Changeset 1604

Timestamp:

Feb 4, 2013, 6:26:26 PM (12 years ago)

Author:

Sam Habiel

Message:

Further work on importing patients. Now implementing allergies. Implemented relational navigation for predicate in C0XGET3

Location:

fmts/trunk/p

Files:

• C0XGET3.m (modified) (2 diffs)
• C0XPT0.m (modified) (4 diffs)

fmts/trunk/p/C0XGET3.m

@@ -1 @@
-C0XGET3 ; VEN/SMH - Sam's Getters... let's try to make them simple ;2013-01-25  4:59 PM
+C0XGET3 ; VEN/SMH - Sam's Getters... let's try to make them simple ;2013-02-04  12:00 PM
  ;;1.1;FILEMAN TRIPLE STORE;
  ;
 IEN(N) ; Public $$; Resolved IEN of a stored string such as "rdf:type" in Strings File
+ I +N=N Q N ; We are given the IEN, just return it back
  Q $$IENOF^C0XGET1($$EXT^C0XUTIL(N))
  ;
@@ -25 +26 @@
  QUIT
 GSPO1(G,S,P) ; Public $$; Get Object for A Graph/Subject/Predicate combination
+ ; Supports forward relational navigation for predicates using "." as separator
+ N EP S EP=$P(P,".",2,99) ; Extended Predicate
+ S P=$P(P,".") ; Predicate becomes the first piece
  N O S O=$O(^C0X(101,"GSPO",$$IEN(G),$$IEN(S),$$IEN(P),""))
- Q:O="" ""
- Q ^C0X(201,O,0)
+ Q:O="" "" ; Another end point for recursion
+ Q:$L(EP) $$GSPO1(G,O,EP) ; if we have an extended predicate, recurse
+ Q ^C0X(201,O,0) ; this is the end point of the recursion.

