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I checked IITA’s 259 Feb 14 records from last month for duplicates using Atmire’s Duplicate Checker on a fresh snapshot of CGSpace on my local machine and everything looks good
I am now only waiting to hear from her about where the items should go, though I assume Journal Articles go to IITA Journal Articles collection, etc…
Looking at the other half of Udana’s WLE records from 2018-11
I finished the ones for Restoring Degraded Landscapes (RDL), but these are for Variability, Risks and Competing Uses (VRC)
I did the usual cleanups for whitespace, added regions where they made sense for certain countries, cleaned up the DOI link formats, added rights information based on the publications page for a few items
Most worryingly, there are encoding errors in the abstracts for eleven items, for example:
68.15% � 9.45 instead of 68.15% ± 9.45
2003�2013 instead of 2003–2013
I think I will need to ask Udana to re-copy and paste the abstracts with more care using Google Docs
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I checked IITA’s 259 Feb 14 records from last month for duplicates using Atmire’s Duplicate Checker on a fresh snapshot of CGSpace on my local machine and everything looks good
I am now only waiting to hear from her about where the items should go, though I assume Journal Articles go to IITA Journal Articles collection, etc…
Looking at the other half of Udana’s WLE records from 2018-11
I finished the ones for Restoring Degraded Landscapes (RDL), but these are for Variability, Risks and Competing Uses (VRC)
I did the usual cleanups for whitespace, added regions where they made sense for certain countries, cleaned up the DOI link formats, added rights information based on the publications page for a few items
Most worryingly, there are encoding errors in the abstracts for eleven items, for example:
68.15% � 9.45 instead of 68.15% ± 9.45
2003�2013 instead of 2003–2013
I think I will need to ask Udana to re-copy and paste the abstracts with more care using Google Docs
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<h1 class="blog-title"><a href="https://alanorth.github.io/cgspace-notes/" rel="home">CGSpace Notes</a></h1>
<p class="lead blog-description">Documenting day-to-day work on the <a href="https://cgspace.cgiar.org">CGSpace</a> repository.</p>
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<h2 class="blog-post-title"><a href="https://alanorth.github.io/cgspace-notes/2019-03/">March, 2019</a></h2>
<p class="blog-post-meta"><time datetime="2019-03-01T12:16:30+01:00">Fri Mar 01, 2019</time> by Alan Orth in
<i class="fa fa-tag" aria-hidden="true"></i> <a href="/cgspace-notes/tags/notes" rel="tag">Notes</a>
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<h2 id="2019-03-01">2019-03-01</h2>
<ul>
<li>I checked IITA’s 259 Feb 14 records from last month for duplicates using Atmire’s Duplicate Checker on a fresh snapshot of CGSpace on my local machine and everything looks good</li>
<li>I am now only waiting to hear from her about where the items should go, though I assume Journal Articles go to IITA Journal Articles collection, etc…</li>
<li>Looking at the other half of Udana’s WLE records from 2018-11
<ul>
<li>I finished the ones for Restoring Degraded Landscapes (RDL), but these are for Variability, Risks and Competing Uses (VRC)</li>
<li>I did the usual cleanups for whitespace, added regions where they made sense for certain countries, cleaned up the DOI link formats, added rights information based on the publications page for a few items</li>
<li>Most worryingly, there are encoding errors in the abstracts for eleven items, for example:</li>
<li>68.15% � 9.45 instead of 68.15% ± 9.45</li>
<li>2003�2013 instead of 2003–2013</li>
</ul></li>
<li>I think I will need to ask Udana to re-copy and paste the abstracts with more care using Google Docs</li>
</ul>
<h2 id="2019-03-03">2019-03-03</h2>
<ul>
<li>Trying to finally upload IITA’s 259 Feb 14 items to CGSpace so I exported them from DSpace Test:</li>
