Jose Montalva

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  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Katja Schulz: Are we OK with removing the space between the × and the following genus or species name? I gather that's what's recommended by ICBN. I'm not sure what the convention in animals is, though. The new code means that we get things like "Panthera tigris ×Panthera leo" for zoological names, which isn't ideal. But short of coding different procedures for viruses, bacteria, plants/fungi and animals – something I'd rather avoid – I think that might be the best we can do.

    7 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: Since you're MPF let me say thanks for all your hard work on Commons classifications. I see you have been tasking yourself with the problem of overcategorization on Commons. I was wondering if we should also try harvesting from child categories of taxonomic entries on Commons, such as Category:XXX_in_zoos, but that's likely to cause problems with Taxa such as Category:Homo_sapiens. At the moment I'm assuming that any taxa rich enough to have lots of media files in sub-categories should have a decent gallery page, and EoL will be able to harvest the best images from there. If you have time, have a look at the 3rd paragraph of "Category use" on http://eol.org/info/133 and see if you think what I've written there is a sensible approach. In the back of my mind I'm worried if people start to abandon the idea of galleries on Commons.

    You (and entomological minded curators) also might be interested to know that once Liné manages to move {{Lepidoptera}} & {{Coleoptera}} to use Taxonavs (he thinks this might be in September, see https://commons.wikimedia.org/wiki/User_talk:Liné1#Lepidoptera_and_Coleoptera_templates), the EoL harvester should pick up about 16000 more taxonomic pages, and goodness knows how many more images that we're missing at the moment.

    7 months ago • edited: 7 months ago

  • Profile picture of Michаel Frаnkis who took this action.

    Michаel Frаnkis commented on "EOL Curators":

    @Yan Wong: Hi Yan - "(I see someone's changed it, are you MPF :)" - yep, that's me! I took the taxonav out of the page, as of course cultivars are not biological taxa, so shouldn't have any taxonav. I don't know how many other cultivar pages / categories will have been given taxonavs; fortunately probably not very many.

    7 months ago

  • Profile picture of Michаel Frаnkis who took this action.

    Michаel Frаnkis commented on "EOL Curators":

    @Yan Wong: Hi Yan - re "How are these distinguished in wikimedia Taxonavigation boxes? Do people put Subspecies | salzmannii, Variatas | mongolica, etc...." - sorry, missed this one! Yes, the template inserts the "subsp." and "var.". And yes, species can have both subspecies and varieties; e.g. Pinus nigra subsp. salzmannii var. corsicana for the Corsican Pine.

    7 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: Yep - the problem is that the cultivar name was listed in the "Varietas" field (I see someone's changed it, are you MPF :) so unless I code up something to specifically exclude varieties with apostrophes, this will end up begin treated as a normal species name. Perhaps that's OK, though, as it won't end up mapping to any taxonomic hierarchy on EoL.

    7 months ago

  • Profile picture of Michаel Frаnkis who took this action.

    Michаel Frаnkis commented on "EOL Curators":

    @Yan Wong: Hi Yan, That one is a cultivar; very low priority for EoL (much like we ask people not to add photos of their pets), I'd not bother with any harvesting criteria for picking them up.

    7 months ago

  • Profile picture of Katja Schulz who took this action.

    Katja Schulz commented on "EOL Curators":

    @Yan Wong: Thanks Yan, that's great news. Hopefully, the hybrid names will get their own pages. We should check once the new harvesting code is implemented.

    7 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Katja Schulz: I've just submitted the git push request to get subspecies and varieties properly pulled off Wikimedia images (https://github.com/EOL/eol_php_code/pull/91/files). Once it's been OKed by Patrick or Dima, and the harvester run, then all should be peachy. It also includes code to get hybrids working, so we should end up pulling pictures like https://commons.wikimedia.org/wiki/File:Orchis_x_bornemannii._Munciarrati_-_Madonie._15_Aprile_2007_(27).jpg with a scientificName of "Anacamptis ×gennarii nothosubsp. bornemanniae (Asch.) H.Kretzschmar, Eccarius & H.Dietr. (2007)". Is that OK?

    7 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Katja Schulz: Ah, thanks. This is all rather tricky stuff to parse. Patrick hinted that if we move to DwC-A format, then we can markup the author names separately, which might help in the future. On the much brighter side, I think I have code that correctly sets the EoL scientific name for subspecies and varieties. Just testing it now, and dealing with notho-taxa, which I hadn't noticed as a problem before.

    7 months ago

  • Profile picture of Katja Schulz who took this action.

    Katja Schulz commented on "EOL Curators":

    @Yan Wong: Cultivars are not varieties. They are governed by a different part of the botanical code: https://en.wikipedia.org/wiki/International_Code_of_Nomenclature_for_Cultivated_Plants The EOL names infrastructure currently does not handle cultivars particularly well. In most cases, names of cultivars get merged into genus pages, probably because the upper case cultivar name is interpreted as author information. e.g. see Begonia "Non Stop" or Begonia Cultivars Semperflorens-Cultorum-Grp. here: http://eol.org/pages/38025/names?all=1 On the bright side, it looks like quotes & multiples don't break anything.

    7 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: I'm just looking into the variety thing. How would EoL like to cope with the scientific name for something like this: https://commons.wikimedia.org/wiki/Begonia_%27Sophie_Cécile%27 It seems to have a "variety name" but no specific epithet. Should there be a "var." in there somewhere too? Do we allow quotes & multiple, possibly accented names in the variety part? Or should we simply ignore things like this?

