<html>
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<meta http-equiv="Content-Type" content="text/html; charset=utf-8">
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<div>Hi Chris,</div>
<div><br>
</div>
<div>I have made the changes you suggested and they seem to be working will push back to GitHub once I have had a chance to fully review them. I have added something to perl_lib/EPrints/Citation/EPC.pm that looks out for the start of a citation that looks
like this:</div>
<div><br>
</div>
<div><cite:citation xmlns:xhtml="<a href="https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.w3.org%2F1999%2Fxhtml&data=01%7C01%7C%7C5438f7c1042c4025b2c908d6f6667b27%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&sdata=Hy%2B2t25AgTZbyVqNp22nXxEHnyDFzsNYv1GqriFGCQk%3D&reserved=0" originalsrc="http://www.w3.org/1999/xhtml" shash="YtNCIrSdsoK1Shx+5roOTuDIGKa1uv3ZOeqtRS+IRdbPyAJtZIyfJh1ZyQfgSBe1b7HjPSY8qb+Uo33FVfP6viRT52/+uG1HC7bfoeC/peQxMeH1alZhKreqKoSpG+Js7aYccgWegEYT0dbkStuAXcmvjmzjx1cVZzqrYJxoodQ=">http://www.w3.org/1999/xhtml</a>"
xmlns="http://eprints.org/ep3/control" xmlns:cite="http://eprints.org/ep3/citation"
<b>cite:disable-caching="yes"</b>></div>
<div><br>
</div>
<div>This is very much like the code already present that looks for trim-whitespace.</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>David Newman</div>
<div><br>
</div>
<div>On Wed, 2019-06-05 at 10:20 +0000, Newman D.R. via Eprints-tech wrote:</div>
<blockquote type="cite">
<div>Hi Chris,</div>
<div><br>
</div>
<div>If it is preloaded this is less of an issue, I will have a look to see</div>
<div>how such a variable could be stored as part of this preload.</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>David Newman</div>
<div><br>
</div>
<div>On Wed, 2019-06-05 at 10:44 +0100, Christöpher Gutteridge wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div>Citation XML files are loaded in advance, so that's not an issue:</div>
<div><br>
</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit</div>
<div>hub.com%2Feprints%2Feprints%2Fblob%2F3.3%2Fperl_lib%2FEPrints%2FRepos</div>
<div>itory.pm%23L260&amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C47cbfa6d63</div>
<div>684db04f2f08d6e99a710b%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&amp;sda</div>
<div>ta=hDezkbYKSdim%2FgKrTv%2BUtxByE%2BX9OWaIKBDde9t9Cr4%3D&amp;reserved=</div>
<div>0</div>
<div><br>
</div>
<div>You'd need to detect the flag in</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit</div>
<div>hub.com%2Feprints%2Feprints%2Fblob%2F3.3%2Fperl_lib%2FEPrints%2FRepos</div>
<div>itory.pm%23L1001&amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C47cbfa6d6</div>
<div>3684db04f2f08d6e99a710b%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&amp;sd</div>
<div>ata=5rTcT9srOgaFIypGq1GUj1Y6yja0MxQ6dfckenju7ww%3D&amp;reserved=0</div>
<div>somehow.</div>
<div><br>
</div>
<div>I know it feels easier to put the "no cache" config elsewhere but it</div>
<div>really should be part of the citation file itself.</div>
<div><br>
</div>
<div><br>
</div>
<div>On 05/06/2019 10:21, Newman D.R. wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>Hi Chris,</div>
<div><br>
</div>
<div> From a repository admin's point of view I can see this being the</div>
<div>easiest and probably most obvious way of stating it should not be</div>
<div>cached. I am just not sure how much of an impact there would be</div>
<div>having</div>
<div>to load the citation file each time before making a decision.</div>
<div> Maybe</div>
<div>there is something that caches this periodically (i.e. at the start</div>
<div>of</div>
<div>when generate_views runs and when EPrints is reloaded in Apache).</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>David Newman</div>
<div><br>
</div>
<div>On Fri, 2019-05-31 at 13:46 +0100, Christöpher Gutteridge wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>I would suggest that the exception should be added to the</div>
