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When Everest parses certain medical section narratives within <text></text>, which are valid xml, it silently fails. For example, this section, taken from a NextGen example CDA r2:

<section>
  <templateId root="2.16.840.1.113883.10.20.22.2.12"/>
  <id root="2.201" extension="ReasonForVisit"/>
  <code code="29299-5" displayName="REASON FOR VISIT" codeSystem="2.16.840.1.113883.6.1" codeSystemName="LOINC"/>
  <title>Reason For Visit</title>
  <text>
    <paragraph>*** Most recent encounter only, dated '08/06/2012 10:59'. ***</paragraph>
    <paragraph>Mild Fever, 2 days</paragraph>
    <paragraph>Chills, 2 days</paragraph>
    <paragraph>Cough productive of greenish sputum, 2 days</paragraph>
  </text>
</section>

Specifically, it seems that Everest trips on the paragraph elements. I've attached a screenshot at a breakpoint showing the issue.

A potential workaround that I've thought of is simply modifying the document to replace <paragraph> and </paragraph> with <br/> before having Everest parse it, but I don't see why the framework fails on this relatively simple XML. Could it have something to do with the HL7v3 namespace being applied or not applied to the paragraph elements?

Hello,

I need to add a custom attribute "ID" to the ObservationMedia class in order to get this:
<observationMedia ID="string identifier" classCode="OBS" moodCode="EVN">

To do so, I created a custom ObservationMedia as below:

[Structure(Name = "ObservationMedia", Model = "POCD_MT000040UV", StructureType = StructureAttribute.StructureAttributeType.MessageType)]
public class MyObservationMedia : ObservationMedia
{
[Property(
Name = "ID",
PropertyType = PropertyAttribute.AttributeAttributeType.Structural,
Conformance = PropertyAttribute.AttributeConformanceType.Optional)]
[System.Xml.Serialization.XmlAttribute("ID")]
public string ID { get; set; }

}

Then I registered the class in the formatter objet using:

fmtr.RegisterXSITypeName("POCD_MT000040UV.ObservationMedia", typeof(MyObservationMedia));

Finally I use my custom class just like a classic ObservationMedia object:
Component4 component4 = new Component4();
MyObservationMedia obs_l = new MyObservationMedia();
obs_l.ID = "myID";
// other object initializations
component4.SetClinicalStatement(obs_l);

Unfortunately I get the error "MyObservationMedia is not a valid choice according to available choice elements and won't be formatted".

I already did this for a custom ServiceEvent class and it worked fine. It seems that the Component4.ClinicalStatement is not allowing to a MyObservationMedia objet.
Do I need to override Component4.SetClinicalStatement(ObservationMedia value) and what to put in that function ?

Thanks
Remy

Hello, I was wondering if you had any plans for making this library, at least the CDA data model, available via Nuget?
I am working on an application that runs in Azure SF and need to parse CDA into an object model, maybe using an Xml serializer to serialize a request body from a service call but I am having trouble understanding how I can use this library.
There is some documentation about generating a DLL (MARC.Everest.RMIM.UV.CDAr2.dll) but how can I just generate the source code? That would a be a way to get the model and not have to somehow deploy a DLL with my application in SF.
Any help is appreciated.
Thanks.

Miguel.

Can the CDA generator generate CDA's of version 2.1?

I'm trying to use gmpr to create a library to handle documents with this extension oid:

<ClinicalDocument xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xmlns="urn:hl7-org:v3"
xmlns:cda="urn:hl7-org:v3"
xmlns:sdtc="urn:hl7-org:sdtc">
	<realmCode code="US"/>
	<typeId root="**2.16.840.1.113883.1.3**" extension="**POCD_HD000040**"/>

I can barely find any information on this anymore, much less a usable MIF file.

If they're out there, I'm struggling to find them. The closest thing to a MIF I have managed to find is this:

http://www.hl7.org/documentcenter/public/standards/V3/RIM/C30247/rim0247c.zip

I tried running the *.coremif files in that archive to see if I could get anywhere, and they fail to generate anything useful - something about not supporting RIM 2.1.7.

Any assistance would be appreciated.

