# Expose Versioned "rdf.genenetwork.org" Namespaces

* assigned: bonfacem
* status: in-progress

## Description

We have switched all RDF namespaces from "genenetwork.org" to the versioned base "rdf.genenetwork.org/v1."   These endpoints don't resolve yet.

## What changed

Replaced

* "http://genenetwork.org/id/" -> "http://rdf.genenetwork.org/v1/id/"
* "http://genenetwork.org/category/" -> "http://rdf.genenetwork.org/v1/category/"
* "http://genenetwork.org/term/" -> "http://rdf.genenetwork.org/v1/term/"

## Current Problem

New "rdf.genenetwork.org/v1/*" URIs return a 5XX/4XX which blocks validation, dereferencing and external re-use

## Expected Behaviour

All rdf.genenetwork.org/v1/* namespaces resolve over HTTP.  At minimum:

* Human-readable HTML in a browser.
* RDF (Turtle or RDF/XML) via content negotiation.

## Notes

(Example) Queries for all terms/categories/ids:

```
PREFIX gn: <http://rdf.genenetwork.org/v1/id/>
PREFIX gnc: <http://rdf.genenetwork.org/v1/category/>
PREFIX gnt: <http://rdf.genenetwork.org/v1/term/>

CONSTRUCT {
  gn:Arabidopsis_thaliana ?p ?o .
} FROM <http://rdf.genenetwork.org/v1>
WHERE {
  gn:Arabidopsis_thaliana ?p ?o .
  ?s ?p ?o .
}

CONSTRUCT {
  gnc:phenotype ?p ?o .
} FROM <http://rdf.genenetwork.org/v1>
WHERE {
  gnc:phenotype ?p ?o .
  ?s ?p ?o .
}

CONSTRUCT {
  gnt:shortName ?p ?o .
} FROM <http://rdf.genenetwork.org/v1>
WHERE {
  gnt:shortName ?p ?o .
  ?s ?p ?o .
}

```

Some terms/categories/ids descriptions will have to be manually updated since querying them as a subject return nothing.

When serving, all supported formats based off Virtuoso's content negotiation:

=> https://docs.openlinksw.com/virtuoso/rdfsparqlprotocolendpoint/

Location of all files (tux02): /export/data/genenetwork-virtuoso/

For current gn3, old data is maintained in this named graph: "http://genenetwork.org" while new data is being uploaded to this named graph: "http://rdf.genenetwork.org/v1"

## Tasks

* [X] Set up new named graph for the rdf endpoint.   Maintain old named graph for gn3 stability.
* [X] Serve: "/v1/id/<id>"; "/v1/category/<category>"; and "/v1/term/<term>" under "rdf.genenetwork.org" as "text/microdata+html"
* [X] Verify: `curl -H "Accept: text/html" http://rdf.genenetwork.org/v1/term/...`
* [X] Configure DNS (rdf.genenetwork.org) to point to gn-guile server.

## Resolution

=> https://git.genenetwork.org/gn-guile/commit/?id=45662839565f6482e7f034a07ae373bbeaeb9713

* closed