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Update notes for 2019-03-31

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Alan Orth 2019-03-31 17:35:28 +03:00
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25
content/posts/2019-03.md
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@ -990,11 +990,11 @@ $ grep -I -c 45.5.184.72 dspace.log.2019-03-26
![linode18 CPU usage after migration](/cgspace-notes/2019/03/cpu-week-migrated.png) ![linode18 CPU usage after migration](/cgspace-notes/2019/03/cpu-week-migrated.png)
- It is frustrating to see that the load spikes for own own legitimate load on the server were *very* aggravated and drawn out by the contention for CPU on this host - It is frustrating to see that the load spikes for own own legitimate load on the server were *very* aggravated and drawn out by the contention for CPU on this host
- We had 4.1 million hits this month according to the web server logs: - We had almost 4.2 million hits this month according to the web server logs:
``` ```
# time zcat --force /var/log/nginx/* | grep -cE "[0-9]{1,2}/Mar/2019" # time zcat --force /var/log/nginx/* | grep -cE "[0-9]{1,2}/Mar/2019"
4121682 4170986
real 0m26.609s real 0m26.609s
user 0m31.657s user 0m31.657s
@ -1043,7 +1043,26 @@ $ time http --print h 'https://cgspace.cgiar.org/rest/items?expand=metadata,bits
- IWMI people emailed to ask why two items with the same DOI don't have the same Altmetric score: - IWMI people emailed to ask why two items with the same DOI don't have the same Altmetric score:
- https://cgspace.cgiar.org/handle/10568/89846 (Bioversity) - https://cgspace.cgiar.org/handle/10568/89846 (Bioversity)
- https://cgspace.cgiar.org/handle/10568/89975 (CIAT) - https://cgspace.cgiar.org/handle/10568/89975 (CIAT)
- Only the second one has an Altmetric score - Only the second one has an Altmetric score (208)
- I tweeted handles for both of them to see if Altmetric will pick it up - I tweeted handles for both of them to see if Altmetric will pick it up
- About twenty minutes later the Altmetric score for the second one had increased from 208 to 209, but the first still had a score of zero
- Interestingly, if I look at the network requests during page load for the first item I see the following response payload for the Altmetric API request:
```
_altmetric.embed_callback({"title":"Distilling the role of ecosystem services in the Sustainable Development Goals","doi":"10.1016/j.ecoser.2017.10.010","tq":["Progress on 12 of 17 #SDGs rely on #ecosystemservices - new paper co-authored by a number of","Distilling the role of ecosystem services in the Sustainable Development Goals - new paper by @SNAPPartnership researchers","How do #ecosystemservices underpin the #SDGs? Our new paper starts counting the ways. Check it out in the link below!","Excellent paper about the contribution of #ecosystemservices to SDGs","So great to work with amazing collaborators"],"altmetric_jid":"521611533cf058827c00000a","issns":["2212-0416"],"journal":"Ecosystem Services","cohorts":{"sci":58,"pub":239,"doc":3,"com":2},"context":{"all":{"count":12732768,"mean":7.8220956572788,"rank":56146,"pct":99,"higher_than":12676701},"journal":{"count":549,"mean":7.7567299270073,"rank":2,"pct":99,"higher_than":547},"similar_age_3m":{"count":386919,"mean":11.573702536454,"rank":3299,"pct":99,"higher_than":383619},"similar_age_journal_3m":{"count":28,"mean":9.5648148148148,"rank":1,"pct":96,"higher_than":27}},"authors":["Sylvia