<div>citation</div>
<div>file.</div>
<div>The issue.xml citation is part of /lib/ so can easily be modified</div>
<div>in</div>
<div>an</div>
<div>upgrade, which was why that was designed that way.</div>
<div><br>
</div>
<div>On 31/05/2019 13:02, Newman D.R. wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>Hi Chris,</div>
<div><br>
</div>
<div>Thanks for the info. I will look into it. I was certainly</div>
<div>thinking</div>
<div>that citation.pl should probably be called citation_caching.pl.</div>
<div><br>
</div>
<div>Contextual citations may be an interesting edge case to deal</div>
<div>with.</div>
<div> Is</div>
<div>this something that is likely will be present for all modern</div>
<div>repositories or just the odd few? I can add an exceptions list</div>
<div>based</div>
<div>on DataObj type and citation name (e.g. user, eprint, etc. and</div>
<div>default,</div>
<div>brief, etc.).</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>David Newman</div>
<div><br>
</div>
<div>On Fri, 2019-05-31 at 12:08 +0100, Christöpher Gutteridge</div>
<div>wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>I would suggest maybe calling it CitationCache to make it</div>
<div>less</div>
<div>confusing</div>
<div>as much of the documentation uses "citation" to refer to the</div>
<div>citation</div>
<div>configuration files.</div>
<div><br>
</div>
<div>I seem to recall from when I looked into this years ago that</div>
<div>there's</div>
<div>a</div>
<div>few citations that should not be cached as they have</div>
<div>contextual</div>
<div>information. eg.</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=https%3A%</div>
<div>2F%2</div>
<div>Fgit</div>
<div>hub.com%2Feprints%2Feprints%2Fblob%2F3.3%2Flib%2Fcitations%2F</div>
<div>epri</div>
<div>nt%2</div>
<div>Fissue.xml&amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7Cdcea7f6</div>
<div>6450</div>
<div>f41b</div>
<div>7810a08d6e5b85b53%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&amp;</div>
<div>sdat</div>
<div>a=Ve</div>
<div>hZmkq%2BhGtlV2BoXyoF3Y9hn2zyBc0ki%2FcLJVyYCsA%3D&amp;reserved</div>
<div>=0</div>
<div><br>
</div>
<div>On 31/05/2019 12:01, Newman D.R. wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>Hi all,</div>
<div><br>
</div>
<div>As promised here is the code that I wrote for citation</div>
<div>caching:</div>
<div><br>
</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=https%3</div>
<div>A%2F</div>
<div>%2Fg</div>
<div>ithub.com%2Feprints%2Feprints3.4%2Fcommit%2F6aedd1c2b1ba4ce</div>
<div>68fc</div>
<div>eb5c</div>
<div>da5&amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7Cdcea7f66450f</div>
<div>41b7</div>
<div>810a</div>
<div>08d6e5b85b53%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&amp;sda</div>
<div>ta=d</div>
<div>IoNV</div>
<div>ArFilGXLssfRvSqnwCLQcA7Jfc43o9I98shzGw%3D&amp;reserved=0</div>
<div>c16545a72b9d53</div>
<div><br>
</div>
<div>You need to copy default_zero/cfg.d/citations.pl to your</div>
<div>local</div>
<div>archive</div>
<div>and set enabled to 1. You then need to run epadmin update</div>
<div>to</div>
<div>create</div>
<div>the Citation dataset.</div>
<div><br>
</div>
<div>I have found that on large browse view listing (e.g. 400-</div>
<div>500)</div>
<div>if</div>
<div>the</div>
<div>citations are already cached I get an improvement from a 6</div>
<div>second</div>
<div>load</div>
<div>time to 2 seconds. However, if the citations need caching</div>
<div>before</div>
<div>the</div>
<div>browse view can be generated then the first load time is 10</div>
<div>seconds.</div>
<div> However, this will be a one off unless you run the</div>
<div>refresh_citations</div>
<div>epadmin command that works like refresh_abstracts but for</div>
<div>citations.</div>
<div><br>
</div>
<div>Please feel free to try out and ask any questions. I have</div>
<div>done</div>
<div>some</div>
<div>basic testing on it but I think it is a little way of</div>
<div>deploying</div>
<div>in</div>
