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Journals needing scripts

Open willpearse opened this issue 10 years ago • 15 comments

  • Elsevier
  • PNAS (...doesn't seem to have SIs other than PDFs, but check)
  • Nature
  • Frontiers in ...
  • Cell (TREE et al.)
  • ESA journals - not every one of them seems to use Archives

willpearse avatar Jul 10 '15 18:07 willpearse

url <- paste0("http://www.pnas.org",.grep.url(paste0("http://www.pnas.org/lookup/doi/",doi), "(/content/)[0-9/]*"),".abstract") could help with PNAS

willpearse avatar Jul 10 '15 18:07 willpearse

Elsevier is officially unintelligible to me. I've no idea how the redirects are working, and I just can't do it :-(

willpearse avatar Jul 20 '15 19:07 willpearse

  • [ ] Elsevier
  • [ ] PNAS
  • [ ] Nature
  • [ ] Frontiers in XXX
  • [ ] Cell (TREE etc.)
  • [ ] Cambridge dissertations and other misc. (see #10 )

willpearse avatar Feb 02 '18 22:02 willpearse

...as well as, in no particular order...

  • [ ] Pensoft 28 journals all open access and on the same platform tech (ARPHA). Here's an example article from Deutsche Entomologische Zeitschrift with two suppdata files: https://doi.org/10.3897/dez.65.21000
    a) https://doi.org/10.3897/dez.95.21000.suppl1 b) https://doi.org/10.3897/dez.95.21000.suppl2

  • [ ] Ubiquity Press ?? journals, all (?) open access and on the same platform tech. Here's an example article from Open Quaternary with one suppdata file: http://doi.org/10.5334/oq.32 a) https://doi.org/10.5334/oq.32.s1

  • [x] Copernicus Publications 40 journals, all open access and on the same platform tech. Here's an example article from Biogeosciences with one suppdata file: https://doi.org/10.5194/bg-14-1739-2017 a) https://www.biogeosciences.net/14/1739/2017/bg-14-1739-2017-supplement.zip

  • [ ] Hindawi Over 250 open access journals all on the same platform tech. Here's an example article from International Journal of Ecology with one suppdata file: https://doi.org/10.1155/2017/5620125 b) https://www.hindawi.com/journals/ijecol/2017/5620125/#supplementary-material-1 ▶️ http://downloads.hindawi.com/journals/ijecol/2017/5620125.f1.docx

  • [x] MDPI Over 190 open access journals on the same platform tech. Here's an example article from Molecules with one suppdata file: https://doi.org/10.3390/molecules22050681 a) http://www.mdpi.com/1420-3049/22/5/681#supplementary ▶️ http://www.mdpi.com/1420-3049/22/5/681/s1

  • [ ] Cambridge University Press Over 380 journals on the same platform tech. Here's an example article from Oryx with one suppdata file: https://doi.org/10.1017/S0030605315001246 a) https://www.cambridge.org/core/journals/oryx/article/taking-the-elephant-out-of-the-room-and-into-the-corridor-can-urban-corridors-work/4C43E703569F63FEA771EB61D327F4F2#supplementary-materials ▶️ https://static.cambridge.org/resource/id/urn:cambridge.org:id:binary:20170303101053109-0421:S0030605315001246:S0030605315001246sup001.pdf

  • [ ] Taylor and Francis Online Loads of journals on the same platform. Here's an example article from Zoology and Ecology with one suppdata file: https://doi.org/10.1080/21658005.2017.1366293 a) https://www.tandfonline.com/doi/suppl/10.1080/21658005.2017.1366293?scroll=top ▶️ https://doi.org/10.6084/m9.figshare.5350366

  • [ ] BioOne Over 200 journals all on the same platform. Here's an example article from Journal of Parasitology with one suppdata file: https://doi.org/10.1645/17-15 a) http://www.bioone.org/doi/suppl/10.1645/17-15 ▶️ http://www.bioone.org/doi/suppl/10.1645/17-15/suppl_file/10.1645_17-15.s1.docx

