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<meta property="og:title" content="June, 2022" />
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<meta property="og:description" content="2022-06-06
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Look at the Solr statistics on CGSpace
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I see 167,000 hits from a bunch of Microsoft IPs with reverse DNS “msnbot-” using the Solr query dns:*msnbot* AND dns:*.msn.com
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I purged these first so I could see the other “real” IPs in the Solr facets
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I see 47,500 hits from 80.248.237.167 on a data center ISP in Sweden, using a normal user agent
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I see 13,000 hits from 163.237.216.11 on a data center ISP in Australia, using a normal user agent
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I see 7,300 hits from 208.185.238.57 from Britanica, using a normal user agent
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There seem to be many more of these:
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<meta name="twitter:title" content="June, 2022"/>
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<meta name="twitter:description" content="2022-06-06
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Look at the Solr statistics on CGSpace
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I see 167,000 hits from a bunch of Microsoft IPs with reverse DNS “msnbot-” using the Solr query dns:*msnbot* AND dns:*.msn.com
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I purged these first so I could see the other “real” IPs in the Solr facets
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I see 47,500 hits from 80.248.237.167 on a data center ISP in Sweden, using a normal user agent
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I see 13,000 hits from 163.237.216.11 on a data center ISP in Australia, using a normal user agent
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I see 7,300 hits from 208.185.238.57 from Britanica, using a normal user agent
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There seem to be many more of these:
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"name": "Alan Orth"
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<h1 class="blog-title" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/" rel="home">CGSpace Notes</a></h1>
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<p class="lead blog-description" dir="auto">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" dir="auto"><a href="https://alanorth.github.io/cgspace-notes/2022-06/">June, 2022</a></h2>
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<p class="blog-post-meta">
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<time datetime="2022-06-06T09:01:36+03:00">Mon Jun 06, 2022</time>
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in
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<span class="fas fa-folder" aria-hidden="true"></span> <a href="/categories/notes/" rel="category tag">Notes</a>
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</p>
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</header>
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<h2 id="2022-06-06">2022-06-06</h2>
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<ul>
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<li>Look at the Solr statistics on CGSpace
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<ul>
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<li>I see 167,000 hits from a bunch of Microsoft IPs with reverse DNS “msnbot-” using the Solr query <code>dns:*msnbot* AND dns:*.msn.com</code></li>
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<li>I purged these first so I could see the other “real” IPs in the Solr facets</li>
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</ul>
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</li>
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<li>I see 47,500 hits from 80.248.237.167 on a data center ISP in Sweden, using a normal user agent</li>
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<li>I see 13,000 hits from 163.237.216.11 on a data center ISP in Australia, using a normal user agent</li>
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<li>I see 7,300 hits from 208.185.238.57 from Britanica, using a normal user agent
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<ul>
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<li>There seem to be many more of these:</li>
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</ul>
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</li>
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</ul>
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<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># zcat --force /var/log/nginx/access.log* | grep 208.185.238. | awk <span style="color:#e6db74">'{print $1}'</span> | sort | uniq -c | sort -h
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</span></span><span style="display:flex;"><span> 2 208.185.238.1
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</span></span><span style="display:flex;"><span> 166 208.185.238.54
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</span></span><span style="display:flex;"><span> 1293 208.185.238.51
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</span></span><span style="display:flex;"><span> 2587 208.185.238.59
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</span></span><span style="display:flex;"><span> 4692 208.185.238.56
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</span></span><span style="display:flex;"><span> 5480 208.185.238.53
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</span></span><span style="display:flex;"><span> 6277 208.185.238.52
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</span></span><span style="display:flex;"><span> 6400 208.185.238.58
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</span></span><span style="display:flex;"><span> 8261 208.185.238.55
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</span></span><span style="display:flex;"><span> 17549 208.185.238.57
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</span></span></code></pre></div><ul>
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<li>I see 3,000 hits from 178.208.75.33 by a Russian-owned IP in the Netherlands that is making a GET to / every one minute, using a normal user agent</li>
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<li>I see 3,000 hits from 134.122.124.196 on Digital Ocean to the REST API with a normal user agent</li>
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<li>I purged all these hits from IPs for a total of about 265,000</li>
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<li>Then I faceted by user agent and found
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<ul>