<div>a</div>
<div>production environment. I would want to be confident that</div>
<div>citations</div>
<div>are always cleared when an EPrints is modified, which</div>
<div>should</div>
<div>always</div>
<div>be</div>
<div>the case but might be susceptible to race conditions where</div>
<div>the</div>
<div>cache is</div>
<div>not cleared in time and the old cached citation is used</div>
<div>rather</div>
<div>than</div>
<div>generating a new one.</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>David Newman</div>
<div><br>
</div>
<div>On Thu, 2019-05-16 at 14:35 +0000, Newman D.R. via Eprints-</div>
<div>tech</div>
<div>wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>Hi Chris,</div>
<div><br>
</div>
<div>I have implemented this but it is still under testing to</div>
<div>see</div>
<div>how</div>
<div>much</div>
<div>it speeds things up. I will see if I can make this</div>
<div>available</div>
<div>as</div>
<div>a</div>
<div>branch on GitHub at some point. However, I seem to be</div>
<div>already</div>
<div>being</div>
<div>two jobs at the moment. So doing interesting EPrints</div>
<div>development</div>
<div>rather than basic additional functionality and bug fixing</div>
<div>is</div>
<div>a</div>
<div>bit of</div>
<div>a</div>
<div>luxury time does not afford.</div>
<div><br>
</div>
<div>Regards</div>
<div><br>
</div>
<div>David Newman</div>
<div><br>
</div>
<div>On Thu, 2019-05-16 at 14:25 +0000, Christöpher Gutteridge</div>
<div>via</div>
<div>Eprints-</div>
<div>tech wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>We should have made something long ago which can cache</div>
<div>the</div>
<div>rendered</div>
<div>versions of citations and Export plugins for single</div>
<div>items,</div>
<div>and</div>
<div>invalidated the cache when records are altered or the</div>
<div>config is</div>
<div>changed... would speed up everything a load.</div>
<div>(Sorry, I sketched the idea years ago and never</div>
<div>implemented</div>
<div>it)</div>
<div>On 16/05/2019 15:08, John Salter via Eprints-tech</div>
<div>wrote:</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div>The database takes a big hit for OAI-PMH requests</div>
<div>that</div>
<div>include</div>
<div>hyper-authored papers.</div>
<div>We have a block of 100 records that contains ~10</div>
<div>ATLAS</div>
<div>research</div>
<div>papers - each with 3,000+ authors.</div>
<div>This takes a while to generate the XML response</div>
<div>(there's</div>
<div>*a</div>
<div>lot*</div>
<div>of</div>
<div>nodes that get created).</div>
<div><br>
</div>
<div>I've got this EPScript addition to limit the authors</div>
<div>in a</div>
<div>citation</div>
<div>(it's not perfect - I should have used a couple of</div>
<div>phrases in</div>
<div>there</div>
<div>- if I was going to share it formally).</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=h</div>
<div>ttps</div>
<div>%3A%</div>
<div>2F%2</div>
<div>Fgist.github.com%2Fjesusbagpuss%2Ffbec13d9986fba8e93b</div>
<div>56ae</div>
<div>5ba3</div>
<div>4c1&</div>
<div>amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C17a35c5698</div>
<div>f246</div>
<div>85c2</div>
<div>b408</div>
<div>d6da0bc70f%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&amp</div>
<div>;sda</div>
<div>ta=l</div>
<div>7wL8</div>
<div>BnRgf8EA7E3SxuGBraA1Y%2BjALC8VfrCLI2H4Mc%3D&amp;reser</div>
<div>ved=</div>
<div>0</div>
<div>64</div>
<div><br>
</div>
<div>On our summary page we also have the full author list</div>
<div>displayed.</div>
<div>For us, the issue we're concerned about is that when</div>
<div>we</div>
<div>have</div>
<div>a</div>
<div>paper with loads of authors, if someone editing the</div>
<div>item</div>
<div>visits a</div>
<div>workflow stage with the authors on it, it takes</div>
<div>*ages* to</div>
<div>do</div>
<div>anything.</div>
<div><br>
</div>
<div>Our repo staff want to retain the complete author</div>
<div>list -</div>
<div>so</div>
<div>I'll</div>
