1288",
+  "wordCount": "1537",
  "datePublished": "2021-08-01T09:01:07+03:00",
-  "dateModified": "2021-08-06T09:08:15+03:00",
+  "dateModified": "2021-08-09T08:38:44+03:00",
  "author": {
    "@type": "Person",
    "name": "Alan Orth"
@ -295,6 +295,38 @@ Total number of hits from bots: 4492
 <ul>
 <li>In total it was a few thousand metadata entries or so so I had to split the CSV with <code>xsv split</code> in order to process it</li>
 <li>I was reminded again how DSpace 6 is very fucking slow when it comes to any database-related operations, as it takes over an hour to process 200 metadata changes&hellip;</li>
+<li>In total it was 1,195 changes to ISSN and ISBN metadata fields</li>
+</ul>
+</li>
+</ul>
+<h2 id="2021-08-09">2021-08-09</h2>
+<ul>
+<li>Extract all unique ISSNs to look up on Sherpa Romeo and Crossref</li>
+</ul>
+<pre><code class="language-console" data-lang="console">$ csvcut -c 'cg.issn[en_US]' ~/Downloads/2021-08-08-CGSpace-ISBN-ISSN.csv | csvgrep -c 1 -r '^[0-9]{4}' | sed 1d | sort | uniq &gt; /tmp/2021-08-09-issns.txt
+$ ./ilri/sherpa-issn-lookup.py -a mehhhhhhhhhhhhh -i /tmp/2021-08-09-issns.txt -o /tmp/2021-08-09-journals-sherpa-romeo.csv
+$ ./ilri/crossref-issn-lookup.py -e me@cgiar.org -i /tmp/2021-08-09-issns.txt -o /tmp/2021-08-09-journals-crossref.csv
+</code></pre><ul>
+<li>Then I updated the CSV headers for each and joined the CSVs on the issn column:</li>
+</ul>
+<pre><code class="language-console" data-lang="console">$ sed -i '1s/journal title/sherpa romeo journal title/' /tmp/2021-08-09-journals-sherpa-romeo.csv
+$ sed -i '1s/journal title/crossref journal title/' /tmp/2021-08-09-journals-crossref.csv
+$ csvjoin -c issn /tmp/2021-08-09-journals-sherpa-romeo.csv /tmp/2021-08-09-journals-crossref.csv &gt; /tmp/2021-08-09-journals-all.csv
+</code></pre><ul>
+<li>In OpenRefine I faceted by blank in each column and copied the values from the other, then created a new column to indicate whether the values were the same with this GREL:</li>
+</ul>
+<pre><code class="language-console" data-lang="console">if(cells['sherpa romeo journal title'].value == cells['crossref journal title'].value,&quot;same&quot;,&quot;different&quot;)
+</code></pre><ul>
+<li>Then I exported the list of journals that differ and sent it to Peter for comments and corrections
+<ul>
+<li>I want to build an updated controlled vocabulary so I can update CGSpace and reconcile our existing metadata against it</li>
+</ul>
+</li>
+<li>Convert my <code>generate-thumbnails.py</code> script to use libvips instead of Graphicsmagick
+<ul>
+<li>It is faster and uses less memory than GraphicsMagick (and ImageMagick), and produces nice thumbnails from PDFs</li>
+<li>One drawback is that libvips uses Poppler instead of Graphicsmagick, which apparently means that it can&rsquo;t work in CMYK</li>
+<li>I tested one item (10568/51999) that uses CMYK and the thumbnail looked OK (closer to the original than GraphicsMagick), so I&rsquo;m not sure&hellip;</li>
 </ul>
 </li>
 </ul>
--- a/docs/categories/index.html
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@ -10,7 +10,7 @@
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