Add notes for 2018-04-04

content/posts/2018-03.md

@@ -127,7 +127,7 @@ if(isBlank(value), "Hernan Ceballos: 0000-0002-8744-7918", value + "||Hernan Ceb
 
 - One thing that bothers me is that this won't honor author order
 - It might be better to do batches of these in PostgreSQL with a script that takes the `place` column of an author into account when setting the `cg.creator.id`
-- I wrote a Python script to read the author names and ORCID identifiers from CSV and create matching `cg.creator.id` fieldsa: [add-orcid-identifiers-csv.py ](https://gist.github.com/alanorth/a49d85cd9c5dea89cddbe809813a7050)
+- I wrote a Python script to read the author names and ORCID identifiers from CSV and create matching `cg.creator.id` fields: [add-orcid-identifiers-csv.py ](https://gist.github.com/alanorth/a49d85cd9c5dea89cddbe809813a7050)
 - The CSV should have two columns: author name and ORCID identifier:
 
 ```

content/posts/2018-04.md

@@ -25,3 +25,34 @@ Exception in thread "ContainerBackgroundProcessor[StandardEngine[Catalina]]" jav
 - For some reason Listings and Reports is not giving any results for any queries now...
 - I posted a message on Yammer to ask if people are using the Duplicate Check step from the Metadata Quality Module
 - Help Lili Szilagyi with a question about statistics on some CCAFS items
+
+## 2018-04-04
+
+- Peter noticed that there were still some old CRP names on CGSpace, because I hadn't forced the Discovery index to be updated after I fixed the others last week
+- For completeness I re-ran the CRP corrections on CGSpace:
+
+```
+$ ./fix-metadata-values.py -i /tmp/Correct-21-CRPs-2018-03-16.csv -f cg.contributor.crp -t correct -m 230 -db dspace -u dspace -p 'fuuu'
+Fixed 1 occurences of: AGRICULTURE FOR NUTRITION AND HEALTH
+```
+
+- Then started a full Discovery index:
+
+```
+$ export JAVA_OPTS='-Dfile.encoding=UTF-8 -Xmx1024m'
+$ time schedtool -D -e ionice -c2 -n7 nice -n19 dspace index-discovery -b
+```
+
+- Elizabeth from CIAT emailed to ask if I could help her by adding ORCID identifiers to all of Joseph Tohme's items
+- I used my [add-orcid-identifiers-csv.py](https://gist.githubusercontent.com/alanorth/a49d85cd9c5dea89cddbe809813a7050/raw/f67b6e45a9a940732882ae4bb26897a9b245ef31/add-orcid-identifiers-csv.py) script:
+
+```
+$ ./add-orcid-identifiers-csv.py -i /tmp/jtohme-2018-04-04.csv -db dspace -u dspace -p 'fuuu'
+```
+
+- The CSV format of `jtohme-2018-04-04.csv` was:
+
+```csv
+dc.contributor.author,cg.creator.id
+"Tohme, Joseph M.",Joe Tohme: 0000-0003-2765-7101
+```

docs/2015-11/index.html

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docs/2015-12/index.html

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docs/2016-01/index.html

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docs/2016-02/index.html

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docs/2016-03/index.html

@@ -45,7 +45,7 @@ Reinstall my local (Mac OS X) DSpace stack with Tomcat 7, PostgreSQL 9.3, and Ja
 
 
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docs/2016-04/index.html

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docs/2016-05/index.html

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docs/2016-06/index.html

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docs/2016-07/index.html

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docs/2016-08/index.html

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docs/2016-09/index.html

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docs/2016-10/index.html

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docs/2016-11/index.html

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docs/2016-12/index.html

@@ -69,7 +69,7 @@ Another worrying error from dspace.log is:
 
 
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docs/2017-01/index.html

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docs/2017-02/index.html

@@ -73,7 +73,7 @@ Looks like we’ll be using cg.identifier.ccafsprojectpii as the field name
 
 
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docs/2017-03/index.html

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docs/2017-04/index.html

@@ -63,7 +63,7 @@ $ [dspace]/bin/dspace filter-media -f -i 10568/16498 -p "ImageMagick PDF Th
 
 
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docs/2017-05/index.html

@@ -29,7 +29,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="May, 2017"/>