L.R. Wood","Sarah K. Jones","Justin A. Johnson","Kate A. Brauman","Rebecca Chaplin-Kramer","Alexander Fremier","Evan Girvetz","Line J. Gordon","Carrie V. Kappel","Lisa Mandle","Mark Mulligan","Patrick O'Farrell","William K. Smith","Louise Willemen","Wei Zhang","Fabrice A. DeClerck"],"type":"article","handles":["10568/89975","10568/89846"],"handle":"10568/89975","altmetric_id":29816439,"schema":"1.5.4","is_oa":false,"cited_by_posts_count":377,"cited_by_tweeters_count":302,"cited_by_fbwalls_count":1,"cited_by_gplus_count":1,"cited_by_policies_count":2,"cited_by_accounts_count":306,"last_updated":1554039125,"score":208.65,"history":{"1y":54.75,"6m":10.35,"3m":5.5,"1m":5.5,"1w":1.5,"6d":1.5,"5d":1.5,"4d":1.5,"3d":1.5,"2d":1,"1d":1,"at":208.65},"url":"http://dx.doi.org/10.1016/j.ecoser.2017.10.010","added_on":1512153726,"published_on":1517443200,"readers":{"citeulike":0,"mendeley":248,"connotea":0},"readers_count":248,"images":{"small":"https://badges.altmetric.com/?size=64&score=209&types=tttttfdg","medium":"https://badges.altmetric.com/?size=100&score=209&types=tttttfdg","large":"https://badges.altmetric.com/?size=180&score=209&types=tttttfdg"},"details_url":"http://www.altmetric.com/details.php?citation_id=29816439"})
```
- The response paylod for the second one is the same:
```
_altmetric.embed_callback({"title":"Distilling the role of ecosystem services in the Sustainable Development Goals","doi":"10.1016/j.ecoser.2017.10.010","tq":["Progress on 12 of 17 #SDGs rely on #ecosystemservices - new paper co-authored by a number of","Distilling the role of ecosystem services in the Sustainable Development Goals - new paper by @SNAPPartnership researchers","How do #ecosystemservices underpin the #SDGs? Our new paper starts counting the ways. Check it out in the link below!","Excellent paper about the contribution of #ecosystemservices to SDGs","So great to work with amazing collaborators"],"altmetric_jid":"521611533cf058827c00000a","issns":["2212-0416"],"journal":"Ecosystem Services","cohorts":{"sci":58,"pub":239,"doc":3,"com":2},"context":{"all":{"count":12732768,"mean":7.8220956572788,"rank":56146,"pct":99,"higher_than":12676701},"journal":{"count":549,"mean":7.7567299270073,"rank":2,"pct":99,"higher_than":547},"similar_age_3m":{"count":386919,"mean":11.573702536454,"rank":3299,"pct":99,"higher_than":383619},"similar_age_journal_3m":{"count":28,"mean":9.5648148148148,"rank":1,"pct":96,"higher_than":27}},"authors":["Sylvia L.R. Wood","Sarah K. Jones","Justin A. Johnson","Kate A. Brauman","Rebecca Chaplin-Kramer","Alexander Fremier","Evan Girvetz","Line J. Gordon","Carrie V. Kappel","Lisa Mandle","Mark Mulligan","Patrick O'Farrell","William K. Smith","Louise Willemen","Wei Zhang","Fabrice