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Topic: Aglais io / Inachis io

Things seem a bit screwed up.

When I go to the "Species" tab (https://species.nbnatlas.org/) and in the Search for Taxa box enter "Aglais io" the first returned entry "Aglais io (Linnaeus, 1758)  – Peacock" (links to https://species.nbnatlas.org/species/NHMSYS0021143568) and leads to no records.

The second returned entry "Inachis io (Linnaeus, 1758) (accepted name Aglais io)" (also links to https://species.nbnatlas.org/species/NHMSYS0021143568) but this goes on to say that there (only) "Occurrences: 489" but when the link for these is clicked it says "No records found for taxon_concept_lsid:NHMSYS0021143568".

Surely there must be more than 0 or 489 records for Peacock butterfly on the Atlas and why doesn't the search find them?

Also, if you step onto page two of the returned offerings when the genus "Aglais" is presented it then offers me to "View images of species within this genus" (which wasn't offered for any of the species(?)) and when clicked then says "Images of 0 species from Aglais", which wasn't really worth offering!

Also if I go to page 4 of the search result offerings I am given "Glais House Nursing Home" as a result for the Taxa search that I initiated!!!

It was only at this stage that I noticed at the top right of the search results pages a link saying "Occurrence records (69,253)" which does indeed point to records of Peacocks, but in re-checking the four pages of search results they do not appear under any of the species names returned by the search. They should surely show up as something?

When however I click on  "Occurrence records (69,253)" the first 10+ pages of record offerings are all of "genus:  Aglais |  Peacock" not of the species "Aglais io". They say in the record details that the "Scientific name" is Aglais (Supplied scientific name "Aglais io"). Why has it turned all the species records into genera records which I didn't ask for? The link provided under the scientific name does indeed link to the genus Aglais, which amusingly does then present an image for a species in this genus, which it couldn't manage to do from the earlier link mentioned above.

Also, if I go the to atlas homepage https://species.nbnatlas.org/ and type "Aglais io" into the search box at the top left corner and select the "Aglais io - species" option I get the previously described four pages of search results, including the nursing home. If I then retype anything into the search box on that page I don't get any drop-down lists of offerings to select from. I have to go back to the atlas homepage to get these working again.

I thinks that's enough broken things for now...

Keith

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Re: Aglais io / Inachis io

Red Admiral is not great either.

There are still problems with the search - if you put in "Red Admiral" - the butterfly appears as number 8 after 7 Red Admiral locations and is followed by 178 pages of itemes that include either Red or Admiral as apart of the vernacular name or location.

Vanessa atalanta is a little better, but just in case I didn't mean Vanessa atalanta I'm offered other species names and locations that include vanessa or atalanta. Fortunately only 3 pages this time. If I sort the list by scientific name rather than the default best match, V. atalanta appears as number 5 with V. virginiensis at the top!

The problems with the species search were reported on the Forum in the early days of testing the Atlas and the problems have still not be resolved.

I am informed that there are 31,825 records of this species from 15 datasets on the NBN Atlas Scotland. If I look at the list of datasets there are only 2 with a total of 27,774 records, however, on the records page all 15 datasets are listed with a total of 31,825 records.

Finally there is also the anomaly in the phenology graph of 2,828 records in January, generated by records which are either listed as year only or an interval starting  with a January date e.g. 01-01-1969 - 31-12-1969 . This has already been raised on the forum.

With the system live and no Gateway to fall back on, how can we trust the information that is being provided by the Atlas?

I am profoundly disappointed that the sytem is still not working and that problems which were reported last year have not been addressed. Many of us put a great deal of time and effort into testing the platform and either the developers have not been listening or are unable to resolve the problems (whether for technical reasons or lack of resources). If at the very basic level we can not access the records held in the datasets with confidence, the Atlas is not fit for purpose.

Finally, the link to the NBN Forum from the Atlas produces a page which is not properly formatted.

Christine

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Re: Aglais io / Inachis io

At the moment clicking on 'Species' search (aka 'Search for taxa') is really a fuzzy text search across the whole database. This probably isn't what is expected.
e.g.
https://species.nbnatlas.org/search?q=Aglais+io

It is easy to restrict the result so it only returns species. You can currently do this manually by editing the url (at the top of your web browser) and adding "&fq=rank:species"
e.g.
https://species.nbnatlas.org/search?q=A … nk:species

We expect to change the GUI soon to automatically do the above and reflect expections.

Atb, -D
p.s. Other taxonomic ranks are available by adding "&fq=idxtype:TAXON" instead.
e.g.
https://species.nbnatlas.org/search?q=R … type:TAXON

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Re: Aglais io / Inachis io

Can I just add that when I see a box labelled "Search for taxa" I absolutely *don't* expect it to be a "fuzzy text search across the whole database". I expect it to be a search for a *taxon* ... in fact I don't even expect it to be a search for a "name".

The previous posts suggest that the Atlas is returning maps for records associated with a name and not a taxonomic concept. Is this the case or has there just been a glitch in these cases?