<div>continue looking down the 'improved input methods'</div>
<div>path</div>
<div>rather</div>
<div>than</div>
<div>'truncate from source' option.</div>
<div><br>
</div>
<div>Cheers,</div>
<div>John</div>
<div><br>
</div>
<div>From: <a href="mailto:eprints-tech-bounces@ecs.soton.ac.uk">eprints-tech-bounces@ecs.soton.ac.uk</a></div>
<div>[mailto:eprints-</div>
<div>tech-</div>
<div>bou</div>
<div><a href="mailto:nces@ecs.soton.ac.uk">nces@ecs.soton.ac.uk</a>] On Behalf Of martin.braendle---</div>
<div>via</div>
<div>Eprints-</div>
<div>tech</div>
<div>Sent: 16 May 2019 14:36</div>
<div>To: John Salter <<a href="mailto:J.Salter@leeds.ac.uk">J.Salter@leeds.ac.uk</a>></div>
<div>Cc: <a href="mailto:eprints-tech@ecs.soton.ac.uk">eprints-tech@ecs.soton.ac.uk</a></div>
<div>Subject: [EP-tech] Antwort: RE: Hyperauthorship</div>
<div><br>
</div>
<div>Hi,</div>
<div><br>
</div>
<div>we thought of limiting the rendering, too. However,</div>
<div>in</div>
<div>that</div>
<div>case,</div>
<div>the database has to deliver the author records before</div>
<div>the</div>
<div>limit</div>
<div>is</div>
<div>applied, which involves a performance penalty. Anyone</div>
<div>who</div>
<div>had</div>
<div>to</div>
<div>deal with a 2000 author item in EPrints can tell what</div>
<div>this is</div>
<div>like.</div>
<div>That's why we decided to limit on input already.</div>
<div><br>
</div>
<div>Cheers,</div>
<div><br>
</div>
<div>Martin</div>
<div><br>
</div>
<div>"John Salter" ---16.05.2019 14:36:13---Hi Martin,</div>
<div>Interesting</div>
<div>approach. The records I'm, looking at all come via</div>
<div>Symplectic</div>
<div>or</div>
<div>Pure - and w</div>
<div><br>
</div>
<div>Von: "John Salter" <<a href="mailto:J.Salter@leeds.ac.uk">J.Salter@leeds.ac.uk</a>></div>
<div>An: "<a href="mailto:martin.braendle@id.uzh.ch">martin.braendle@id.uzh.ch</a>" <martin.braendle@id.u</div>
<div>zh.c</div>
<div>h>,</div>
<div>"eprin</div>
<div><a href="mailto:ts-tech@ecs.soton.ac.uk">ts-tech@ecs.soton.ac.uk</a>" <eprints-tech@ecs.soton.ac.u</div>
<div>k></div>
<div>Datum: 16.05.2019 14:36</div>
<div>Betreff: RE: [EP-tech] Hyperauthorship</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div>Hi Martin,</div>
<div>Interesting approach. The records I'm, looking at all</div>
<div>come</div>
<div>via</div>
<div>Symplectic or Pure - and we could implement some form</div>
<div>of</div>
<div>limit to</div>
<div>the number of authors - and retain any that are</div>
<div>'resolved'</div>
<div>(local)</div>
<div>authors.</div>
<div><br>
</div>
<div>I was thinking of changing the default input</div>
<div>rendering</div>
<div>for</div>
<div>the</div>
<div>creator field along these lines:</div>
<div>If there are < LIMIT authors, render input as</div>
<div>currently</div>
<div>exists</div>
<div>If there are > LIMIT authors, render a static list of</div>
<div>them,</div>
<div>and</div>
<div>enhance with javascript to allow editing of specific</div>
<div>entries</div>
<div>/</div>
<div>re-</div>
<div>ordering / searching filtering the list.</div>
<div><br>
</div>
<div>This could even be deployed as a separate workflow</div>
<div>stage</div>
<div>(which</div>
<div>only appears when there are > LIMIT authors).</div>
<div><br>
</div>
<div>I'll have to see what people here think about</div>
<div>limiting</div>
<div>the</div>
<div>author</div>
<div>list on the way in to EPrints - that sounds like a</div>
<div>better</div>
<div>place</div>
<div>to</div>
<div>be…</div>
<div><br>
</div>
<div>Cheers,</div>
<div>John</div>
<div><br>
</div>
<div><br>
</div>
<div>From: <a href="mailto:martin.braendle@id.uzh.ch">martin.braendle@id.uzh.ch</a> [mailto:martin.braend</div>
<div><a href="mailto:le@i">le@i</a></div>
<div>d.uz</div>
<div>h.ch</div>
<div>]</div>
<div>Sent: 16 May 2019 13:22</div>
<div>To: <a href="mailto:eprints-tech@ecs.soton.ac.uk">eprints-tech@ecs.soton.ac.uk</a>; John Salter <J.Salt</div>
<div><a href="mailto:er@l">er@l</a></div>
<div>eeds</div>
<div>.ac.</div>