A. DeClerck"],"type":"article","handles":["10568/89975","10568/89846"],"handle":"10568/89975","altmetric_id":29816439,"schema":"1.5.4","is_oa":false,"cited_by_posts_count":377,"cited_by_tweeters_count":302,"cited_by_fbwalls_count":1,"cited_by_gplus_count":1,"cited_by_policies_count":2,"cited_by_accounts_count":306,"last_updated":1554039125,"score":208.65,"history":{"1y":54.75,"6m":10.35,"3m":5.5,"1m":5.5,"1w":1.5,"6d":1.5,"5d":1.5,"4d":1.5,"3d":1.5,"2d":1,"1d":1,"at":208.65},"url":"http://dx.doi.org/10.1016/j.ecoser.2017.10.010","added_on":1512153726,"published_on":1517443200,"readers":{"citeulike":0,"mendeley":248,"connotea":0},"readers_count":248,"images":{"small":"https://badges.altmetric.com/?size=64&score=209&types=tttttfdg","medium":"https://badges.altmetric.com/?size=100&score=209&types=tttttfdg","large":"https://badges.altmetric.com/?size=180&score=209&types=tttttfdg"},"details_url":"http://www.altmetric.com/details.php?citation_id=29816439"})
```
- Very interesting to see this in the response:
```
"handles":["10568/89975","10568/89846"],
"handle":"10568/89975"
```
<!-- vim: set sw=2 ts=2: --> <!-- vim: set sw=2 ts=2: -->

37
docs/2019-03/index.html
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@ -25,7 +25,7 @@ I think I will need to ask Udana to re-copy and paste the abstracts with more ca
<meta property="og:type" content="article" /> <meta property="og:type" content="article" />
<meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2019-03/" /> <meta property="og:url" content="https://alanorth.github.io/cgspace-notes/2019-03/" />
<meta property="article:published_time" content="2019-03-01T12:16:30&#43;01:00"/> <meta property="article:published_time" content="2019-03-01T12:16:30&#43;01:00"/>
<meta property="article:modified_time" content="2019-03-31T16:25:38&#43;03:00"/> <meta property="article:modified_time" content="2019-03-31T16:43:49&#43;03:00"/>
<meta name="twitter:card" content="summary"/> <meta name="twitter:card" content="summary"/>
<meta name="twitter:title" content="March, 2019"/> <meta name="twitter:title" content="March, 2019"/>
@ -55,9 +55,9 @@ I think I will need to ask Udana to re-copy and paste the abstracts with more ca
"@type": "BlogPosting", "@type": "BlogPosting",
"headline": "March, 2019", "headline": "March, 2019",
"url": "https://alanorth.github.io/cgspace-notes/2019-03/", "url": "https://alanorth.github.io/cgspace-notes/2019-03/",
"wordCount": "6791", "wordCount": "7067",
"datePublished": "2019-03-01T12:16:30&#43;01:00", "datePublished": "2019-03-01T12:16:30&#43;01:00",
"dateModified": "2019-03-31T16:25:38&#43;03:00", "dateModified": "2019-03-31T16:43:49&#43;03:00",
"author": { "author": {
"@type": "Person", "@type": "Person",
"name": "Alan Orth" "name": "Alan Orth"
@ -1298,11 +1298,11 @@ $ ./delete-metadata-values.py -i /tmp/2019-03-26-AGROVOC-79-deletions.csv -db ds
<ul> <ul>
<li>It is frustrating to see that the load spikes for own own legitimate load on the server were <em>very</em> aggravated and drawn out by the contention for CPU on this host</li> <li>It is frustrating to see that the load spikes for own own legitimate load on the server were <em>very</em> aggravated and drawn out by the contention for CPU on this host</li>
<li>We had 4.1 million hits this month according to the web server logs:</li> <li>We had almost 4.2 million hits this month according to the web server logs:</li>
</ul> </ul>
<pre><code># time zcat --force /var/log/nginx/* | grep -cE &quot;[0-9]{1,2}/Mar/2019&quot; <pre><code># time zcat --force /var/log/nginx/* | grep -cE &quot;[0-9]{1,2}/Mar/2019&quot;