</ul>
<pre><code>$ mkdir 2019-03-03-IITA-Feb14
$ dspace export -i 10568/108684 -t COLLECTION -m -n 0 -d 2019-03-03-IITA-Feb14
</code></pre>
<ul>
<li>As I was inspecting the archive I noticed that there were some problems with the bitsreams:
<ul>
<li>First, Sisay didn’t include the bitstream descriptions</li>
<li>Second, only five items had bitstreams and I remember in the discussion with IITA that there should have been nine!</li>
<li>I had to refer to the original CSV from January to find the file names, then download and add them to the export contents manually!</li>
</ul></li>
<li>After adding the missing bitstreams and descriptions manually I tested them again locally, then imported them to a temporary collection on CGSpace:</li>
</ul>
<pre><code>$ dspace import -a -c 10568/99832 -e aorth@stfu.com -m 2019-03-03-IITA-Feb14.map -s /tmp/2019-03-03-IITA-Feb14
</code></pre>
<ul>
<li>DSpace’s export function doesn’t include the collections for some reason, so you need to import them somewhere first, then export the collection metadata and re-map the items to proper owning collections based on their types using OpenRefine or something</li>
<li>After re-importing to CGSpace to apply the mappings, I deleted the collection on DSpace Test and ran the <code>dspace cleanup</code> script</li>
<li>Merge the IITA research theme changes from last month to the <code>5_x-prod</code> branch (<a href="https://github.com/ilri/DSpace/pull/413">#413</a>)
<ul>
<li>I will deploy to CGSpace soon and then think about how to batch tag all IITA’s existing items with this metadata</li>
</ul></li>
<li>Deploy Tomcat 7.0.93 on CGSpace (linode18) after having tested it on DSpace Test (linode19) for a week</li>
</ul>
<h2 id="2019-03-06">2019-03-06</h2>
<ul>
<li>Abenet was having problems with a CIP user account, I think that the user could not register</li>
<li>I suspect it’s related to the email issue that ICT hasn’t responded about since last week</li>
<li>As I thought, I still cannot send emails from CGSpace:</li>
</ul>
<pre><code>$ dspace test-email
About to send test email:
- To: blah@stfu.com
- Subject: DSpace test email
- Server: smtp.office365.com
Error sending email:
- Error: javax.mail.AuthenticationFailedException
</code></pre>
<ul>
<li>I will send a follow-up to ICT to ask them to reset the password</li>
</ul>
<h2 id="2019-03-07">2019-03-07</h2>
<ul>
<li>ICT reset the email password and I confirmed that it is working now</li>
<li>Generate a controlled vocabulary of 1187 AGROVOC subjects from the top 1500 that I checked last month, dumping the terms themselves using <code>csvcut</code> and then applying XML controlled vocabulary format in vim and then checking with tidy for good measure:</li>
</ul>
<pre><code>$ csvcut -c name 2019-02-22-subjects.csv > dspace/config/controlled-vocabularies/dc-contributor-author.xml
$ # apply formatting in XML file
$ tidy -xml -utf8 -iq -m -w 0 dspace/config/controlled-vocabularies/dc-subject.xml
</code></pre>
<ul>
<li>Atmire noticed my message about the “solr_update_time_stamp” error on the dspace-tech mailing list and created an issue on their tracker to discuss it with me
<ul>
<li>They say the error is harmless, but has nevertheless been fixed in their newer module versions</li>
</ul></li>
</ul>
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<h4>Recent Posts</h4>
<ol class="list-unstyled">
<li><a href="/cgspace-notes/2019-03/">March, 2019</a></li>
<li><a href="/cgspace-notes/2019-02/">February, 2019</a></li>
<li><a href="/cgspace-notes/2019-01/">January, 2019</a></li>
<li><a href="/cgspace-notes/2018-12/">December, 2018</a></li>
<li><a href="/cgspace-notes/2018-11/">November, 2018</a></li>
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<h4>Links</h4>
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<li><a href="https://cgspace.cgiar.org">CGSpace</a></li>
<li><a href="https://dspacetest.cgiar.org">DSpace Test</a></li>
<li><a href="https://github.com/ilri/DSpace">CGSpace @ GitHub</a></li>
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