candig/candig-data-portal

A data analytics and visualization portal for V2 CanDIG services.

candig-data-portal's Issues

re-organize table and json display in clinical search

Rather than having the horizontally-scrollable results table on the left and the json view on the right, can we make the table full-width (less scrolling) and put the json box below?

cancer diagnosis fields for demo search

The fields that we want to add to Clinical Search for the demo:

UI label	mcodepacket field
cancer type	cancer_condition.code
tumour histological type	cancer_condition.histology_morphology_behavior

I'll update this issue with the expected codes and their text equivalents (i.e. what should be in the pulldown). Here is some sample data:

Cancer types

• Breast (C50.9)
• Fallopian tube (C57.0)
• Liver (C22.9)
• Ovary (C56.9)
• Pancreas (C25.9)

Tumour histological type

• Pleomorphic carcinoma (80223)
• Small cell carcinoma NOS (80413)
• Non-small cell carcinoma (80463)
• Adenocarcinoma (81403)

search by cancer code / types is buggy or data formatting is wrong

I have patients with the following cancer_conditions:

"cancer_condition": {
  "body_site":"Pancreas",
  "code": { "id":"C25.9", "label":string"Not available" }
}

"cancer_condition": {
  "body_site": {"id":"Placeholder", "label" : "Ovarian cancer"},
  "code":{ "id":"C56.9", "label":"Not available"}
}

A search for Cancer_type = Ovary C56.9 returns 0 rows (should return patient 2)
A search for Cancer_type = Pancreas C25.9 returns the first patient (correct!)
Body Site = Ovarian Cancer returns 0 rows (should return patient 2)
Body Site = Pancreas doesn't even show up in the list of options

remove patientID box from clinical data search

This patient ID box is not a search field, and serves no real purpose. We can get rid of it.

calls to candig microservices need to go through Tyk

Current katsu calls are not going through Tyk - they are calling an internal katsu URL.

htsget also needs to do through Tyk.