4121682 4170986
real 0m26.609s real 0m26.609s
user 0m31.657s user 0m31.657s
@ -1364,10 +1364,33 @@ sys 0m2.551s
<li><a href="https://cgspace.cgiar.org/handle/10568/89846">https://cgspace.cgiar.org/handle/10568/89846</a> (Bioversity)</li> <li><a href="https://cgspace.cgiar.org/handle/10568/89846">https://cgspace.cgiar.org/handle/10568/89846</a> (Bioversity)</li>
<li><a href="https://cgspace.cgiar.org/handle/10568/89975">https://cgspace.cgiar.org/handle/10568/89975</a> (CIAT)</li> <li><a href="https://cgspace.cgiar.org/handle/10568/89975">https://cgspace.cgiar.org/handle/10568/89975</a> (CIAT)</li>
</ul></li> </ul></li>
<li>Only the second one has an Altmetric score</li> <li>Only the second one has an Altmetric score (208)</li>
<li>I tweeted handles for both of them to see if Altmetric will pick it up</li> <li>I tweeted handles for both of them to see if Altmetric will pick it up
<ul>
<li>About twenty minutes later the Altmetric score for the second one had increased from 208 to 209, but the first still had a score of zero</li>
<li>Interestingly, if I look at the network requests during page load for the first item I see the following response payload for the Altmetric API request:</li>
</ul></li>
</ul> </ul>
<pre><code>_altmetric.embed_callback({&quot;title&quot;:&quot;Distilling the role of ecosystem services in the Sustainable Development Goals&quot;,&quot;doi&quot;:&quot;10.1016/j.ecoser.2017.10.010&quot;,&quot;tq&quot;:[&quot;Progress on 12 of 17 #SDGs rely on #ecosystemservices - new paper co-authored by a number of&quot;,&quot;Distilling the role of ecosystem services in the Sustainable Development Goals - new paper by @SNAPPartnership researchers&quot;,&quot;How do #ecosystemservices underpin the #SDGs? Our new paper starts counting the ways. Check it out in the link below!&quot;,&quot;Excellent paper about the contribution of #ecosystemservices to SDGs&quot;,&quot;So great to work with amazing collaborators&quot;],&quot;altmetric_jid&quot;:&quot;521611533cf058827c00000a&quot;,&quot;issns&quot;:[&quot;2212-0416&quot;],&quot;journal&quot;:&quot;Ecosystem Services&quot;,&quot;cohorts&quot;:{&quot;sci&quot;:58,&quot;pub&quot;:239,&quot;doc&quot;:3,&quot;com&quot;:2},&quot;context&quot;:{&quot;all&quot;:{&quot;count&quot;:12732768,&quot;mean&quot;:7.8220956572788,&quot;rank&quot;:56146,&quot;pct&quot;:99,&quot;higher_than&quot;:12676701},&quot;journal&quot;:{&quot;count&quot;:549,&quot;mean&quot;:7.7567299270073,&quot;rank&quot;:2,&quot;pct&quot;:99,&quot;higher_than&quot;:547},&quot;similar_age_3m&quot;:{&quot;count&quot;:386919,&quot;mean&quot;:11.573702536454,&quot;rank&quot;:3299,&quot;pct&quot;:99,&quot;higher_than&quot;:383619},&quot;similar_age_journal_3m&quot;:{&quot;count&quot;:28,&quot;mean&quot;:9.5648148148148,&quot;rank&quot;:1,&quot;pct&quot;:96,&quot;higher_than&quot;:27}},&quot;authors&quot;:[&quot;Sylvia L.R. Wood&quot;,&quot;Sarah K. Jones&quot;,&quot;Justin A. Johnson&quot;,&quot;Kate A. Brauman&quot;,&quot;Rebecca Chaplin-Kramer&quot;,&quot;Alexander Fremier&quot;,&quot;Evan Girvetz&quot;,&quot;Line J. Gordon&quot;,&quot;Carrie V. Kappel&quot;,&quot;Lisa Mandle&quot;,&quot;Mark Mulligan&quot;,&quot;Patrick O'Farrell&quot;,&quot;William