 <meta name="twitter:description" content="2017-05-01  ICARDA apparently started working on CG Core on their MEL repository They have done a few cg.* fields, but not very consistent and even copy some of CGSpace items:  https://mel.cgiar.org/xmlui/handle/20.500.11766/6911?show=full https://cgspace.cgiar.org/handle/10568/73683   2017-05-02  Atmire got back about the Workflow Statistics issue, and apparently it&rsquo;s a bug in the CUA module so they will send us a pull request  2017-05-04  Sync DSpace Test with database and assetstore from CGSpace Re-deploy DSpace Test with Atmire&rsquo;s CUA patch for workflow statistics, run system updates, and restart the server Now I can see the workflow statistics and am able to select users, but everything returns 0 items Megan says there are still some mapped items are not appearing since last week, so I forced a full index-discovery -b Need to remember to check if the collection has more items (currently 39 on CGSpace, but 118 on the freshly reindexed DSPace Test) tomorrow: https://cgspace."/>
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docs/2017-06/index.html

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 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="June, 2017"/>
 <meta name="twitter:description" content="2017-06-01  After discussion with WLE and CGSpace content people, we decided to just add one metadata field for the WLE Research Themes The cg.identifier.wletheme field will be used for both Phase I and Phase II Research Themes Then we&rsquo;ll create a new sub-community for Phase II and create collections for the research themes there The current &ldquo;Research Themes&rdquo; community will be renamed to &ldquo;WLE Phase I Research Themes&rdquo; Tagged all items in the current Phase I collections with their appropriate themes Create pull request to add Phase II research themes to the submission form: #328 Add cg."/>
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docs/2017-07/index.html

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docs/2017-08/index.html

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docs/2017-09/index.html

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docs/2017-10/index.html

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docs/2017-11/index.html

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docs/2017-12/index.html

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docs/2018-01/index.html

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docs/2018-02/index.html

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docs/2018-03/index.html

@@ -20,7 +20,7 @@ Export a CSV of the IITA community metadata for Martin Mueller
 
 <meta property="article:published_time" content="2018-03-02T16:07:54&#43;02:00"/>
 
-<meta property="article:modified_time" content="2018-03-28T22:01:13&#43;03:00"/>
+<meta property="article:modified_time" content="2018-04-04T15:14:21&#43;03:00"/>
 
 
 
@@ -41,7 +41,7 @@ Export a CSV of the IITA community metadata for Martin Mueller
 
 
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@@ -51,9 +51,9 @@ Export a CSV of the IITA community metadata for Martin Mueller
   "@type": "BlogPosting",
   "headline": "March, 2018",
   "url": "https://alanorth.github.io/cgspace-notes/2018-03/",
-  "wordCount": "2961",
+  "wordCount": "2960",
   "datePublished": "2018-03-02T16:07:54&#43;02:00",
-  "dateModified": "2018-03-28T22:01:13&#43;03:00",
+  "dateModified": "2018-04-04T15:14:21&#43;03:00",
   "author": {
     "@type": "Person",
     "name": "Alan Orth"
@@ -255,7 +255,7 @@ UPDATE 2309
 <ul>
 <li>One thing that bothers me is that this won&rsquo;t honor author order</li>
 <li>It might be better to do batches of these in PostgreSQL with a script that takes the <code>place</code> column of an author into account when setting the <code>cg.creator.id</code></li>
-<li>I wrote a Python script to read the author names and ORCID identifiers from CSV and create matching <code>cg.creator.id</code> fieldsa: <a href="https://gist.github.com/alanorth/a49d85cd9c5dea89cddbe809813a7050">add-orcid-identifiers-csv.py </a></li>
+<li>I wrote a Python script to read the author names and ORCID identifiers from CSV and create matching <code>cg.creator.id</code> fields: <a href="https://gist.github.com/alanorth/a49d85cd9c5dea89cddbe809813a7050">add-orcid-identifiers-csv.py </a></li>
 <li>The CSV should have two columns: author name and ORCID identifier:</li>
 </ul>
 
@@ -536,11 +536,6 @@ COPY 56156
 
