Add JSON-Schema validator to travis

phenopackets / phenopacket-format

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Add JSON-Schema validator to travis #41

Open cmungall opened 8 years ago

cmungall commented 8 years ago

Dependent on #31

cmungall commented 8 years ago

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

jmcmurry commented 8 years ago

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.

jmcmurry commented 8 years ago

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"