<div>uk</div>
<blockquote type="cite">
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
</blockquote>
<div>Subject: Re: [EP-tech] Hyperauthorship</div>
<div><br>
</div>
<div>Hi John,</div>
<div><br>
</div>
<div>we have a lot of high energy physics or biomedical</div>
<div>articles</div>
<div>with</div>
<div>hundreds or thousands of authors. Usually, those are</div>
<div>submitted</div>
<div>via</div>
<div>CrossRef or PubMed import.</div>
<div><br>
</div>
<div>We have adapted the corresponding import plugins to</div>
<div>limit</div>
<div>the</div>
<div>number of authors by a configurable limit (in our</div>
<div>case</div>
<div>30).</div>
<div>If</div>
<div>the</div>
<div>limit is exceeded, "et al" is added as</div>
<div>the ($limit+1)th</div>
<div>author,</div>
<div>the remaining authors are not imported and a warning</div>
<div>message</div>
<div>is</div>
<div>issued. Submitters are then still free to add the</div>
<div>remaining</div>
<div>UZH</div>
<div>authors manually and use et al for authors outside of</div>
<div>UZH.</div>
<div><br>
</div>
<div>Instead of the DOI plugin, we have developed a</div>
<div>CrossRef</div>
<div>plugin</div>
<div>that</div>
<div>uses the CrossRef REST API . It implements the author</div>
<div>limitation</div>
<div>as</div>
<div>well. We decided to go with the CrossRef REST API</div>
<div>because</div>
<div>funder</div>
<div>information can be imported from there.</div>
<div><br>
</div>
<div>Best regards,</div>
<div><br>
</div>
<div>Martin</div>
<div><br>
</div>
<div>--</div>
<div>Dr. Martin Brändle</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=h</div>
<div>ttps</div>
<div>%3A%</div>
<div>2F%2</div>
<div>Forcid.org%2F0000-0002-7752-</div>
<div>6567&amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C17a35</div>
<div>c569</div>
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<div>rese</div>
<div>rved</div>
<div>=0</div>
<div>Zentrale Informatik</div>
<div>Universität Zürich</div>
<div>Stampfenbachstr. 73</div>
<div>CH-8006 Zürich</div>
<div><br>
</div>
<div>"John Salter via Eprints-tech" ---16.05.2019</div>
<div>14:00:41---</div>
<div>Hi,</div>
<div>Has</div>
<div>anyone done any work on making the EPrints workflow a</div>
<div>bit</div>
<div>more</div>
<div>sensible when a paper has man</div>
<div><br>
</div>
<div>Von: "John Salter via Eprints-tech" <eprints-tech@ecs</div>
<div>.sot</div>
<div>on.a</div>
<div>c.uk</div>
<div>An: "<a href="mailto:'eprints-tech@ecs.soton.ac.uk">'eprints-tech@ecs.soton.ac.uk</a>'" <eprints-tech@ec</div>
<div>s.so</div>
<div>ton.</div>
<div>ac.u</div>
<div>k></div>
<div>Datum: 16.05.2019 14:00</div>
<div>Betreff: [EP-tech] Hyperauthorship</div>
<div>Gesendet von: <<a href="mailto:eprints-tech-bounces@ecs.soton.ac.uk">eprints-tech-bounces@ecs.soton.ac.uk</a>></div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div>Hi,</div>
<div>Has anyone done any work on making the EPrints</div>
<div>workflow a</div>
<div>bit</div>
<div>more</div>
<div>sensible when a paper has many authors (hundreds or</div>
<div>thousands)?</div>
<div><br>
</div>
<div>Cheers,</div>
<div>John</div>
<div><br>
</div>
<div><br>
</div>
<div>John Salter</div>
<div>https://eur03.safelinks.protection.outlook.com/?url=h</div>
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<div>serv</div>
<div>ed=0</div>
<div><br>
</div>
<div>White Rose Libraries Technical Officer</div>
<div>IT - Application Support (Research)</div>
<div>10.23B, IT Services Building</div>
<div>University of Leeds</div>
<div>Leeds</div>
<div>LS2 9JT</div>
<div>0113 34 37385</div>
<div><br>
</div>
<div>Online: https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Feur03.safelinks.protection.outlook.co&amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7Ca47fcb2e92364aab01d108d6e99f7d6e%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&amp;sdata=DTQisNOzVXoGMTPMSiDd621iMOGveelMiLfhsBEucG4%3D&amp;reserved=0</div>
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