    7 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: How are these distinguished in wikimedia Taxonavigation boxes? Do people put Subspecies | salzmannii, Variatas | mongolica, etc. or do they list the whole thing out, as
    Subspecies | Pinus nigra salzmannii
    Variatas | Pinus sylvestris mongolica
    I'm assuming that they don't physically insert the "subs." text themselves, but the template does it for them? Also, can you have both a subspecies and a variety? If so, in the Taxonav box do you put Subspecies | Pinus nigra salzmannii, Variatas | Pinus nigra salzmannii albus? And then how do we cope if we get something like this within a single Taxonav box?
    Subspecies | salzmannii
    Variatas | Pinus nigra albus
    I.e. do we have to insert the salzmannii between the nigra and the albus in this case?

    8 months ago • edited: 8 months ago

  • Profile picture of Michаel Frаnkis who took this action.

    Michаel Frаnkis commented on "EOL Curators":

    @Yan Wong: Thanks! Unfortunately I don't understand all the computer coding (not my thing, I fear), but if it works, good. The difference between zoology and botany is that zoology only has one infraspecific rank (subspecies), so a subspecific name doesn't need any clarification other than having three names; thus e.g. Dendrocopos major pinetorum. Conversely, in botany, there are three infraspecific ranks, in order of decreasing distinction: subspecies (subsp.; for major differences in a species), varietas (var.; for medium differences), forma (f.; very small differences); of these the first two are widely used, forma rather less so. Because of the different ranks, it is essential to state which rank is being used, thus e.g. Pinus nigra subsp. salzmannii; Pinus sylvestris var. mongolica; Abies veitchii f. chlorocarpa. For definitions of the ranks, see e.g. definitions in Table 12.1 in Stuessy (2009), Principles of Plant Taxonomy (p. 158, available on google books).

    8 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: I had a bit of time before bed last night, and think I've managed to sort out some code for subspecies (not done anything for varieties).

    Let me ask you if I've taken a sensible approach. I take the wiki groups and map them to EoL groups, down to genus level, trimming the word "fossil" from start of the name if necessary. For genus names, I trim the name to the first word (to catch e.g. "Genus = Rosa spp"). For higher levels, I ignore anything with spaces in the name (I can't think of any cases where names above the species level consist of multiple words, apart from class="xxx Proteobacteria", for which there's a specific exception coded. I might be missing some viral stuff by doing this, I guess).
    For species and (now) subspecies, I check if the name consists of multiple words the first of which starts with a capital letter. If so, I take the first word as a genus name, if no genus has already been set. Otherwise, if the name is a single word, I take this as an epithet, and prepend the genus name (for a species) or the species name (for a subspecies).
    Finally, the EoL "scientificName" is chosen as the lowest level for which we have a name (i.e. choose subsp if it exists, otherwise sp, otherwise genus, etc), with the authority (if it exists) appended at the end of the entire name.

    Will this procedure cope with formatting differences between botany and zoology? I'm unclear how to deal with varieties in this scheme: any ideas?

    8 months ago

  • Profile picture of Michаel Frаnkis who took this action.

    Michаel Frаnkis commented on "EOL Curators":

    @Yan Wong: Thanks! I fear the github code means nothing to me :-( but if it can be adapted to add subspecies (used in both botany and zoology, but formatted differently in the two groups) and varietas (used in botany only), that would be a great help. Hybrids are less important, and I'd not bother to add cultivars (very few have commons pages with taxonav., and they are also of very minor significance for EoL).

    8 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: Oh, and I see from https://commons.wikimedia.org/wiki/Template:Taxonavigation that there are a number of other subspecific terms that might be used (Hybrid, Cultivar, Varietas, etc), so I think it might turn out to be a bit complicated. Nowhere does it explicitly mention Subspecies as a potential parameter, although it does implicitly when talking about "intermediate ranks". I suspect that the previous version of the harvester may have missed out subspecies too.

    8 months ago

  • Profile picture of Yan Wong who took this action.

    Yan Wong commented on "EOL Curators":

    @Michаel Frаnkis: At the moment the harvester does the following mapping from wiki names to EoL names "Species" => "species", "Genus" => "genus", "Familia" => "family", "Ordo" => "order", "Classis" => "class", "Phylum" => "phylum", "Regnum" => "kingdom" It then constructs the EoL "scientific name" using the most precisely defined of these terms, with some messing around to get the genus + epithet + authority (if present). Conspicuously absent is anything to do with subspecies.

    The code is at https://github.com/EOL/eol_php_code/blob/master/vendor/wikipedia/WikimediaPage.php#L1002 if you want to take a look!

    8 months ago • edited: 8 months ago

  • Profile picture of Michаel Frаnkis who took this action.

    Michаel Frаnkis commented on "EOL Curators":

    Odd, as the taxonavigation is correctly formatted in both the category and gallery. Perhaps something else on the pages is blocking the harvest? Maybe Yan can sort it?

    8 months ago

  • Profile picture of Alan Cassidy who took this action.

    Alan Cassidy commented on "EOL Curators":

    This comment was deleted.

    8 months ago • deleted: 8 months ago

  • Profile picture of Katja Schulz who took this action.

    Katja Schulz commented on "EOL Curators":

    @Michаel Frаnkis: Hm, for some odd reason, we are not getting a Wikimedia Commons hierarchy for the subspecies. The content of the WC Felis silvestris catus gallery gets imported to the EOL Felis silvestris media collection. That's why you see the domestic cat images there, but there is no hierarchy entry representing Felis silvestris catus: http://eol.org/pages/1037781/names?all Yan Wong was involved in developing our new Wikimedia Commons connector. I wonder if he understands what's going on here?

    8 months ago