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Use GBIF endpoints for collections #34

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Use GBIF endpoints for collections #34

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60 changes: 56 additions & 4 deletions app/controllers/publishers.js
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Original file line number Diff line number Diff line change
Expand Up @@ -10,24 +10,75 @@ var ReactDOMServer = require('react-dom/server');
import config from 'config/config'; // eslint-disable-line no-unused-vars
import logger from 'app/logging'; // eslint-disable-line no-unused-vars

const collectionDefaultValues = {
'institution': '',
'collection': '',
'recordsets': '',
'recordsetQuery': '',
'institution_code': '', // there is no longer an <IH> postfix on IH entries
'collection_code': '',
'collection_uuid': '',
'collection_lsid': '',
'collection_url': '',
'collection_catalog_url': '',
'description': '',
'descriptionForSpecialists': '', // not in GBIF, used 10 times in iDigBio
'cataloguedSpecimens': null,
'knownToContainTypes': null, // not in GBIF, used 84 times in iDigBio
'taxonCoverage': '',
'geographic_range': '',
'collectionExtent': '', // not in GBIF, when used in iDigBio then the value is often the same or used in same way as 'cataloguedSpecimens'
'contact': '', // GBIF have multiple contacts for a collection. Currently the first is in the response.
'contact_role': '',
'contact_email': '',
'mailing_address': '',
'mailing_city': '',
'mailing_state': '',
'mailing_zip': '',
'physical_address': '',
'physical_city': '',
'physical_state': '',
'physical_zip': '',
'UniqueNameUUID': '',
'attributionLogoURL': '', // the logo of the institution is used - this field has never been filled in iDigBio data
'providerManagedID': '', // not in GBIF and currently no info in iDigBio either
'derivedFrom': '', // not in GBIF and currently no info in iDigBio either
'sameAs': '',
'flags': '', // not in GBIF and currently no info in iDigBio either
'portalDisplay': '', // not in GBIF and currently no info in iDigBio either
'lat': null, // the location if the institution is used
'lon': null // the location if the institution is used
}

function transformCollection(record) {
// No mapping required, the GBIF endpoint currently provides a response that maps to iDigBio
// All we need to do it to add empty values, the iDigBio portal currently has that in the response.

// The GBIF response contains internal keys. Strip those for now. It might be useful for linking at some point.
delete record.collectionKey;
delete record.institutionKey;
return Object.assign({}, collectionDefaultValues, record);
}

// var RecordsetPage = require(appDir+'/public/react/build/recordset');
export default {
collections: function(req, res) {

request.get({"url": 'http://idigbio.github.io/idb-us-collections/collections.json', "json": true}, function(err, resp, body) {
request.get({"url": config.gbifApi + 'external/idigbio/collections', "json": true}, function(err, resp, body) {
if(err) {
logger.error(err);
}
const collections = body.map(transformCollection);
res.render('collections', {
activemenu: 'publishers',
user: req.user,
token: req.session._csrf,
data: JSON.stringify(body)
data: JSON.stringify(collections)
});
});
},
collection: function(req, res) {
request.get({"url": 'http://idigbio.github.io/idb-us-collections/collections/' + req.params.id, "json": true}, function(err, resp, body) {
request.get({"url": config.gbifApi + 'external/idigbio/collections/' + req.params.id, "json": true}, function(err, resp, body) {
if(err) {
logger.error(err);
} else if(resp.statusCode === 404) {
Expand All @@ -39,11 +90,12 @@ export default {
id: req.params.id
});
} else {
const collection = transformCollection(body);
res.render('collection', {
activemenu: 'publishers',
user: req.user,
token: req.session._csrf,
data: JSON.stringify(body)
data: JSON.stringify(collection)
});
}
});
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1 change: 1 addition & 0 deletions config/config.js
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Expand Up @@ -5,6 +5,7 @@ var config = {
env: process.env.NODE_ENV,
api: 'https://search.idigbio.org/v2/',
media: 'https://api.idigbio.org/',
gbifApi: 'https://api.gbif-uat.org/v1/', // TODO - currently pointing to UAT test env.
secret: process.env.IDB_SECRET || "imnotsecret",
root: path.normalize(path.join(__dirname, '..')),
app: {
Expand Down