Add DOI and WikipediaVersioned Extractor

[shawntanzk]

Adding DOI and WikipediaVersioned (two things used quite often in a few of the obo foundry ontologies)
Followed patterns from searching repo - probably needs a proper looking over to make sure I didn't do anything stupid.
Tagging @hkir-dev & @matentzn
Related to obophenotype/uberon#1874

[matentzn]

Have you tested this or just guessed it from the source code?

Can we add

OMIM, OMIMPS, DOI, ORCID?

Or better yet, add support for an external prefix map?

[shawntanzk]

@matentzn guess it lol - I can try building it, but currently don't have eclipse installed, and not sure even if I did I really know how to handle stuff. Was mostly doing this cause I had some free time and thought I'd try to take some workload off @hkir-dev (was hoping there was already mapping, but after search realised it was this way, so while I was at it, thought I'd do these changes following pattern, hence really needing proper looking over).

Or better yet, add support for an external prefix map?

100% would be keen for this, but it might be beyond my skillset

[hkir-dev]

Good progress @shawntanzk . Seems we need to fix the doi regex (though seems it is a little difficult to have a perfectly working one). We can work and test together.

@matentzn providing an external map might be the ultimate solution, but it will require a lot of changes (config menu updates, config file validation and processing etc.) It would be good to go iteratively and have a first version with the current design.

[matentzn]

Sound good @hkir-dev, can you perhaps add then OMIM, OMIMPS, DOI, ORCID, Orphanet? This would make some of our powerusers very happy!

[shawntanzk]

OMIM: https://omim.org/entry/
OMIMPS: https://www.omim.org/phenotypicSeries/
ORCID: https://orcid.org/
Orphanet: https://www.orpha.net/consor/www/cgi-bin/OC_Exp.php?Expert=

[hkir-dev]

Unit and manual tests completed, new extractors are working as expected.

[hkir-dev]

But observed a malfunction in the already existing OboFoundryLinkExtractor.
UBERON:0007329 is redirected to identifiers.org/UBERON:0007329 instead of purl.obolibrary.org/obo/UBERON_0007329

I suspect about the order of IdentifiersDotOrgLinkExtractor and OboFoundryLinkExtractor but seems this order changed intentionally: dd514de

Independent from the current PR, obo link extraction requires further analysis and a separate bug report.

[shawntanzk]

Thanks @hkir-dev, see you cleaned up some of my silly mistakes too heh, thanks heaps!

[matentzn]

Excellent @hkir-dev! Looks great!

[matthewhorridge]

This is a great contribution! Thanks very much @shawntanzk. We really appreciate it!