fmts/trunk/p/C0XPT0.m

@@ -1 @@
-C0XPT0 ; VEN/SMH - Get patient data and do something about it ;2013-01-28  4:24 PM
+C0XPT0 ; VEN/SMH - Get patient data and do something about it ;2013-02-04  3:41 PM
  ;;1.1;FILEMAN TRIPLE STORE;;
  ;
@@ -27 +27 @@
  NEW RETURN
  D ADDPT(.RETURN,.PARAM)
- ZWRITE RETURN
  N DFN S DFN=$P(RETURN(1),U,2)
- D VITALS(G,DFN)
+ I DFN<1 S $EC=",U1," ; Debug.Assert that patient is added.
+ ; D VITALS(G,DFN)
  D PROBLEMS(G,DFN)
+ D ADR(G,DFN) ; Adverse Drug Reactions
  ;
  QUIT
@@ -177 +178 @@
  N S F S=0:0 S S=$O(^TMP($J,"VS",S)) Q:S=""  D
  . N ENC S ENC=$$GSPO1^C0XGET3(G,^TMP($J,"VS",S),"sp:encounter")
- . ZWRITE ENC
  ;
  ; D EN1^GMVDCSAV(.RESULT,DATA)
@@ -267 +267 @@
         I '$D(DA) S $EC=",U1," ; Fail here if API fails.
         QUIT
+        ;
+        ;
+ADR(G,DFN) ;  Private Proc; Extract Allergies and ADRs from Graph and add to Patient's Record
+        ; Input: G, Patient Graph, DFN, you should know that that is; Both by value.
+        ;
+        ; Try No known allergies first.
+        N NKA S NKA=$$ONETYPE1^C0XGET3(G,"sp:AllergyExclusion") ; Get NKA node
+        ;
+        ; Add allergies to record.
+        ; We don't really care about the return value. If patient already has
+        ; allergies, we just keep them.
+        I $L(NKA) N % S %=$$NKA^C0XPT0(DFN) QUIT  ; If it exists, let's try to file it into VISTA
+        ;
+        ; If we are here, it means that the patient has allergies. Fun!
+        ; Process incoming allergies
+        N RETURN ; Local return variable. I don't expect a patient to have more than 50 allergies.
+        D ONETYPE^C0XGET3($NA(RETURN),G,"sp:Allergy") ; Get all allergies for patient
+        ;
+        N S F S=0:0 S S=$O(RETURN(S)) Q:'S  D  ; For each allergy
+        . ; Get the SNOMED code for the category
+        . N ALLERGYTYPE
+        . N SNOCAT S SNOCAT=$$GSPO1^C0XGET3(G,RETURN(S),"sp:category.sp:code"),SNOCAT=$P(SNOCAT,"/",$L(SNOCAT,"/"))
+        . I SNOCAT=414285001 S ALLERGYTYPE="F" ; Food
+        . E  I SNOCAT=416098002 S ALLERGYTYPE="D" ; Drug
+        . I '$D(ALLERGYTYPE) S $EC=",U1," ; Crash if neither of these is true.
+        . ;
+        . N ALLERGEN,ALLERGENI ; Allergen, Internal Allergen
+        . I ALLERGYTYPE="F" D  ; Food
+        . . S ALLERGEN=$$UP^XLFSTR($$GSPO1^C0XGET3(G,RETURN(S),"sp:otherAllergen.dcterms:title")) ; uppercase the allergen
+        . . I ALLERGEN="PEANUT" S ALLERGEN="PEANUTS" ; temporary fix
+        . . S ALLERGENI=$$GMRA^C0XPT0(ALLERGEN) ; Get internal representation for GMRA call
+        . ;
+        . ; Otherwise, it's a drug. But we need to find out if it's a class,
+        . ; ingredient, canonical drug, etc. Unfortunately, Smart examples don't
+        . ; show such variety. The only one specified is a drug class.
+        . ; Therefore
+        . ; TODO: Handle other drug items besides drug class
+        . ;
+        . E  D  ; Drug
+        . . N DC S DC=$$GSPO1^C0XGET3(G,RETURN(S),"sp:drugClassAllergen.sp:code") ; drug class
+        . . I '$L(DC) QUIT  ; edit this line out when handling other items
+        . . S ALLERGEN=$P(DC,"/",$L(DC,"/")) ; Get last piece
+        . . ; TODO: Resolve drug class properly. Need all of RxNorm for that.
+        . . I ALLERGEN="N0000175503"
+        QUIT
+        ;
+NKA(DFN) ; Public $$; Add no known allergies to patient record
+        N ORDFN S ORDFN=DFN ; CPRS API requires this one
+        N ORY ; Return value: 0 - Everything is okay; -1^msg: Patient already has allergies
+        D NKA^GMRAGUI1 ; API
+        QUIT $G(ORY) ; Not always returned
+        ;
+GMRA(NAME)      ; $$ Private - Retrieve GMRAGNT for food allergy from 120.82
+        ; Input: Brand Name, By Value
+        ; Output: Entry Name^IEN;File Root for IEN
+        N C0PIEN S C0PIEN=$$FIND1^DIC(120.82,"","O",NAME,"B")
+        Q:C0PIEN $$GET1^DIQ(120.82,C0PIEN,.01)_"^"_C0PIEN_";GMRD(120.82,"
+        QUIT "" ; no match otherwise
+        ;
+TYPE(GMRAGNT)   ; $$ Private - Get allergy Type (Drug, food, or other)
+        ; Input: Allergen, formatted as Allergen^IEN;File Root
+        ; Output: Type (internal)^Type (external) e.g. D^Drug
+        N C0PIEN S C0PIEN=+$P(GMRAGNT,U,2)
+        I GMRAGNT["GMRD(120.82," Q $$GET1^DIQ(120.82,C0PIEN,"ALLERGY TYPE","I")_U_$$GET1^DIQ(120.82,C0PIEN,"ALLERGY TYPE","E")
+        Q "D^Drug" ; otherwise, it's a drug