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<li>1,000 hits by <code>insomnia/2022.2.1</code>, which I also saw last month and submitted to COUNTER-Robots</li>
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<li>265 hits by <code>omgili/0.5 +http://omgili.com</code></li>
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<li>150 hits by <code>Vizzit</code></li>
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<li>132 hits by <code>MetaInspector/5.7.0 (+https://github.com/jaimeiniesta/metainspector)</code></li>
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<li>73 hits by <code>Scoop.it</code></li>
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<li>62 hits by <code>bitdiscovery</code></li>
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<li>59 hits by <code>Asana/1.4.0 WebsiteMetadataRetriever</code></li>
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<li>32 hits by <code>Sprout Social (Link Attachment)</code></li>
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<li>29 hits by <code>CyotekWebCopy/1.9 CyotekHTTP/6.2</code></li>
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<li>20 hits by <code>Hootsuite-Authoring/1.0</code></li>
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</ul>
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</li>
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<li>I purged about 4,100 hits from these user agents</li>
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<li>Run all system updates on AReS server (linode20) and reboot</li>
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<li>I want to try to update some of the build dependencies of OpenRXV since Node.js 12 is no longer supported</li>
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<li>Upgrade linode20 to Ubuntu 22.04 and start an AReS harvest</li>
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<li>I merged the <a href="https://github.com/DSpace/DSpace/pull/8292">Mirage 2 build fix</a> to <code>dspace-6_x</code> for DSpace 6.4</li>
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</ul>
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<h2 id="2022-06-07">2022-06-07</h2>
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<ul>
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<li>I tested Node.js 14 one more time with vanilla DSpace 6.4-SNAPSHOT and with the CGSpace source and it worked well
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<ul>
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<li>I made <a href="https://github.com/DSpace/DSpace/pull/8331">a pull request</a> to DSpace to use Node.js 14 for Mirage 2</li>
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<li>I even tested Node.js 16 and it works, but that is enough for now…</li>
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</ul>
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</li>
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</ul>
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<h2 id="2022-06-08">2022-06-08</h2>
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<ul>
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<li>Work on AReS a bit since I wasn’t able to harvest after doing the updates on the server and in the containers a few days ago
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<ul>
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<li>I don’t know what the problem was really, but on the server I had to enable IPv4 forwarding so the frontend container would build</li>
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<li>Once I downed and upped AReS with docker-compose I was able to start a new harvest</li>
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<li>I also did some tests to enable ES2020 target in the backend because we’re on Node.js 14 there now</li>
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</ul>
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</li>
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</ul>
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<h2 id="2022-06-13">2022-06-13</h2>
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<ul>
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<li>Create a user for Mohammed Salem to test MEL submission on DSpace Test:</li>
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</ul>
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<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>$ dspace user -a -m mel-submit@cgiar.org -g MEL -s Submit -p <span style="color:#e6db74">'owwwwwwww'</span>
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</span></span></code></pre></div><ul>
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<li>According to my notes from <a href="/cgspace-notes/2020-10/">2020-10</a> the account must be in the admin group in order to submit via the REST API</li>
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</ul>
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<h2 id="2022-06-14">2022-06-14</h2>
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<ul>
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<li>Start a harvest on AReS</li>
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</ul>
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<h2 id="2022-06-16">2022-06-16</h2>
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<ul>
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<li>Francesca asked us to add the CC-BY-3.0-IGO license to the submission form on CGSpace
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<ul>
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<li>I remember I <a href="https://github.com/spdx/license-list-XML/issues/767">had requested SPDX to add CC-BY-NC-ND-3.0-IGO</a> in 2019-02, and they finally <a href="https://github.com/spdx/license-list-XML/pull/1068">merged it</a> in 2020-07, but I never added it to CGSpace</li>
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<li>I will add the full suite of CC 3.0 IGO licenses to CGSpace and then make a request to SPDX for the others:
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- CC-BY-3.0-IGO
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- CC-BY-SA-3.0-IGO
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- CC-BY-ND-3.0-IGO
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- CC-BY-NC-3.0-IGO
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- CC-BY-NC-SA-3.0-IGO
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- CC-BY-NC-ND-3.0-IGO</li>
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</ul>
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</li>
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<li>I filed <a href="https://github.com/spdx/license-list-XML/issues/1525">an issue asking for SPDX to add CC-BY-3.0-IGO</a></li>
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<li>Meeting with Moayad from CodeObia to discuss OpenRXV
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<ul>
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<li>He added the ability to use multiple indexes / dashboards, and to be able to embed them in iframes</li>
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</ul>