K. Smith&quot;,&quot;Louise Willemen&quot;,&quot;Wei Zhang&quot;,&quot;Fabrice A. DeClerck&quot;],&quot;type&quot;:&quot;article&quot;,&quot;handles&quot;:[&quot;10568/89975&quot;,&quot;10568/89846&quot;],&quot;handle&quot;:&quot;10568/89975&quot;,&quot;altmetric_id&quot;:29816439,&quot;schema&quot;:&quot;1.5.4&quot;,&quot;is_oa&quot;:false,&quot;cited_by_posts_count&quot;:377,&quot;cited_by_tweeters_count&quot;:302,&quot;cited_by_fbwalls_count&quot;:1,&quot;cited_by_gplus_count&quot;:1,&quot;cited_by_policies_count&quot;:2,&quot;cited_by_accounts_count&quot;:306,&quot;last_updated&quot;:1554039125,&quot;score&quot;:208.65,&quot;history&quot;:{&quot;1y&quot;:54.75,&quot;6m&quot;:10.35,&quot;3m&quot;:5.5,&quot;1m&quot;:5.5,&quot;1w&quot;:1.5,&quot;6d&quot;:1.5,&quot;5d&quot;:1.5,&quot;4d&quot;:1.5,&quot;3d&quot;:1.5,&quot;2d&quot;:1,&quot;1d&quot;:1,&quot;at&quot;:208.65},&quot;url&quot;:&quot;http://dx.doi.org/10.1016/j.ecoser.2017.10.010&quot;,&quot;added_on&quot;:1512153726,&quot;published_on&quot;:1517443200,&quot;readers&quot;:{&quot;citeulike&quot;:0,&quot;mendeley&quot;:248,&quot;connotea&quot;:0},&quot;readers_count&quot;:248,&quot;images&quot;:{&quot;small&quot;:&quot;https://badges.altmetric.com/?size=64&amp;score=209&amp;types=tttttfdg&quot;,&quot;medium&quot;:&quot;https://badges.altmetric.com/?size=100&amp;score=209&amp;types=tttttfdg&quot;,&quot;large&quot;:&quot;https://badges.altmetric.com/?size=180&amp;score=209&amp;types=tttttfdg&quot;},&quot;details_url&quot;:&quot;http://www.altmetric.com/details.php?citation_id=29816439&quot;})
</code></pre>
<ul>
<li>The response paylod for the second one is the same:</li>
</ul>
<pre><code>_altmetric.embed_callback({&quot;title&quot;:&quot;Distilling the role of ecosystem services in the Sustainable Development Goals&quot;,&quot;doi&quot;:&quot;10.1016/j.ecoser.2017.10.010&quot;,&quot;tq&quot;:[&quot;Progress on 12 of 17 #SDGs rely on #ecosystemservices - new paper co-authored by a number of&quot;,&quot;Distilling the role of ecosystem services in the Sustainable Development Goals - new paper by @SNAPPartnership researchers&quot;,&quot;How do #ecosystemservices underpin the #SDGs? Our new paper starts counting the ways. Check it out in the link below!&quot;,&quot;Excellent paper about the contribution of #ecosystemservices to SDGs&quot;,&quot;So great to work with amazing collaborators&quot;],&quot;altmetric_jid&quot;:&quot;521611533cf058827c00000a&quot;,&quot;issns&quot;:[&quot;2212-0416&quot;],&quot;journal&quot;:&quot;Ecosystem Services&quot;,&quot;cohorts&quot;:{&quot;sci&quot;:58,&quot;pub&quot;:239,&quot;doc&quot;:3,&quot;com&quot;:2},&quot;context&quot;:{&quot;all&quot;:{&quot;count&quot;:12732768,&quot;mean&quot;:7.8220956572788,&quot;rank&quot;:56146,&quot;pct&quot;:99,&quot;higher_than&quot;:12676701},&quot;journal&quot;:{&quot;count&quot;:549,&quot;mean&quot;:7.7567299270073,&quot;rank&quot;:2,&quot;pct&quot;:99,&quot;higher_than&quot;:547},&quot;similar_age_3m&quot;:{&quot;count&quot;:386919,&quot;mean&quot;:11.573702536454,&quot;rank&quot;:3299,&quot;pct&quot;:99,&quot;higher_than&quot;:383619},&quot;similar_age_journal_3m&quot;:{&quot;count&quot;:28,&quot;mean&quot;:9.5648148148148,&quot;rank&quot;:1,&quot;pct&quot;:96,&quot;higher_than&quot;:27}},&quot;authors&quot;:[&quot;Sylvia