I'm using following code to parse the CCDA format .xml file in C#

var formatter = new XmlIts1Formatter();

            // Add CDA data types
            formatter.GraphAides.Add(new DatatypeFormatter() { CompatibilityMode = DatatypeFormatterCompatibilityMode.ClinicalDocumentArchitecture });

            // Disable validation
            formatter.ValidateConformance = false;

            // Open stream or data source
            using (var s = System.IO.File.OpenRead(filePath))
            {
                var result = formatter.Parse(s, typeof(ClinicalDocument).Assembly);
                var instance = result.Structure as ClinicalDocument;

                // do whatever you like with the CDA
            }

Are the CDA extensions linked below implemented on the Everest framework anyhow? Because I need to use them in a CDA and I seem unable to find them.

http://wiki.hl7.org/index.php?title=CDA_R2_Extensions#Non-HL7_Extensions

I have Section objects that I am setting the Code, Title, and Text properties on.

When I have entries for the section, I create the Entry objects and add them to the Section object. At document creation time everything looks good and validates.

When I do NOT have entries I am setting section.NullFlavor = NullFlavor.NoInformation; and all I get at document creation time for the section is: <section xsi:nil="true" nullFlavor="NI" />

The problems are:

When I validate I get

Attribute 'http://www.w3.org/2001/XMLSchema-instance,nil' must not appear on element 'section', because the {nillable} property of 'section' is false.

The other properties (like Code, Title and Text) are not rendered to the xml.

What am I doing wrong?

Hello,

Strangely, the RIM model set ObservationValue type to ANY, with maximumMultiplicity="*". I was expecting SET.

In my case I have multiple values in my observation

...

And running Everest I get only the last one.

Can you confirm this is normal behavior or is there a way to get multiple values loaded in the ANY type ?

Thanks

Hi,

Where do I find the the source for the assemblies located in the Solution Items folder?

Thanks.

Hi,

I am new to HL7 documents. Can this be used for parsing C-CDA (Consoldiated CDA )document to C# Objects Model? Any examples for this?

Both Windows Defender (I know) and Kapersky Antivirus are detecting this dll as Trojan:Win32/Rundas.B

Download of the zip is from github today.

Hello,
I am trying to use the framework on an asp.net core mvc project but I get an runtime exception. I am able to build the XML document, but directly after that I get the following exception:

System.NotSupportedException
HResult=0x80131515
Message=The invoked member is not supported in a dynamic assembly.
Source=mscorlib
StackTrace:
at System.Reflection.Emit.InternalAssemblyBuilder.get_Location()
at MARC.Everest.Formatters.XML.ITS1.CodeGen.CodeGenFormatter.CreateFormatterAssembly(Type[] rmimTypes, List`1 aides, Boolean generateDeep)
at MARC.Everest.Formatters.XML.ITS1.XmlIts1Formatter.BuildCache(Type[] t)
at MARC.Everest.Threading.WaitThreadPool.DoWorkItem(WorkItem state)
at MARC.Everest.Threading.WaitThreadPool.DispatchLoop()
at System.Threading.ExecutionContext.RunInternal(ExecutionContext executionContext, ContextCallback callback, Object state, Boolean preserveSyncCtx)
at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state, Boolean preserveSyncCtx)
at System.Threading.ExecutionContext.Run(ExecutionContext executionContext, ContextCallback callback, Object state)
at System.Threading.ThreadHelper.ThreadStart()

I am using the .NET Framework 4.6.1 and I already know that the problem comes from my method for formatting the document:

private static void PrintXml(ClinicalDocument ccda, Stream stream)
{

        MARC.Everest.Formatters.XML.ITS1.XmlIts1Formatter fmtr = new MARC.Everest.Formatters.XML.ITS1.XmlIts1Formatter();
        fmtr.GraphAides.Add(new DatatypeFormatter());
        fmtr.ValidateConformance = false;
        XmlStateWriter xsw = new XmlStateWriter(XmlWriter.Create(stream, new XmlWriterSettings() { Indent = true }));
        fmtr.Graph(xsw, ccda);
        xsw.Flush();
    }

