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Patient/XXXX/$everything Inconsistencies b/t dbGap, KidsFirst and AnVIL #42

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bwalsh opened this issue Nov 5, 2021 · 0 comments
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@bwalsh
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bwalsh commented Nov 5, 2021

Attempting on dbGAP
https://dbgap-api.ncbi.nlm.nih.gov/fhir/x1/Patient/3635479/$everything

{
  "resourceType": "OperationOutcome",
  "text": {
    "status": "generated",
    "div": "<div xmlns=\"http://www.w3.org/1999/xhtml\"><h1>Operation Outcome</h1><table border=\"0\"><tr><td style=\"font-weight: bold;\">ERROR</td><td>[]</td><td><pre>Access denied by rule: Deny modifications</pre></td>\n\t\t\t</tr>\n\t\t</table>\n\t</div>"
  },
  "issue": [ {
    "severity": "error",
    "code": "processing",
    "diagnostics": "Access denied by rule: Deny modifications"
  } ]
}

AnVIL and KF both produce expected results

  • Anvil '/Patient/b8efc364-deaa-5fe8-857f-f993b3b19eb7/$everything'
["Patient","b8efc364-deaa-5fe8-857f-f993b3b19eb7"]
["DocumentReference","08f97245-a220-5985-90a0-e95122efa792"]
["DocumentReference","0a9865ab-4cca-5a8f-b58e-583f4c5295c1"]
["DocumentReference","b28ad98c-ed27-5653-b6f5-559c33db1114"]
["Organization","1000G-high-coverage-2019"]
["ResearchSubject","b8efc364-deaa-5fe8-857f-f993b3b19eb7"]
["Specimen","b8efc364-deaa-5fe8-857f-f993b3b19eb7"]
  • KF '/Patient/21953/$everything'
["Patient","21953"]
["DocumentReference","283209"]
["DocumentReference","283208"]
["DocumentReference","283195"]
["DocumentReference","283194"]
["DocumentReference","283193"]
["DocumentReference","283186"]
["DocumentReference","283187"]
["DocumentReference","283185"]
["Specimen","282798"]
["Specimen","282797"]
["Specimen","282795"]
["Specimen","282788"]
["Specimen","281926"]
["Specimen","281916"]
["Specimen","281911"]
["Specimen","281906"]
["Condition","22225"]
["ResearchSubject","22095"]
["ResearchStudy","22088"]
["Practitioner","21949"]
["Organization","21950"]
["PractitionerRole","21951"]
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