 <ul>
 <li>Afterwards we&rsquo;ll want to do some batch tagging of ORCID identifiers to these names</li>
-</ul>
-
-<h2 id="2018-03-20-1">2018-03-20</h2>
-
-<ul>
 <li>CGSpace crashed again this afternoon, I&rsquo;m not sure of the cause but there are a lot of SQL errors in the DSpace log:</li>
 </ul>
 

docs/2018-04/index.html

@@ -43,7 +43,7 @@ Catalina logs at least show some memory errors yesterday:
 
 
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@@ -53,7 +53,7 @@ Catalina logs at least show some memory errors yesterday:
   "@type": "BlogPosting",
   "headline": "April, 2018",
   "url": "https://alanorth.github.io/cgspace-notes/2018-04/",
-  "wordCount": "118",
+  "wordCount": "253",
   "datePublished": "2018-04-01T16:13:54&#43;02:00",
   "dateModified": "2018-04-01T17:21:41&#43;03:00",
   "author": {
@@ -145,6 +145,41 @@ Exception in thread &quot;ContainerBackgroundProcessor[StandardEngine[Catalina]]
 <li>Help Lili Szilagyi with a question about statistics on some CCAFS items</li>
 </ul>
 
+<h2 id="2018-04-04">2018-04-04</h2>
+
+<ul>
+<li>Peter noticed that there were still some old CRP names on CGSpace, because I hadn&rsquo;t forced the Discovery index to be updated after I fixed the others last week</li>
+<li>For completeness I re-ran the CRP corrections on CGSpace:</li>
+</ul>
+
+<pre><code>$ ./fix-metadata-values.py -i /tmp/Correct-21-CRPs-2018-03-16.csv -f cg.contributor.crp -t correct -m 230 -db dspace -u dspace -p 'fuuu'
+Fixed 1 occurences of: AGRICULTURE FOR NUTRITION AND HEALTH
+</code></pre>
+
+<ul>
+<li>Then started a full Discovery index:</li>
+</ul>
+
+<pre><code>$ export JAVA_OPTS='-Dfile.encoding=UTF-8 -Xmx1024m'
+$ time schedtool -D -e ionice -c2 -n7 nice -n19 dspace index-discovery -b
+</code></pre>
+
+<ul>
+<li>Elizabeth from CIAT emailed to ask if I could help her by adding ORCID identifiers to all of Joseph Tohme&rsquo;s items</li>
+<li>I used my <a href="https://gist.githubusercontent.com/alanorth/a49d85cd9c5dea89cddbe809813a7050/raw/f67b6e45a9a940732882ae4bb26897a9b245ef31/add-orcid-identifiers-csv.py">add-orcid-identifiers-csv.py</a> script:</li>
+</ul>
+
+<pre><code>$ ./add-orcid-identifiers-csv.py -i /tmp/jtohme-2018-04-04.csv -db dspace -u dspace -p 'fuuu'
+</code></pre>
+
+<ul>
+<li>The CSV format of <code>jtohme-2018-04-04.csv</code> was:</li>
+</ul>
+
+<pre><code class="language-csv">dc.contributor.author,cg.creator.id
+&quot;Tohme, Joseph M.&quot;,Joe Tohme: 0000-0003-2765-7101
+</code></pre>
+
   
 
   

docs/404.html

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docs/sitemap.xml

@@ -9,7 +9,7 @@
   
   <url>
     <loc>https://alanorth.github.io/cgspace-notes/2018-03/</loc>
-    <lastmod>2018-03-28T22:01:13+03:00</lastmod>
+    <lastmod>2018-04-04T15:14:21+03:00</lastmod>
   </url>
   
   <url>

docs/tags/index.html

@@ -26,7 +26,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="Tags"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

docs/tags/notes/index.html

@@ -26,7 +26,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="Notes"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

docs/tags/notes/page/2/index.html

@@ -26,7 +26,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="Notes"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

docs/tags/notes/page/3/index.html

@@ -26,7 +26,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="Notes"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

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

@@ -26,7 +26,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="Notes"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

docs/tags/page/2/index.html

@@ -26,7 +26,7 @@
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 <meta name="twitter:title" content="Tags"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

docs/tags/page/3/index.html

@@ -26,7 +26,7 @@
 <meta name="twitter:card" content="summary"/>
 <meta name="twitter:title" content="Tags"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
-<meta name="generator" content="Hugo 0.37.1" />
+<meta name="generator" content="Hugo 0.38" />
 
 
     

docs/tags/page/4/index.html

@@ -26,7 +26,7 @@
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 <meta name="twitter:title" content="Tags"/>
 <meta name="twitter:description" content="Documenting day-to-day work on the [CGSpace](https://cgspace.cgiar.org) repository."/>
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