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</li>
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<li>Add <code>cg.contributor.initiative</code> with a controlled vocabulary based on CLARISA’s list to the CGSpace submission form</li>
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<li>Switch to the <code>linux-virtual-hwe-20.04</code> kernel on CGSpace (linode18), run all system updates, and reboot</li>
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</ul>
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<h2 id="2022-06-17">2022-06-17</h2>
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<ul>
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<li>I noticed a few ORCID identifiers missing for some scientists so I added them to the controlled vocabulary and then tagged them on CGSpace:</li>
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</ul>
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<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 2022-06-17-add-orcids.csv
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</span></span><span style="display:flex;"><span>dc.contributor.author,cg.creator.identifier
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</span></span><span style="display:flex;"><span>"Tijjani, A.","Abdulfatai Tijjani: 0000-0002-0793-9059"
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</span></span><span style="display:flex;"><span>"Tijjani, Abdulfatai","Abdulfatai Tijjani: 0000-0002-0793-9059"
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</span></span><span style="display:flex;"><span>"Mrode, Raphael A.","Raphael Mrode: 0000-0003-1964-5653"
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</span></span><span style="display:flex;"><span>"Okeyo Mwai, Ally","Ally Okeyo Mwai: 0000-0003-2379-7801"
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</span></span><span style="display:flex;"><span>"Ojango, Julie M.K.","Ojango J.M.K.: 0000-0003-0224-5370"
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</span></span><span style="display:flex;"><span>"Prendergast, J.G.D.","James Prendergast: 0000-0001-8916-018X"
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</span></span><span style="display:flex;"><span>"Ekine-Dzivenu, Chinyere","Chinyere Ekine-Dzivenu: 0000-0002-8526-435X"
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</span></span><span style="display:flex;"><span>"Ekine, C.","Chinyere Ekine-Dzivenu: 0000-0002-8526-435X"
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</span></span><span style="display:flex;"><span>"Ekine-Dzivenu, C.C","Chinyere Ekine-Dzivenu: 0000-0002-8526-435X"
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</span></span><span style="display:flex;"><span>"Shilomboleni, Helena","Helena Shilomboleni: 0000-0002-9875-6484"
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</span></span><span style="display:flex;"><span>$ ./ilri/add-orcid-identifiers-csv.py -i /tmp/2022-06-17-add-orcids.csv -db dspace -u dspace -p <span style="color:#e6db74">'fuuu'</span> | tee /tmp/orcids.log
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</span></span><span style="display:flex;"><span>$ grep -c <span style="color:#e6db74">'Adding ORCID'</span> /tmp/orcids2.log
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</span></span><span style="display:flex;"><span>304
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</span></span></code></pre></div><ul>
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<li>Also make some changes to the Discovery facets and item view
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<ul>
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<li>I reduced the number of items to show for CRP facets from 20 to 5</li>
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<li>I added a facet for the Initiatives</li>
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<li>I re-organized a few parts of the item view to add Action Areas and the list of author affiliations</li>
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</ul>
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</li>
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</ul>
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<h2 id="2022-06-18">2022-06-18</h2>
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<ul>
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<li>I deployed the changes on CGSpace and started a full Discovery index for the new Initiatives facet</li>
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<li>Run <code>dspace cleanup -v</code> on CGSpace</li>
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</ul>
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<h2 id="2022-06-20">2022-06-20</h2>
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<ul>
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<li>Add missing ORCID identifier for ILRI staff to CGSpace and tag their items</li>
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</ul>
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<h2 id="2022-06-21">2022-06-21</h2>
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<ul>
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<li>Work on OpenRXV backend dependencies
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<ul>
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<li>Update Elasticsearch and TypeScript and eslint</li>
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</ul>
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</li>
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<li>Sit in on webinar about contributing terms to AGROVOC
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<ul>
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<li>I agreed that I would send Sara Jani from ICARDA a list of new terms we have that don’t match AGROVOC by end of June</li>
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<li>I need to indicate which center is using them so we can have an appropriate expert review the terms</li>
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</ul>
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</li>
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</ul>
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<h2 id="2022-06-22">2022-06-22</h2>
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<ul>
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<li>I re-deployed AReS with the latest OpenRXV changes then started a fresh harvest</li>
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<li>Meeting with Salem to discuss metadata between CGSpace and MEL
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<ul>
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<li>We started working through his spreadsheet and then the Internet dropped</li>
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</ul>
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</li>
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</ul>
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<h2 id="2022-06-23">2022-06-23</h2>
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<ul>
