FHIR Chat · Trying to reference another element within a DataType

Stream: committers

Topic: Trying to reference another element within a DataType

Khalid Shahin (Jun 10 2020 at 22:16):

So I see that some resources have the ability to nest elements within themselves like with Parameters.parameter.part where it has all the elements of Parameters.parameter: http://build.fhir.org/parameters.html

I was able to successfully do this with another resource EvidenceReport.section.section: http://build.fhir.org/evidencereport.html

And I want to do that with the Statistic DataType: http://build.fhir.org/statistic.html

But when I try doing this with a Statistic.attributeEstimate.attributeEstimate the build fails with this error message at the end:

     [java]  ...page statistic.html                                                    0.007 574sec 1959MB
     [java] This was a Full Build                                                      0.013 574sec 1959MB
     [java] FHIR build failure @ Wed, Jun 10, 2020 18:11-0400                          2.804 577sec 1959MB
     [java] Error: null
     [java] java.lang.NullPointerException
     [java]     at org.hl7.fhir.definitions.generators.specification.SvgGenerator.getItemForPath(SvgGenerator.java:968)
     [java]     at org.hl7.fhir.definitions.generators.specification.SvgGenerator.drawClass(SvgGenerator.java:933)
     [java]     at org.hl7.fhir.definitions.generators.specification.SvgGenerator.drawClass(SvgGenerator.java:931)
     [java]     at org.hl7.fhir.definitions.generators.specification.SvgGenerator.drawElement(SvgGenerator.java:782)
     [java]     at org.hl7.fhir.definitions.generators.specification.SvgGenerator.generate(SvgGenerator.java:195)
     [java]     at org.hl7.fhir.tools.publisher.PageProcessor.umlForDt(PageProcessor.java:2575)
     [java]     at org.hl7.fhir.tools.publisher.PageProcessor.processPageIncludes(PageProcessor.java:690)
     [java]     at org.hl7.fhir.tools.publisher.PageProcessor.processPageIncludes(PageProcessor.java:660)
     [java]     at org.hl7.fhir.tools.publisher.PageProcessor.processPageIncludes(PageProcessor.java:656)
     [java]     at org.hl7.fhir.tools.publisher.Publisher.producePage(Publisher.java:5263)
     [java]     at org.hl7.fhir.tools.publisher.Publisher.produceSpec(Publisher.java:2437)
     [java]     at org.hl7.fhir.tools.publisher.Publisher.produceSpecification(Publisher.java:2217)
     [java]     at org.hl7.fhir.tools.publisher.Publisher.execute(Publisher.java:626)
     [java]     at org.hl7.fhir.tools.publisher.Publisher.main(Publisher.java:487)

BUILD FAILED
C:\Users\Khalid\Documents\GitHub\fhir\build.xml:30: The following error occurred while executing this line:
C:\Users\Khalid\Documents\GitHub\fhir\tools\java\org.hl7.fhir.tools.core\build.xml:70: Java returned: 1

Is it failing because you can't reference another element within a DataType? If so, what should we do instead?

Lloyd McKenzie (Jun 10 2020 at 22:57):

Can you show exactly what you're trying to do?

Khalid Shahin (Jun 11 2020 at 01:10):

Sure, I attached the Statistic DataType spreadsheet. It's row 21 "Statistic.attributeEstimate.attributeEstimate" statistic.xml

And we're replacing Statistic.attributeEstimate.estimateQualifier with Statistic.attributeEstimate.attributeEstimate so that it can be nested indefinitely such as Statistic.attributeEstimate.attributeEstimate.attributeEstimate

I'm trying to nest the attributeEstimate inside of itself so you can have an any number of nesting of attributeEstimates. For example, you have a a Statistic of "-4.60" on Statistic.quantity and that's coded as "Mean Difference" on the Statistic.statisticType. But that Mean Difference also has more attribute estimate (or can be called precision estimate) about it like the p-value, I-squared, or Cochran's Q statistic stored under Statistic.attributeEstimate. And that Cochran's Q statistic could have an attributeEstimate about it like a Confidence interval which would be captured under Statistic.attributeEstimate.attributeEstimate.

So all together the Statistic would look something like. (I made this example up)

{
  "statisticType": {
    "coding": [
      {
        "code": "0000457",
        "display": "Mean Difference"
      }
    ]
  },
  "quantity": -4.6,
  "attributeEstimate": [
    {
      "type": {
        "coding": [
          {
            "code": "0000419",
            "display": "Cochran's Q statistic"
          }
        ]
      },
      "quantity": 7.36,
      "attributeEstimate": [
        {
          "type": {
            "coding": [
              {
                "code": "C53324",
                "display": "Confidence interval"
              }
            ]
          },
          "range": {
            "low": 7.06,
            "high": 8.12
          }
        }
      ]
    }
  ]
}

And the StatisticAttributeEstimateType codesystem: http://build.fhir.org/valueset-attribute-estimate-type.html

Would making attributeEstimate a DataType allow us to nest an attributeEstimate inside of itself?

Lloyd McKenzie (Jun 11 2020 at 02:03):

@Grahame Grieve

Khalid Shahin (Jun 11 2020 at 19:04):

And another example could be I-squared instead of "Cochran's Q statistic" if you're more familiar with that.

Khalid Shahin (Jun 24 2020 at 16:50):

@Grahame Grieve @Lloyd McKenzie

I believe this could be a bug in the publisher.bat because it was a null pointer error.

Grahame Grieve (Jun 24 2020 at 20:18):

it's on my todo list, but not close to the top :frown:

Last updated: Apr 12 2022 at 19:14 UTC

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FHIR Chat · Trying to reference another element within a DataType · committers