L.R. Wood&quot;,&quot;Sarah K. Jones&quot;,&quot;Justin A. Johnson&quot;,&quot;Kate A. Brauman&quot;,&quot;Rebecca Chaplin-Kramer&quot;,&quot;Alexander Fremier&quot;,&quot;Evan Girvetz&quot;,&quot;Line J. Gordon&quot;,&quot;Carrie V. Kappel&quot;,&quot;Lisa Mandle&quot;,&quot;Mark Mulligan&quot;,&quot;Patrick O'Farrell&quot;,&quot;William K. Smith&quot;,&quot;Louise Willemen&quot;,&quot;Wei Zhang&quot;,&quot;Fabrice A. DeClerck&quot;],&quot;type&quot;:&quot;article&quot;,&quot;handles&quot;:[&quot;10568/89975&quot;,&quot;10568/89846&quot;],&quot;handle&quot;:&quot;10568/89975&quot;,&quot;altmetric_id&quot;:29816439,&quot;schema&quot;:&quot;1.5.4&quot;,&quot;is_oa&quot;:false,&quot;cited_by_posts_count&quot;:377,&quot;cited_by_tweeters_count&quot;:302,&quot;cited_by_fbwalls_count&quot;:1,&quot;cited_by_gplus_count&quot;:1,&quot;cited_by_policies_count&quot;:2,&quot;cited_by_accounts_count&quot;:306,&quot;last_updated&quot;:1554039125,&quot;score&quot;:208.65,&quot;history&quot;:{&quot;1y&quot;:54.75,&quot;6m&quot;:10.35,&quot;3m&quot;:5.5,&quot;1m&quot;:5.5,&quot;1w&quot;:1.5,&quot;6d&quot;:1.5,&quot;5d&quot;:1.5,&quot;4d&quot;:1.5,&quot;3d&quot;:1.5,&quot;2d&quot;:1,&quot;1d&quot;:1,&quot;at&quot;:208.65},&quot;url&quot;:&quot;http://dx.doi.org/10.1016/j.ecoser.2017.10.010&quot;,&quot;added_on&quot;:1512153726,&quot;published_on&quot;:1517443200,&quot;readers&quot;:{&quot;citeulike&quot;:0,&quot;mendeley&quot;:248,&quot;connotea&quot;:0},&quot;readers_count&quot;:248,&quot;images&quot;:{&quot;small&quot;:&quot;https://badges.altmetric.com/?size=64&amp;score=209&amp;types=tttttfdg&quot;,&quot;medium&quot;:&quot;https://badges.altmetric.com/?size=100&amp;score=209&amp;types=tttttfdg&quot;,&quot;large&quot;:&quot;https://badges.altmetric.com/?size=180&amp;score=209&amp;types=tttttfdg&quot;},&quot;details_url&quot;:&quot;http://www.altmetric.com/details.php?citation_id=29816439&quot;})
</code></pre>
<ul>
<li>Very interesting to see this in the response:</li>
</ul>
<pre><code>&quot;handles&quot;:[&quot;10568/89975&quot;,&quot;10568/89846&quot;],
&quot;handle&quot;:&quot;10568/89975&quot;
</code></pre>
<!-- vim: set sw=2 ts=2: --> <!-- vim: set sw=2 ts=2: -->

10
docs/sitemap.xml
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@ -4,7 +4,7 @@
<url> <url>
<loc>https://alanorth.github.io/cgspace-notes/2019-03/</loc> <loc>https://alanorth.github.io/cgspace-notes/2019-03/</loc>
<lastmod>2019-03-31T16:25:38+03:00</lastmod> <lastmod>2019-03-31T16:43:49+03:00</lastmod>
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<url> <url>
@ -214,7 +214,7 @@
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<loc>https://alanorth.github.io/cgspace-notes/</loc> <loc>https://alanorth.github.io/cgspace-notes/</loc>
<lastmod>2019-03-31T16:25:38+03:00</lastmod> <lastmod>2019-03-31T16:43:49+03:00</lastmod>
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@ -225,7 +225,7 @@
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@ -237,13 +237,13 @@
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<loc>https://alanorth.github.io/cgspace-notes/tags/</loc> <loc>https://alanorth.github.io/cgspace-notes/tags/</loc>
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