  • [ ] SAGE Journals ~1,000 journals all on the same platform. Here's an example article from American Sociological Review with two suppdata files: https://doi.org/10.1177/0003122415621900 a) http://journals.sagepub.com/doi/suppl/10.1177/0003122415621900 ▶️ http://journals.sagepub.com/doi/suppl/10.1177/0003122415621900/suppl_file/england_online_supplement.pdf and http://journals.sagepub.com/doi/suppl/10.1177/0003122415621900/suppl_file/England_february_2016_media_abstracts.pdf

  • [ ] Royal Society of Chemistry Publishing Over 80 journals on the same platform. Here's an example article from Chemical Communications with one suppdata file: https://doi.org/10.1039/C8CC01172A a) http://www.rsc.org/suppdata/c8/cc/c8cc01172a/c8cc01172a1.pdf

  • [ ] Company of Biologists (the not open access journals & articles) This publisher is somewhat complicated. It has five journals. The two open access ones Disease Models & Mechanisms and Biology Open can have their supplementary data accessed via the existing EuropePMC method. But for the three closed access journals Development , Journal of Cell Science and Journal of Experimental Biology a specific per-publisher script is needed. Here's an example article from Development with one suppdata file: https://doi.org/10.1242/dev.160382 a) http://dev.biologists.org/lookup/doi/10.1242/dev.160382.supplemental ▶️ http://dev.biologists.org/highwire/filestream/1248938/field_highwire_adjunct_files/0/DEV160382supp.pdf ~~BMJ Journals, eLife, F1000Research, Wellcome Open Research, Gates Open Research~~ All covered via EuropePMC method

rossmounce avatar Mar 08 '18 12:03 rossmounce

PS I would retitle the thread (is that possible on GH?) to 'publisher platforms needing scripts' as the problem is per platform tech, not per journal (thankfully!)

rossmounce avatar Mar 08 '18 12:03 rossmounce

I see you've listed Cell Press as distinct from Elsevier? Why?

You can access the Cell Press imprint journals through the ScienceDirect platform, like other non-Cell Press Elsevier journals. Why implement two distinct methods when one would suffice? Suggest you merge the two as "Elsevier inc. Cell Press journals (ScienceDirect)" or some such notation.

rossmounce avatar Mar 08 '18 13:03 rossmounce

May I add some to the list?

  • [x] PeerJ
  • [x] JStatSoft (potentially with a generic function for OJS journals)

Are there any guidelines or step-by-step instructions for how to add a journal?

Update: Working on Copernicus Publications now!

nuest avatar Jun 14 '18 09:06 nuest

PeerJ would be a great one to add, thanks!

The instructions are here: https://github.com/ropensci/suppdata/blob/master/CONTRIBUTING.md. If you need any help with it, please just ask (maybe make a separate issue or something). Thanks very much!

willpearse avatar Jun 14 '18 16:06 willpearse

@willpearse can you check "Copernicus Publications" in the list in this post, please: https://github.com/ropensci/suppdata/issues/2#issuecomment-371476111

nuest avatar Oct 18 '18 13:10 nuest

I think we need a nice list of already supported journals as well. I can't find one - am I just missing it? Happy to add one to the README file if I know it doesn't exist yet :-)

nuest avatar Oct 19 '18 15:10 nuest

We don't have one right now - if you could add it somewhere sensible in the README I'd be very grateful indeed. Thank you!

willpearse avatar Oct 22 '18 17:10 willpearse

List added with #33

Just wondering how to prioritize here... Maybe we should create bounties for publishers, and send an e-mail to each of them? :-) Or we as developers just vouch to add 1 source / month? That's one every quarter for three people @willpearse @sckott :-)

nuest avatar Oct 25 '18 11:10 nuest

I imagine publishers won't help, and probably don't have any R people. I can put it on my list, but likely will be slower than 1 per month sadly

sckott avatar Oct 25 '18 15:10 sckott

I don't think publishers will help either, sadly. I think the one per month thing is a good idea, Daniel: I think the best way to get more developers to help is to show that we're doing it ourselves. I'll do PenSoft by November 25th (unless you'd like it?).

willpearse avatar Oct 25 '18 20:10 willpearse

No, go ahead. Just poke me when you're done, so I can pick up the next one.

@sckott My suggestion was only about once every three months :-)

nuest avatar Nov 01 '18 17:11 nuest