private static string ExtractReportFromHL7(string hl7)
{
JObject obj = HL7ToXmlConverter.ConvertToJObject(hl7);
string msgtype = obj["hl7message"]["MSH"]["MSH.9"].GetFirstField();
StringBuilder builder = new StringBuilder();
if (msgtype.Equals("ORU") || msgtype.Equals("MDM"))
{
if (obj["hl7message"]["OBX"] is JArray)
{
foreach (var obx in obj["hl7message"]["OBX"])
{
if (Utilities.getFirstField(obx["OBX.2"]).Equals("TX") || Utilities.getFirstField(obx["OBX.2"]).Equals("FT"))
{
builder.Append(Utilities.getFirstField(obx["OBX.5"]).UnEscapeHL7());
}
}
}
else
{
if (Utilities.getFirstField(obj["hl7message"]["OBX"]["OBX.2"]).Equals("TX") || Utilities.getFirstField(obj["hl7message"]["OBX"]["OBX.2"]).Equals("FT"))
{
builder.Append(Utilities.getFirstField(obj["hl7message"]["OBX"]["OBX.5"]).UnEscapeHL7());
}
}
}
return(builder.ToString());
}
// <span class="code-SummaryComment"><summary></span>
/// Converts an HL7 message into a JSON Object from it's XML representation of the same message.
/// <span class="code-SummaryComment"></summary></span>
/// <span class="code-SummaryComment"><param name="sHL7">The HL7 to convert</param></span>
/// <span class="code-SummaryComment"><returns></returns></span>
public static string ConvertToJSON(string sHL7, JObject hl7metadata = null)
{
JObject o = HL7ToXmlConverter.ConvertToJObject(sHL7, hl7metadata);
if (o == null)
{
return(null);
}
return(JsonConvert.SerializeObject(o["hl7message"]));
}
// <span class="code-SummaryComment"><summary></span>
/// Converts an HL7 message into a JOject Object from it's XML representation of the same message.
/// <span class="code-SummaryComment"></summary></span>
/// <span class="code-SummaryComment"><param name="sHL7">The HL7 to convert</param></span>
/// <span class="code-SummaryComment"><returns>JObject with root of hl7message</returns></span>
public static JObject ConvertToJObject(string sHL7, JObject hl7metadata = null)
{
var xmld = HL7ToXmlConverter.ConvertToXmlDocument(sHL7, hl7metadata);
if (xmld != null)
{
string json = JsonConvert.SerializeXmlNode(xmld);
JObject o = JObject.Parse(json);
return(o);
}
return(null);
}
public static async Task <IActionResult> Run(
[HttpTrigger(AuthorizationLevel.Function, "post", Route = null)] HttpRequest req,
[CosmosDB(
databaseName: "%CosmosDBNAME%",
collectionName: "%CosmosHL7Collection%",
ConnectionStringSetting = "CosmosDBConnection")] DocumentClient client,
ClaimsPrincipal claimsPrincipal,
ILogger log)
{
string contenttype = string.IsNullOrEmpty(req.ContentType) ? "application/hl7-v2+er7; charset=utf-8" : req.ContentType;
log.LogInformation("C# TransformSaveToDB HTTP trigger function fired");
string coid = req.Query["id"];
if (coid == null)
{
coid = Guid.NewGuid().ToString();
}
string requestBody = await new StreamReader(req.Body).ReadToEndAsync();
JObject jobj = null;
try
{
jobj = HL7ToXmlConverter.ConvertToJObject(requestBody);
string rhm = determinerhm(jobj);
jobj["id"] = coid;
jobj["rhm"] = rhm;
jobj["location"] = req.GetIPAddress() ?? "";
Uri collection = UriFactory.CreateDocumentCollectionUri(Utilities.GetEnvironmentVariable("CosmosDBNAME", "hl7json"), Utilities.GetEnvironmentVariable("CosmosHL7Collection", "messages"));
var inserted = await client.UpsertDocumentAsync(collection, jobj);
Utilities.TraceAccess(log, claimsPrincipal, client, collection, Utilities.ACTION.UPSERT, coid);
var retVal = new ContentResult();
retVal.ContentType = contenttype;
retVal.Content = Utilities.GenerateACK(jobj);
return(retVal);
}
catch (Exception e)
{
log.LogError(e, e.Message);