Chris Raper, Manager of the UK Species Inventory, Angela Marmont Centre for UK Biodiversity,
Natural History Museum, Cromwell Road, London, SW7 5BD.  (tel: 020 7942 5894)
also Tachinid Recording Scheme (http://tachinidae.org.uk/)

5 (edited by Jim Bacon 03-04-2017 15:23:41)

Re: Aglais io / Inachis io

Hi Duncan

I don't think this goes all the way to answering Keith's difficulties.

Firstly, having typed in a very distinct species name, I think he would be happy to get a single search result. I don't think he would have been after anything fuzzy on this occasion. The closest I can get is

https://species.nbnatlas.org/search?q=&fq=scientificName:"Aglais io" AND taxonomicStatus:accepted

However this still returns two results which I don't understand. Can you improve on this?
(Just seen your post Chris - I am definitely only trying a name search here. The result includes the Taxon Version Key and I could then search for that in the acceptedConceptID field to do a search by concept if I wanted.)

Secondly, the absence of Aglais io species records and the profusion of Aglais genus records is, I believe, a true reflection of the database status and an aberration in the import from the Gateway. I will post what I have found about that in the other thread concerning accuracy of import.

Jim Bacon.

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Re: Aglais io / Inachis io

Hi Jim,
   I would do it like this:

https://species.nbnatlas.org/search?q=& … s:accepted

In case the formatter mangles it, that's:
...search
?q=*:*&
fq=scientificName:"Aglais io"&
fq=taxonomicStatus:accepted

   It only returns a single record.
   I read recently that multiple fq filters should be favoured over ANDing clauses.
   Atb, -D

p.s. I see you edited your post so that it just returns one record, either way works.

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Re: Aglais io / Inachis io

Thanks Duncan. I just edited my post to put in a missing ampersand but I think that was just a typo during posting. I can't reproduce the results I was getting earlier so it feels more like the sand has shifted under my feet. I was getting 3 results for Vanessa atalanta and now get one. Whatever, at least we now know how to get the kind of results we might want.
Jim.

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Re: Aglais io / Inachis io

See my comment on the possible problem with the import of Aglais io records and others.
Jim Bacon

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Re: Aglais io / Inachis io

While you were all busy looking at the problems on the species search. I tried another approach.
I typed in Red Admiral with the predicted "fuzzy" result and found the filters and sort options not particularly helpful.
However, if I selected Occurrence records under Related Searches a list of records for Vanessa atalanta/Red Admiral appeared and I could then use the filters or map to refine the list.

Moreover, if I used the quick search (rather than returning to the Species search) and type in a species/vernacular name it provides a list of records. Although sometimes you have to use the taxon filter if it produces more than one species.

OK so this doesn't solve the Species search problem, and I don't know how robust it is in terms of accuracy, but it gets me where I want to go i.e. from species query to records. I also have to start with the Species search as I've not found a way to get directly to Occurrence records.

This is trial and error navigation, but it produced the result I was looking for. It probably will not help you with the basic search problem, but for now I'll settle for a "quick" fix, so that I can access the records. I'll test it again tomorrow to try and assess how it works with more taxonomically complex groups.

Christine

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Re: Aglais io / Inachis io

Hi Chris,
    yes, if you look at the url (top of the web browser), you see the (fq) filters that are being applied to the result of the fuzzy match (also shown in the GUI). You could replace your fuzzy search with q=*:* i.e. "any result in : any category" and you would not see a difference. They key thing is the filter query (fq) that allows the entire database (*:*) to be filtered on specific fields. e.g.
https://records.nbnatlas.org/occurrences/search
?q=*:*
&fq=taxon_name:"Vanessa atalanta"
#tab_mapView
(please concatenate the above, copy&paste into firefox's url bar in OSX works, as the forum keeps breaking the url)
   I have written a query filter primer document:
https://docs.google.com/document/d/1FiV … S6x82xnfu4
   although it is mainly for developers, the underpinning logic might be helpful?
   Atb, -D.

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Re: Aglais io / Inachis io

OK, I think this has now been changed as requested

   https://species.nbnatlas.org/

now limits its search (to idxtype=TAXON)

Atb, -D.
p.s.
Fans of the old style 'fuzzy' search will be pleased to see it can still be performed by editing the url and deleting the fq filter.

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Re: Aglais io / Inachis io

Great - thanks Duncan :)

Chris Raper, Manager of the UK Species Inventory, Angela Marmont Centre for UK Biodiversity,
Natural History Museum, Cromwell Road, London, SW7 5BD.  (tel: 020 7942 5894)
also Tachinid Recording Scheme (http://tachinidae.org.uk/)

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Re: Aglais io / Inachis io

Thank you, this is working now.
I have only found one anomaly, which may be a taxonomic problem.
As I do not wish to distract you from sorting out the basics, I'll e-mail the details to support.

Christine

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Re: Aglais io / Inachis io

As a follow-up, could we maybe have the search boxes that search the whole site amended to be a little clearer? For instance something like "Search the whole NBN Atlas website"? I think most users of the site are still going to think that all of the search boxes will default searches of the taxonomy, not the locations and other areas.

Chris Raper, Manager of the UK Species Inventory, Angela Marmont Centre for UK Biodiversity,
Natural History Museum, Cromwell Road, London, SW7 5BD.  (tel: 020 7942 5894)
also Tachinid Recording Scheme (http://tachinidae.org.uk/)