Add JSON-Schema validator to travis

Question

Add JSON-Schema validator to travis

cmungall opened this issue 9 years ago · 3 comments

Dependent on #31

Answer 1 · 2016-03-08T21:35:38.000Z

Note that in addition to schema validation, we will want to do additional semantic validation (e.g. reasoning over the json-ld file #40) and also checking that any smuggled syntax such as that for HGVS variants ( #10 ) conform.

HGVS nomenclature checkers (add more here)

python https://bitbucket.org/biocommons/hgvs/
java/scala: https://github.com/rockt/SETH

Answer 2 · 2016-03-08T22:47:56.000Z

Re: HGVS, if possible, would be good to prompt users to provide the notation using a transcript as the base rather than an (unversioned) gene id. This per Mark Diekans.

Answer 3 · 2016-03-09T00:36:28.000Z

Andrew McMurry recommends "a combination HGVS and Mutalyzer; If they both pass, then your are probably fine. If you need a third tool, NCBI variant reporter"