var retVal = new ContentResult();
retVal.ContentType = "text/plain";
retVal.Content = e.Message;
retVal.StatusCode = 500;
return(retVal);
}
}
private static async Task <bool> processMessage(string message, DocumentClient client, ILogger logger, string id = null, string location = null)
{
//if (true) return true;
if (string.IsNullOrEmpty(message))
{
return(false);
}
string coid = (id ?? Guid.NewGuid().ToString());
int dirend = coid.LastIndexOf("/");
if (dirend > -1)
{
coid = coid.Substring(dirend + 1);
}
int extbegin = coid.LastIndexOf(".");
if (extbegin > -1)
{
coid = coid.Substring(0, extbegin);
}
JObject jobj = null;
//var metadata = HL7MetaDataLoader.Instance.GetMetaDataFromMessage(message);
try
{
jobj = HL7ToXmlConverter.ConvertToJObject(message);
if (jobj == null)
{
return(false);
}
string rhm = determinerhm(jobj);
jobj["id"] = coid;
jobj["rhm"] = rhm;
if (location != null)
{
jobj["location"] = location;
}
var inserted = await client.UpsertDocumentAsync(UriFactory.CreateDocumentCollectionUri("hl7json", "messages"), jobj);
//logger.LogTrace($"Message id {coid} from {rhm} added to Database");
return(true);
}
catch (Exception e)
{
logger.LogError(e, e.Message);
return(false);
}
}
public static async Task <IActionResult> Run(
[HttpTrigger(AuthorizationLevel.Function, "post", Route = null)] HttpRequest req,
ILogger log)
{
log.LogInformation("C# HL7toJSON HTTP trigger function fired");
string requestBody = await new StreamReader(req.Body).ReadToEndAsync();
try
{
var metadata = HL7MetaDataLoader.Instance.GetMetaDataFromMessage(requestBody);
JObject o = HL7ToXmlConverter.ConvertToJObject(requestBody, metadata);
return(new JsonResult(o["hl7message"]));
} catch (Exception e)
{
log.LogError(e, e.Message);
return(new BadRequestObjectResult("Error: " + e.Message));
}
}
public static async Task <IActionResult> Run(
[HttpTrigger(AuthorizationLevel.Function, "post", Route = null)] HttpRequest req,
[Blob("%StorageAccountBlob%", Connection = "StorageAccount")] CloudBlobContainer container, ILogger log)
{
string contenttype = req.ContentType;
log.LogInformation("C# TransformSaveToBlob HTTP trigger function fired");
string coid = req.Query["id"];
if (coid == null)
{
coid = Guid.NewGuid().ToString();
}
bool raw = req.Query.ContainsKey("raw");
string requestBody = await new StreamReader(req.Body).ReadToEndAsync();
JObject jobj = null;
try
{
jobj = HL7ToXmlConverter.ConvertToJObject(requestBody);
DateTime now = DateTime.Now;
string msgtype = (string)jobj["hl7message"]["MSH"]["MSH.9"]["MSH.9.1"];
string ds = now.Year.ToString() + "/" + now.Month.ToString("D2") + "/" + now.Day.ToString("D2") + "/" + now.Hour.ToString("D2");
await container.CreateIfNotExistsAsync();
CloudBlockBlob blockBlob = container.GetBlockBlobReference(msgtype.ToLower() + "/" + ds + "/" + coid.ToLower() + (raw ? ".hl7" : ".json"));
using (var stream = new MemoryStream(System.Text.Encoding.UTF8.GetBytes((raw ? requestBody : HL7ToXmlConverter.ConvertToJSON(jobj))), writable: false))
{
await blockBlob.UploadFromStreamAsync(stream);
}
var retVal = new ContentResult();
retVal.ContentType = contenttype;
retVal.Content = Utilities.GenerateACK(jobj);
return(retVal);
}
catch (Exception e)
{
log.LogError(e, req.ContentType + "**" + e.Message + "**" + e.StackTrace);
//return new System.Web.Http.InternalServerErrorResult();
return(new BadRequestObjectResult("Error: " + req.ContentType + "**" + e.Message + "**" + e.StackTrace));
}
}
/// <span class="code-SummaryComment"><summary></span>
/// Converts an HL7 message into an XML representation of the same message.