If someone can help me fixing this I would be really thankful

I'm having a difficult time getting this to work. I've reviewed the following pages:
https://everest.codeplex.com/discussions/653908
http://te.marc-hi.ca/forums/default.aspx?g=posts&t=58

In my source XML I have the following:

<raceCode code="2106-3" displayName="White" codeSystem="2.16.840.1.113883.6.238" codeSystemName="Race &amp; Ethnicity - CDC"/>
<sdtc:raceCode code="2108-9" displayName="White European" codeSystem="2.16.840.1.113883.6.238" codeSystemName="Race &amp; Ethnicity - CDC"/>

Which fails to parse with the this error: System.Xml.XmlException: Can't parse 'raceCode' in namespace 'urn:hl7-org:sdtc'. The data does not appear to be an HL7v3 instance

This is my test that is blowing up:

        [TestMethod]
        public void ParseCcd()
        {
            var formatter = new XmlIts1Formatter();
            formatter.ValidateConformance = false;
            formatter.GraphAides.Add(new ClinicalDocumentDatatypeFormatter());
            formatter.RegisterXSITypeName("POCD_MT000040UV.Patient", typeof(MyPatientMultipleRaceCodes));
            formatter.Settings |= SettingsType.SuppressNullEnforcement | SettingsType.AlwaysCheckForOverrides;
            formatter.ValidateConformance = false;

            ClinicalDocument cda;
            using (var xr = new XmlStateReader(XmlReader.Create(@"C:\CDA_Tests\170.315_b1_toc_amb_ccd_r21_sample1_v8.xml")))
            {
                var result = formatter.Parse(xr, typeof(ClinicalDocument));
                cda = result.Structure as ClinicalDocument;
            }
        }

When I am rendering XML I have a different problem in that only one of the race codes is being assigned to the sdtc schema:

<sdtc:raceCode code="2106-3" codeSystem="2.16.840.1.113883.6.238" displayName="White" />
<raceCode code="2106-3" codeSystem="2.16.840.1.113883.6.238" displayName="White" />
<raceCode code="2108-9" codeSystem="2.16.840.1.113883.6.238" displayName="White European" />

Generated from this method:

        private MemoryStream RenderCda(ClinicalDocument cda)
        {
            XmlIts1Formatter fmtr = new XmlIts1Formatter();
            fmtr.RegisterXSITypeName("POCD_MT000040UV.Patient", typeof(MyPatientMultipleRaceCodes));
            fmtr.Settings |= SettingsType.SuppressNullEnforcement | SettingsType.AlwaysCheckForOverrides;
            fmtr.GraphAides.Add(new DatatypeFormatter());
            fmtr.ValidateConformance = false;

            // Prepare the output 
            var stream = new MemoryStream();
            XmlStateWriter xsw = new XmlStateWriter(XmlWriter.Create(stream, new XmlWriterSettings() { Indent = true }));
            xsw.WriteStartElement("ClinicalDocument", "urn:hl7-org:v3");
            xsw.WriteAttributeString("xmlns", "sdtc", null, "urn:hl7-org:sdtc");

            fmtr.Graph(xsw, cda);
            xsw.WriteEndElement();

            xsw.Flush();
            stream.Position = 0;

            return stream;
        }

I've been banging my head against this for quite awhile now. Any help would be welcomed.

If I create an empty class that inherits from ClinicalDocument, map some data into it and call this extension method on it I get an IndexOutOfRangeException:

    public static void ToStream(this ClinicalDocument clinicalDocument, Stream outputStream)
    {
        XmlWriter xw = XmlWriter.Create(outputStream, new XmlWriterSettings() { Indent = true });
        XmlStateWriter xsw = new XmlStateWriter(xw);
        XmlIts1Formatter xf = new XmlIts1Formatter();
        IFormatterGraphResult result = xf.Graph(xsw, clinicalDocument);
        xsw.Flush();            
    }

If I do the same mapping to a direct instance of ClinicalDocument itself it works. Why does it throw the exception on classes that inherit from ClinicalDocument?

For example:

public class TestDocument : ClinicalDocument
{}