Re: [EP-tech] Antwort: RE: Hyperauthorship
"Newman D.R. via Eprints-tech" <[email protected]>
| Newsgroups | gmane.comp.web.eprints.devel |
|---|---|
| Message-ID | <EMEW3|867aa14e2f875eafc07c8f4038ae43a6v4UD3a03drn|ecs.soton.ac.uk|[email protected]> |
Hi Chris, Thanks for the info. I will look into it. I was certainly thinking that citation.pl should probably be called citation_caching.pl. Contextual citations may be an interesting edge case to deal with. Is this something that is likely will be present for all modern repositories or just the odd few? I can add an exceptions list based on DataObj type and citation name (e.g. user, eprint, etc. and default, brief, etc.). Regards David Newman On Fri, 2019-05-31 at 12:08 +0100, Christöpher Gutteridge wrote: > I would suggest maybe calling it CitationCache to make it less > confusing > as much of the documentation uses "citation" to refer to the > citation > configuration files. > > I seem to recall from when I looked into this years ago that there's > a > few citations that should not be cached as they have contextual > information. eg. > https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit > hub.com%2Feprints%2Feprints%2Fblob%2F3.3%2Flib%2Fcitations%2Feprint%2 > Fissue.xml&data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7Cdcea7f66450f41b > 7810a08d6e5b85b53%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&sdata=Ve > hZmkq%2BhGtlV2BoXyoF3Y9hn2zyBc0ki%2FcLJVyYCsA%3D&reserved=0 > > On 31/05/2019 12:01, Newman D.R. wrote: > > > > Hi all, > > > > As promised here is the code that I wrote for citation caching: > > > > https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fg > > ithub.com%2Feprints%2Feprints3.4%2Fcommit%2F6aedd1c2b1ba4ce68fceb5c > > da5&data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7Cdcea7f66450f41b7810a > > 08d6e5b85b53%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&sdata=dIoNV > > ArFilGXLssfRvSqnwCLQcA7Jfc43o9I98shzGw%3D&reserved=0 > > c16545a72b9d53 > > > > You need to copy default_zero/cfg.d/citations.pl to your local > > archive > > and set enabled to 1. You then need to run epadmin update to > > create > > the Citation dataset. > > > > I have found that on large browse view listing (e.g. 400-500) if > > the > > citations are already cached I get an improvement from a 6 second > > load > > time to 2 seconds. However, if the citations need caching before > > the > > browse view can be generated then the first load time is 10 > > seconds. > > However, this will be a one off unless you run the > > refresh_citations > > epadmin command that works like refresh_abstracts but for > > citations. > > > > Please feel free to try out and ask any questions. I have done > > some > > basic testing on it but I think it is a little way of deploying in > > a > > production environment. I would want to be confident that > > citations > > are always cleared when an EPrints is modified, which should always > > be > > the case but might be susceptible to race conditions where the > > cache is > > not cleared in time and the old cached citation is used rather than > > generating a new one. > > > > Regards > > > > David Newman > > > > On Thu, 2019-05-16 at 14:35 +0000, Newman D.R. via Eprints-tech > > wrote: > > > > > > Hi Chris, > > > > > > I have implemented this but it is still under testing to see how > > > much > > > it speeds things up. I will see if I can make this available as > > > a > > > branch on GitHub at some point. However, I seem to be already > > > being > > > two jobs at the moment. So doing interesting EPrints development > > > rather than basic additional functionality and bug fixing is a > > > bit of > > > a > > > luxury time does not afford. > > > > > > Regards > > > > > > David Newman > > > > > > On Thu, 2019-05-16 at 14:25 +0000, Christöpher Gutteridge via > > > Eprints- > > > tech wrote: > > > > > > > > We should have made something long ago which can cache the > > > > rendered > > > > versions of citations and Export plugins for single items, and > > > > invalidated the cache when records are altered or the config is > > > > changed... would speed up everything a load. > > > > (Sorry, I sketched the idea years ago and never implemented it) > > > > On 16/05/2019 15:08, John Salter via Eprints-tech wrote: > > > > > > > > > > The database takes a big hit for OAI-PMH requests that > > > > > include > > > > > hyper-authored papers. > > > > > We have a block of 100 records that contains ~10 ATLAS > > > > > research > > > > > papers - each with 3,000+ authors. > > > > > This takes a while to generate the XML response (there's *a > > > > > lot* > > > > > of > > > > > nodes that get created). > > > > > > > > > > I've got this EPScript addition to limit the authors in a > > > > > citation > > > > > (it's not perfect - I should have used a couple of phrases in > > > > > there > > > > > - if I was going to share it formally). > > > > > https://eur03.safelinks.protection.outlook.com/?url=https%3A% > > > > > 2F%2 > > > > > Fgist.github.com%2Fjesusbagpuss%2Ffbec13d9986fba8e93b56ae5ba3 > > > > > 4c1& > > > > > amp;data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C17a35c5698f24685c2 > > > > > b408 > > > > > d6da0bc70f%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&sdata=l > > > > > 7wL8 > > > > > BnRgf8EA7E3SxuGBraA1Y%2BjALC8VfrCLI2H4Mc%3D&reserved=0 > > > > > 64 > > > > > > > > > > On our summary page we also have the full author list > > > > > displayed. > > > > > For us, the issue we're concerned about is that when we have > > > > > a > > > > > paper with loads of authors, if someone editing the item > > > > > visits a > > > > > workflow stage with the authors on it, it takes *ages* to do > > > > > anything. > > > > > > > > > > Our repo staff want to retain the complete author list - so > > > > > I'll > > > > > continue looking down the 'improved input methods' path > > > > > rather > > > > > than > > > > > 'truncate from source' option. > > > > > > > > > > Cheers, > > > > > John > > > > > > > > > > From: [email protected] [mailto:eprints- > > > > > tech- > > > > > bou > > > > > [email protected]] On Behalf Of martin.braendle--- via > > > > > Eprints- > > > > > tech > > > > > Sent: 16 May 2019 14:36 > > > > > To: John Salter <[email protected]> > > > > > Cc: [email protected] > > > > > Subject: [EP-tech] Antwort: RE: Hyperauthorship > > > > > > > > > > Hi, > > > > > > > > > > we thought of limiting the rendering, too. However, in that > > > > > case, > > > > > the database has to deliver the author records before the > > > > > limit > > > > > is > > > > > applied, which involves a performance penalty. Anyone who had > > > > > to > > > > > deal with a 2000 author item in EPrints can tell what this is > > > > > like. > > > > > That's why we decided to limit on input already. > > > > > > > > > > Cheers, > > > > > > > > > > Martin > > > > > > > > > > "John Salter" ---16.05.2019 14:36:13---Hi Martin, Interesting > > > > > approach. The records I'm, looking at all come via Symplectic > > > > > or > > > > > Pure - and w > > > > > > > > > > Von: "John Salter" <[email protected]> > > > > > An: "[email protected]" <[email protected]>, > > > > > "eprin > > > > > [email protected]" <[email protected]> > > > > > Datum: 16.05.2019 14:36 > > > > > Betreff: RE: [EP-tech] Hyperauthorship > > > > > > > > > > > > > > > > > > > > Hi Martin, > > > > > Interesting approach. The records I'm, looking at all come > > > > > via > > > > > Symplectic or Pure - and we could implement some form of > > > > > limit to > > > > > the number of authors - and retain any that are 'resolved' > > > > > (local) > > > > > authors. > > > > > > > > > > I was thinking of changing the default input rendering for > > > > > the > > > > > creator field along these lines: > > > > > If there are < LIMIT authors, render input as currently > > > > > exists > > > > > If there are > LIMIT authors, render