[Taxacom] BioRSS

Fri Nov 26 01:16:12 CST 2021

Dear Rod,

Congratulations with your new service which seems rather promising,
especially if it manages to cover a large number of publishers of taxonomic
journals!

Regarding Pensoft and some points raised by others in this tread, I think
that you can use also OAI-PMH, *besides RSS*, to harvest all content from
one-stop web service end point (see ours at:
https://arphahub.com/about/OAI-PMH). Through OAI-PMH you can also select
Pensoft's ca. 20+ journals that publish taxonomic records (not just ZooKeys
or PhytoKes). The high-level taxa associated to each article can be taken
from the *<subj-group> *in each article XML. RSS are fine and great,
however they cover only the last 100 newly published items and not always
give straightforward  access to the full-text article XML. In other words,
you have to rely mostly on metadata in this case.

In addition, Pensoft provides human-readable email alerts (daily, weekly or
monthly*, *on choice of the user) from user-selected journals, taxa or
subject categories. When selecting a taxon or taxa from *"Taxon categories**"
*tab in user's personal profile alert setup, the system will inform you
about all new articles in all selected journals, published in relation to
that taxon or taxa.

I hope this helps.

Regards,
Lyubo
-----
Prof. Dr. Lyubomir Penev
ORCID: http://orcid.org/0000-0002-2186-5033
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On Thu, Nov 25, 2021 at 10:46 PM John Grehan via Taxacom <
taxacom at mailman.nhm.ku.edu> wrote:

> I guess the incentives aren't there because taxonomists and/or
> biodiversitist (whatever the word is) who influence funding allocations
> have not identified it as a high priority. Perhaps those who influence
> funding priorities don't care about the information we have buried in the
> literature, especially taxonomic information. Everything is so often
> obsessed about the 'new'
>
> Some Chinese journals that have turned up with my group are:
> Acta Entomolgica Sinica
> Sinozoologia
> Zoological Research
> Entotaxonomia
> Journal of Qinghai University
> Entomological Journal of East China (Fuzhou)
> Journal of Huazhong Agricultural University (Wuhan)
>
> On Thu, Nov 25, 2021 at 1:33 PM Roderic Page <Roderic.Page at glasgow.ac.uk>
> wrote:
>
> > Hi John,
> >
> > Yes, this is being updated regularly as I mess about with the code, and
> > explore adding other sources (such as Chinese language journals that you
> > expressed a desire to see).
> >
> > There isn’t a set time of day I add new content, but I hope to do this on
> > a daily basis (yet another thing to automate). I will make the journal
> list
> > available shortly (need to write some code to display it).
> >
> > The original plan for this app was to use RSS feeds provided by journals
> > to get the latest list of articles each journal publishes. While some
> > publishers do support RSS many journals don’t, so I have to come up with
> > other ways to get this information. RSS was very popular in the heyday of
> > blogging and news feed readers but with the demise of Google Reader
> > https://en.wikipedia.org/wiki/Google_Reader and related apps RSS has
> been
> > fading away a bit, which is a pity.
> >
> > Regarding bioinformatics and “big data”, I have my own issues with
> various
> > projects (which I blogged about), but I think in this case the issue is
> > that (a) it’s actually quite challenging to build a tool to poll the
> > literature for new species - as I’m rapidly discovering - and (b) what
> are
> > the incentives for providing such a service? I tend to think that people
> > act rationally with respect to incentives, and so if things that you want
> > to see happen aren’t happening then that’s a close that the  incentives
> > aren’t there.
> >
> > Regards,
> >
> > Rod
> >
> >
> > On 25 Nov 2021, at 18:03, John Grehan via Taxacom <
> > taxacom at mailman.nhm.ku.edu> wrote:
> >
> > Rod,
> >
> > Am I correct that the main page listing is automatically updated? At
> least
> > that is my impression. As I had the tab still up on my Browser today
> (25th)
> > I noticed the most recent listings to be Nov 24. If updating is constant,
> > is there a standard time of the day for this? A constant update would
> > certainly make for a convenient reference to check each day or whenever,
> > even for a limited range of publications, rather than having to
> constantly
> > check individual journals which is too time consuming. And it looks like
> > systematic articles turn up which gets me to biogeography which is my
> main
> > interest in being able to easily view new articles as they appear.
> >
> > As for journal coverage, is it possible to see the full list of journals
> > currently scanned by your application? That would make it easy to suggest
> > additions. If there is no web link for that, please send the list to me
> at
> > my email address (or to Taxacom directly). Also, remind me of how your
> > program works - I presume it relies on journals or books having some kind
> > of web posting of their contents so your program can collate that
> > information.
> >
> > While I might whine on a bit about the problem of limited coverage,
> > something like this is certainly better than nothing. It is rather
> > depressing to think that after some decades of so-called
> 'bioinformatics',
> > 'big data' and all the other rhetorical crap that was floated out there
> for
> > the big money grants etc, that this very basic knowledge base for the
> study
> > of biodiversity appears to have never been addressed. If it were, Rod
> would
> > not have to still be fiddling around trying to come up with a solution
> > several decades later. If ever there were a grant worth enterprise (to
> get
> > the funds necessary to locate and incorporate all relevant journals and
> > keep the system permanent) this would appear to fit the bill.
> >
> > John Grehan
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> >
> >
> >
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>