/// <span class="code-SummaryComment"></summary></span>
/// <span class="code-SummaryComment"><param name="sHL7">The HL7 to convert</param></span>
/// <span class="code-SummaryComment"><returns>XML String with root of hl7message</returns></span>
public static string ConvertToXml(string sHL7, JObject hl7metadata = null)
{
return(HL7ToXmlConverter.ConvertToXmlDocument(sHL7, hl7metadata).OuterXml);
}
/// <span class="code-SummaryComment"><summary></span>
/// Converts an HL7 message into an XMLDocument representation of the same message.
/// <span class="code-SummaryComment"></summary></span>
/// <span class="code-SummaryComment"><param name="sHL7">The HL7 to convert</param></span>
/// <span class="code-SummaryComment"><returns>XMLDocument with root of hl7message</returns></span>
public static XmlDocument ConvertToXmlDocument(string sHL7, JObject metadata = null)
{
try
{
if (string.IsNullOrEmpty(sHL7) || !sHL7.StartsWith("MSH"))
{
return(null);
}
XmlDocument _xmlDoc = null;
// Go and create the base XML
_xmlDoc = CreateXmlDoc();
// HL7 message segments are terminated by carriage returns,
// so to get an array of the message segments, split on carriage return
string[] sHL7Lines = sHL7.Split('\r');
// Now we want to replace any other unprintable control
// characters with whitespace otherwise they'll break the XML
for (int i = 0; i < sHL7Lines.Length; i++)
{
sHL7Lines[i] = Regex.Replace(sHL7Lines[i], @"[^ -~]", "");
}
/// Go through each segment in the message
/// and first get the fields, separated by pipe (|),
/// then for each of those, get the field components,
/// separated by carat (^), and check for
/// repetition (~) and also check each component
/// for subcomponents, and repetition within them too.
for (int i = 0; i < sHL7Lines.Length; i++)
{
string fs = null;
// Don't care about empty lines
if (sHL7Lines[i] != string.Empty)
{
// Get the line and get the line's segments
string sHL7Line = sHL7Lines[i];
if (fs == null)
{
fs = GetFieldSeparator(sHL7Line);
}
string[] sFields = HL7ToXmlConverter.GetMessgeFields(sHL7Line, fs);
// Create a new element in the XML for the line
var segmentextract = LookUpSegmentName(metadata, sFields[0]);
XmlElement el = _xmlDoc.CreateElement(segmentextract.ExtractedName);
if (segmentextract.Repeats)
{
var attribute = _xmlDoc.CreateAttribute("json", "Array", "http://james.newtonking.com/projects/json");
attribute.InnerText = "true";
el.Attributes.Append(attribute);
}
_xmlDoc.DocumentElement.AppendChild(el);
XmlElement sq = _xmlDoc.CreateElement("msgseq");
sq.InnerText = (i + 1).ToString();
el.AppendChild(sq);
// For each field in the line of HL7
for (int a = 1; a < sFields.Length; a++)
{
var fieldextract = LookUpFieldName(metadata, sFields[0], a.ToString());
// Create a new element
XmlElement fieldEl = _xmlDoc.CreateElement(fieldextract.ExtractedName);
if (fieldextract.Repeats)
{
var attribute = _xmlDoc.CreateAttribute("json", "Array", "http://james.newtonking.com/projects/json");
attribute.InnerText = "true";
fieldEl.Attributes.Append(attribute);
}
/// Part of the HL7 specification is that part
/// of the message header defines which characters
/// are going to be used to delimit the message
/// and since we want to capture the field that
/// contains those characters we need
/// to just capture them and stick them in an element.