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<li>Start looking at country names between MEL, CGSpace, and standards like UN M.49 and GeoNames
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<ul>
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<li>I used <code>xmllint</code> to extract the countries from CGSpace’s input forms:</li>
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</ul>
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</li>
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</ul>
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<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>$ xmllint --xpath <span style="color:#e6db74">'//value-pairs[@value-pairs-name="countrylist"]/pair/stored-value/node()'</span> dspace/config/input-forms.xml > /tmp/cgspace-countries.txt
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</span></span></code></pre></div><ul>
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<li>Then I wrote a Python script (<code>countries-to-csv.py</code>) to read them and save their names alongside the ISO 3166-1 Alpha2 code</li>
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<li>Then I joined them with the other lists:</li>
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</ul>
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<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>$ csvjoin --outer -c alpha2 ~/Downloads/clarisa-countries.csv ~/Downloads/UNSD<span style="color:#ae81ff">\ </span>—<span style="color:#ae81ff">\ </span>Methodology.csv ~/Downloads/geonames-countries.csv /tmp/cgspace-countries.csv /tmp/mel-countries.csv> /tmp/countries.csv
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</span></span></code></pre></div><ul>
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<li>This mostly worked fine, and is much easier than writing another Python script with Pandas…</li>
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</ul>
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<h2 id="2022-06-24">2022-06-24</h2>
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<ul>
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<li>Spent some more time working on my <code>countries-to-csv.py</code> script to fix some logic errors</li>
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<li>Then re-export the UN M.49 countries to a clean list because the one I did yesterday somehow has errors:</li>
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</ul>
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<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>csvcut -d ';' -c 'ISO-alpha2 Code,Country or Area' ~/Downloads/UNSD\ —\ Methodology.csv | sed -e '1s/ISO-alpha2 Code/alpha2/' -e '1s/Country or Area/UN M.49 Name/' > ~/Downloads/un-countries.csv
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</span></span></code></pre></div><ul>
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<li>Check the number of lines in each file:</li>
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</ul>
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<pre tabindex="0"><code>$ wc -l clarisa-countries.csv un-countries.csv cgspace-countries.csv mel-countries.csv
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250 clarisa-countries.csv
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250 un-countries.csv
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198 cgspace-countries.csv
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258 mel-countries.csv
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</code></pre><ul>
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<li>I am seeing strange results with csvjoin’s <code>--outer</code> join that I need to keep unmatched terms from both left and right files…
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<ul>
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<li>Using <code>xsv join --full</code> is giving me better results:</li>
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</ul>
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</li>
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</ul>
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<pre tabindex="0"><code>$ xsv join --full alpha2 ~/Downloads/clarisa-countries.csv alpha2 ~/Downloads/un-countries.csv | xsv select '!alpha2[1]' > /tmp/clarisa-un-xsv-full.csv
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</code></pre><ul>
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<li>Then adding the CGSpace and MEL countries:</li>
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</ul>
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<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>$ xsv join --full alpha2 /tmp/clarisa-un-xsv-full.csv alpha2 /tmp/cgspace-countries.csv | xsv <span style="color:#66d9ef">select</span> <span style="color:#e6db74">'!alpha2[1]'</span> > /tmp/clarisa-un-cgspace-xsv-full.csv
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</span></span><span style="display:flex;"><span>$ xsv join --full alpha2 /tmp/clarisa-un-cgspace-xsv-full.csv alpha2 /tmp/mel-countries.csv | xsv <span style="color:#66d9ef">select</span> <span style="color:#e6db74">'!alpha2[1]'</span> > /tmp/clarisa-un-cgspace-mel-xsv-full.csv
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</span></span></code></pre></div><!-- raw HTML omitted -->
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</article>
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<aside class="col-sm-3 ml-auto blog-sidebar">
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<section class="sidebar-module">
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<h4>Recent Posts</h4>
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<ol class="list-unstyled">
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<li><a href="/cgspace-notes/2022-06/">June, 2022</a></li>
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<li><a href="/cgspace-notes/2022-05/">May, 2022</a></li>
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<li><a href="/cgspace-notes/2022-04/">April, 2022</a></li>
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<li><a href="/cgspace-notes/2022-03/">March, 2022</a></li>
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<li><a href="/cgspace-notes/2022-02/">February, 2022</a></li>
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</section>
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<section class="sidebar-module">
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<h4>Links</h4>
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<ol class="list-unstyled">
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<li><a href="https://cgspace.cgiar.org">CGSpace</a></li>
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<li><a href="https://dspacetest.cgiar.org">DSpace Test</a></li>
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<li><a href="https://github.com/ilri/DSpace">CGSpace @ GitHub</a></li>
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</ol>
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