Name external links

[JoeCohen]

Add iNat & Wikipedia links to RH column of Name "About this taxon" panel

Tasks

• [x] Consider additional external sites, e.g., MushroomExpert, Is there a European equivalent?
• [x] Test for presence of, and add links to:
  • [x] GBIF
  • [x] Genbank
  • [x] iNat
  • [x] MushroomExpert ??
  • [ ] #1915
  • [x] MycoGuide
  • [x] NCBI Taxonomy Browser (uses registration #)
  • [ ] #1916
  • [x] Wikipedia
  • [x] Ascomycete.org conditional link.
• [x] email MycoMap for suggestions
• [x] change name of Nucleotide searches etc. name => term
• [x] try improving IF link for taxa lacking icn_id
• [x] switch MushroomExpert search to duckduckgo?
• [x] Make some links conditional? (E.g., don't link to a mushroom cite for something not registrable
• [x] Manual test
• [x] Re-arrange About this Taxon
• [x] Refactor
• [x] Rubocop
• [x] PR
  • [x] Is duckduckgo OK?
• [x] Add Discussion about Added/Conditional Research Links #1919
• [x] Fine tune search strings
  • [x] Ascomycete - name s.s.
  • [x] GBIF - name s.s.
  • [x] iNat - name s.s.
  • [x] MCP \ "name s.s." suffix
  • [x] NCBI "name s.s."
  • [x] Wikipedia "name s.s."
  • [x] IF \ "name s.s."
  • [x] MB as-is
• [x] rename s_str => sensu_stricto
• [x] align observation_menu columns with nomenclature columns
• [x] Add generalized web search

[JoeCohen]

Also Genbank, perhaps some others These are easy, cheap changes.

[JoeCohen]

Another very useful one, especially for US and NAMA-sponsored forays: MycoGuide. Searches take the form: https://www.mycoguide.com/guide/search?q=truncospora+ohiensis

[mo-nathan]

From Alan Rockefeller Feb 12, 2024: Regarding iNat integration, it would be cool if there was a field for an iNat link, similar to the sequence or collection number fields. I've been linking them in the comments.

It would also be cool if there was an import feature - connect to iNat with an API key and import observations one at a time via observation # or import all observations that don't have a MO URL observation field.

[mo-nathan]

MycoMap link would be great as well.

[mo-nathan]

Once we have a place to store the iNat observation link, I bet we could search and parse existing links in the comments to populate the ones that are already there.

[nimmolo]

~These can all be added to the "External Links"/"External Sites" tables and UI that's been there forever, and it's not hard to add them.~

~I look forward to reviewing somebody else's PR!~

Sorry - i was totally off base!

[JoeCohen]

@nimmolo: Is ExternalLlinks/ExternalSites the best way to do this. What I want is for every Name page to link to, e.g., the iNat page for that Name, like the existing show_name link to MyCoPortal. Similar links are currently added by individual concats in the About this Taxon panel, not via the "External Links"/"External Sites" tables and UIapp/views/controllers/names/show/_observations_menu.html.erb.

[JoeCohen]

MycoMap link would be great as well.

@mo-nathan We need to know MycoMap's internal id # for the taxon in order to link to the appropriate page. A link of the form [https:// ](https://mycomap.com/search/?&q=%22boletus%20edulis%22 goes to MM's observations of B. edulis. IMO what the MO Name page needs is a link to MM's taxonomy page. That link looks like this: https://mycomap.com/taxonomy/271350-boletus-edulis/

Maybe MM has an API that would let us do this differently. I'll contact Steve Russell to see if he has any suggestions.

[JoeCohen]

UNITE would also be nice, but there isn't a simple url that takes the text_name as input. They use the PLUTO API, but I still don't see how to get where I want using just the text_name.

[JoeCohen]

Don't need a separate NCBI taxonomy link because the Nucleotide page displays a taxonomy summary + a link.

[JoeCohen]

MushroomExpert does not have an internal name search. Instead it uses a GoogleSearch limited to mushroomexpert.com, like this: https://www.google.com/search?q=coprinus+comatus+site:www.mushroomexpert.com This works reasonably well. for IF it's better than what we have currently. The link is https://www.google.com/search?q=coprinus+comatus+site:www.indexfungorum.org

[JoeCohen]

@nimmolo: Thanks. Although it isn't the right thing here, you made me pay attention to the ExternalLink API, which I've ignored in the past. Result: I'll bet I can make very good use of this as a User. Furthermore, it would be nice to have something like this for the Name pages.

[JoeCohen]

try improving IF link for taxa lacking icn_id I've discarded this because I couldn't find a Google URL that works See, e.g., https://www.google.com/search?q=stropharia+agaricoides+website%3Awww.indexfungorum.org This is supposed to return only results from www.indexfungorum.org. But

• It returns a ton of crap
• More important it does not return the IF page for Stroparia agaricoides

Hmm. would Bing work better? Yes!!!

• https://www.bing.com/search?q=%22stropharia+agaricoides%22+domain%3Awww.indexfungorum.org Name quoted, limited to IF domain. Returns 2 results, both of which link to the right page. Adds annoying CoPilot stuff
• https://www.bing.com/search?q=stropharia+agaricoides+site%3Awww.indexfungorum.org Name not quoted, limited to IF site. About 2,560 results. The first is the IF page for Stroparia agaricoides, then other results from IF, then other results. Adds annoying CoPilot stuff

[mo-nathan]

You could also consider Duck Duck Go. The URL https://duckduckgo.com/?q=site%3Aindexfungorum.org+%22stropharia%22+%22agaricoides%22&t=chromentp&ia=web returns the correct page first along with only two other results both from Index Fungorum. Note that the double quotes around the genus and species help a lot.

[JoeCohen]

@mo-nathan Thanks for the Duck Duck Go suggestion. I like the results better than Bing (even though I get an annoying Duck Duck Go popup and one time got an eBay add).

[JoeCohen]

Some conditional link forms:

• for ascos https://ascomycete.org/Search-Results?search=Sarcosphaera%20coronaria
• amanitaceae http://www.amanitaceae.org/?Search&q=amanita%20muscaria Unfortunately above doesn't work because RET's internal searches are broken.