if (sFields[a] != @"^~\&")
{
/// Get the components within this field, separated by carats (^)
/// If there are more than one, go through and create an element for
/// each, then check for subcomponents, and repetition in both.
string[] sRepeatingComponent = HL7ToXmlConverter.GetRepetitions(sFields[a]);
int rc = 0;
foreach (string r in sRepeatingComponent)
{
XmlElement repeatelement = null;
if (sRepeatingComponent.Length > 1)
{
repeatelement = _xmlDoc.CreateElement(fieldextract.ExtractedName);
}
string[] sComponents = HL7ToXmlConverter.GetComponents(r);
if (sComponents.Length > 1)
{
for (int b = 0; b < sComponents.Length; b++)
{
XmlElement componentEl = _xmlDoc.CreateElement(fieldextract.ExtractedName +
"." + (b + 1).ToString());
string[] subComponents = GetSubComponents(sComponents[b]);
if (subComponents.Length > 1)
// There were subcomponents
{
for (int c = 0; c < subComponents.Length; c++)
{
// Check for repetition
string[] subComponentRepetitions =
GetRepetitions(subComponents[c]);
if (subComponentRepetitions.Length > 1)
{
for (int d = 0;
d < subComponentRepetitions.Length;
d++)
{
XmlElement subComponentRepEl =
_xmlDoc.CreateElement(fieldextract.ExtractedName +
"." + (b + 1).ToString() +
"." + (c + 1).ToString() +
"." + (d + 1).ToString());
subComponentRepEl.InnerText =
subComponentRepetitions[d].UnEscapeHL7();
componentEl.AppendChild(subComponentRepEl);
}
}
else
{
XmlElement subComponentEl =
_xmlDoc.CreateElement(fieldextract.ExtractedName +
"." + (b + 1).ToString() + "." + (c + 1).ToString());
subComponentEl.InnerText = subComponents[c].UnEscapeHL7();
componentEl.AppendChild(subComponentEl);
}
}
if (sRepeatingComponent.Length > 1)
{
repeatelement.AppendChild(componentEl);
fieldEl.AppendChild(repeatelement);
}
else
{
fieldEl.AppendChild(componentEl);
}
}
else // There were no subcomponents
{
string[] sRepetitions =
HL7ToXmlConverter.GetRepetitions(sComponents[b]);
if (sRepetitions.Length > 1)
{
XmlElement repetitionEl = null;
for (int c = 0; c < sRepetitions.Length; c++)
{
repetitionEl =
_xmlDoc.CreateElement(sFields[0] + "." + (sRepeatingComponent.Length > 1 ? "." + rc.ToString() : ".") +
a.ToString() + "." + (b + 1).ToString() +
"." + (c + 1).ToString());
repetitionEl.InnerText = sRepetitions[c].UnEscapeHL7();
componentEl.AppendChild(repetitionEl);
}
fieldEl.AppendChild(componentEl);
el.AppendChild(fieldEl);
}
else
{
componentEl.InnerText = sComponents[b].UnEscapeHL7();
if (sRepeatingComponent.Length > 1)
{
repeatelement.AppendChild(componentEl);
el.AppendChild(repeatelement);
}
else
{
fieldEl.AppendChild(componentEl);
el.AppendChild(fieldEl);
}
}
}
}
//el.AppendChild(fieldEl);
}
else
{
if (sRepeatingComponent.Length > 1)
{
repeatelement.InnerText = sFields[a].UnEscapeHL7();
el.AppendChild(repeatelement);
}
else
{
fieldEl.InnerText = sFields[a].UnEscapeHL7();
el.AppendChild(fieldEl);
}
}
rc++;
}
}
else
{
fieldEl.InnerText = sFields[a].UnEscapeHL7();
el.AppendChild(fieldEl);
}
}
}
}
return(_xmlDoc);
}
catch (Exception exp)
{
Console.WriteLine(exp.Message);
return(null);
}
}