a static list of them, > > > > > and > > > > > enhance with javascript to allow editing of specific entries > > > > > / > > > > > re- > > > > > ordering / searching filtering the list. > > > > > > > > > > This could even be deployed as a separate workflow stage > > > > > (which > > > > > only appears when there are > LIMIT authors). > > > > > > > > > > I'll have to see what people here think about limiting the > > > > > author > > > > > list on the way in to EPrints - that sounds like a better > > > > > place > > > > > to > > > > > be… > > > > > > > > > > Cheers, > > > > > John > > > > > > > > > > > > > > > From: [email protected] [mailto:[email protected] > > > > > h.ch > > > > > ] > > > > > Sent: 16 May 2019 13:22 > > > > > To: [email protected]; John Salter <J.Salter@leeds > > > > > .ac. > > > > > uk > > > > > > > > > > > > > > > > > Subject: Re: [EP-tech] Hyperauthorship > > > > > > > > > > Hi John, > > > > > > > > > > we have a lot of high energy physics or biomedical articles > > > > > with > > > > > hundreds or thousands of authors. Usually, those are > > > > > submitted > > > > > via > > > > > CrossRef or PubMed import. > > > > > > > > > > We have adapted the corresponding import plugins to limit the > > > > > number of authors by a configurable limit (in our case 30). > > > > > If > > > > > the > > > > > limit is exceeded, "et al" is added as the ($limit+1)th > > > > > author, > > > > > the remaining authors are not imported and a warning message > > > > > is > > > > > issued. Submitters are then still free to add the remaining > > > > > UZH > > > > > authors manually and use et al for authors outside of UZH. > > > > > > > > > > Instead of the DOI plugin, we have developed a CrossRef > > > > > plugin > > > > > that > > > > > uses the CrossRef REST API . It implements the author > > > > > limitation > > > > > as > > > > > well. We decided to go with the CrossRef REST API because > > > > > funder > > > > > information can be imported from there. > > > > > > > > > > Best regards, > > > > > > > > > > Martin > > > > > > > > > > -- > > > > > Dr. Martin Brändle > > > > > https://eur03.safelinks.protection.outlook.com/?url=https%3A% > > > > > 2F%2 > > > > > Forcid.org%2F0000-0002-7752- > > > > > 6567&data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C17a35c5698f24 > > > > > 685c > > > > > 2b408d6da0bc70f%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&sd > > > > > ata= > > > > > VC8Bwg2BLpo%2BybPatYVIyBvALgwZhIZ4Az4bBUkKXFY%3D&reserved > > > > > =0 > > > > > Zentrale Informatik > > > > > Universität Zürich > > > > > Stampfenbachstr. 73 > > > > > CH-8006 Zürich > > > > > > > > > > "John Salter via Eprints-tech" ---16.05.2019 14:00:41---Hi, > > > > > Has > > > > > anyone done any work on making the EPrints workflow a bit > > > > > more > > > > > sensible when a paper has man > > > > > > > > > > Von: "John Salter via Eprints-tech" <[email protected] > > > > > c.uk > > > > > An: "'[email protected]'" <[email protected]. > > > > > ac.u > > > > > k> > > > > > Datum: 16.05.2019 14:00 > > > > > Betreff: [EP-tech] Hyperauthorship > > > > > Gesendet von: <[email protected]> > > > > > > > > > > > > > > > > > > > > > > > > > Hi, > > > > > Has anyone done any work on making the EPrints workflow a bit > > > > > more > > > > > sensible when a paper has many authors (hundreds or > > > > > thousands)? > > > > > > > > > > Cheers, > > > > > John > > > > > > > > > > > > > > > John Salter > > > > > https://eur03.safelinks.protection.outlook.com/?url=http%3A%2 > > > > > F%2F > > > > > orcid.org%2F0000-0002-8611- > > > > > 8266&data=01%7C01%7Cdrn%40ecs.soton.ac.uk%7C17a35c5698f24 > > > > > 685c > > > > > 2b408d6da0bc70f%7C4a5378f929f44d3ebe89669d03ada9d8%7C0&sd > > > > > ata= > > > > > kjC4zZaCbC3FpYg53MlgUmfkiuWdpysY7o4wYMO7noU%3D&reserved=0 > > > > > > > > > > White Rose Libraries Technical Officer > > > > > IT - Application Support 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