Changeset 306 for ccr

Timestamp:

Dec 11, 2008, 7:42:01 PM (16 years ago)

Author:

George Lilly

Message:

completed EXP2^{C0CRXN to validate VUID/RXNORM mappings against the NDF}

File:

• ccr/trunk/p/C0CRXN.m (modified) (3 diffs)

ccr/trunk/p/C0CRXN.m

@@ -31 +31 @@
  ; "DIFFERENT TEXT" FIELD TO "Y" IF THERE ARE DIFFERENCES
  ; USES SUPPORT ROUTINES FROM C0CRNF.m
- ;N C0CFDA,C0CA,C0CB,C0CC,C0CZX ;FDA WORK ARRAY, RNF ARRAYS, AND IEN ITERATOR
- ;N C0CFVA,C0CFRXN ; CLOSED ROOTS FOR SOURCE FILES
- ;N C0CF ; CLOSED ROOT FOR DESTINATION FILE
+ N C0CFDA,C0CA,C0CB,C0CC,C0CZX ;FDA WORK ARRAY, RNF ARRAYS, AND IEN ITERATOR
+ N C0CFVA,C0CFRXN ; CLOSED ROOTS FOR SOURCE FILES
+ N C0CF ; CLOSED ROOT FOR DESTINATION FILE
  S C0CVA=$$FILEREF^C0CRNF(176.111) ; C0C PHARMACY VA RXNORM MAPPING FILE
  S C0CFRXN=$$FILEREF^C0CRNF(176.001) ; CLOSED ROOT FOR RXNORM CONCEPT FILE
@@ -44 +44 @@
  . D FIELDS^C0CRNF("C0CC",176.112) ;GET FIELD NAMES FOR OUTPUT FILE
  . D GETN2^C0CRNF("C0CA",176.111,C0CZX,"","ALL") ;GET THE FIELDS
+ . I $$ZVALUE("MEDIATION CODE")="" D
+ . . S NORXN=NORXN+1 ;
+ . E  D  ; PROCESS MEDIATION CODE
+ . . S HASRXN=HASRXN+1
+ . . D SETFDA("MEDIATION CODE",$$ZVALUE("MEDIATION CODE")) ;
+ . I $$ZVALUE("VUID")="" D  ; BAD RECORD
+ . . S NOVUID=NOVUID+1
+ . . ;D SETFDA("VUID",$$ZVALUE("VUID"))
+ . E  D SETFDA("VUID TEXT",$$ZVALUE("VUID TEXT"))
+ . . ;ZWR C0CA
+ . D GETN2^C0CRNF("C0CB",176.001,$$ZVALUE("VUID"),"VUID","ALL")
+ . I $$ZVALUE("RXCUI","C0CB")'="" D  ; RXNORM FOUND
+ . . S RXFOUND=RXFOUND+1
+ . . I $$ZVALUE("MEDIATION CODE")="" D  ; THIS IS A NEW CODE
+ . . . D SETFDA("MEDIATION CODE",$$ZVALUE("RXCUI","C0CB"))
+ . . . D SETFDA("NEW","Y") ;FLAG RECORD HAS HAVING NEW RXNORM
+ . . W "RXNORM=",$$ZVALUE("RXCUI","C0CB")," ",$$ZVALUE("STR","C0CB"),!
+ . . W "VUID TEXT: ",$$ZVALUE("VUID TEXT"),!
+ . . I $$ZVALUE("VUID TEXT")=$$ZVALUE("STR","C0CB") S TXTMATCH=TXTMATCH+1
+ . . E  D  ;
+ . . . S ZZ=$$ZVALUE("VUID TEXT")_"^"_$$ZVALUE("STR","C0CB")
+ . . . D PUSH^GPLXPATH("NOMATCH",ZZ)
+ . . . D SETFDA("RXNORM TEXT",$$ZVALUE("STR","C0CB")) ;
+ . . . D SETFDA("DIFFERENT TEXT","Y") ;FLAG RECORD FOR DIFFERENT TEXT
+ . I $$ZVALUE("MEDIATION CODE")=$$ZVALUE("RXCUI","C0CB") D  ;
+ . . S RXMATCH=RXMATCH+1
+ . . W "VUID=",$$ZVALUE("VUID")," MATCH RXNORM=",$$ZVALUE("MEDIATION CODE"),!
+ . D CLEAN^DILF ; MAKE SURE WE ARE CLEANED UP
+ . S C0CFDA(176.112,"+"_C0CZX_",",.01)=$$ZVALUE("VUID") ; NEW VUID RECORD
+ . D UPDATE^DIE("","C0CFDA")
+ . I $D(^TMP("DIERR",$J)) U $P BREAK
+ W "HAS RXN=",HASRXN,!
+ W "NO RXN=",NORXN,!
+ W "NO VUID=",NOVUID,!
+ W "RXNORM FOUND=",RXFOUND,!
+ W "RXNORM MATCHES:",RXMATCH,!
+ W "TEXT MATCHES:",TXTMATCH,!
+ Q
+ ;
+EXP2 ; ROUTINE TO CREATE 176.113 C0C RXNORM VUID MAPPING DISCREPANCIES FILE
+ ; CROSS CHECKS THE NATIONAL DRUG FILE AND THE VA MAPPING FILE AGAINST
+ ; THE UMLS RXNORM DATABASE
+ ; IF THE VUID EXISISTS IN ALL THREE FILES, THE RXNORM CODE MATCHES IN 
+ ; THE VA MAPPING FILE AND THE TEXT STRINGS ARE THE SAME, THE VUID IS INCLUDED
+ ; IN THE FILE BUT NO FLAGS ARE SET
+ ; IF THE VUID IS MISSING FROM THE NATIONAL DRUG FILE NDF=N
+ ; IF THE VUID IS MISSING FROM THE VA MAPPING FILE VAMAP=N
+ ; IF THE VUID IS PRESENT IN THE VA MAPPING FILE, BUT THE RXNORM
+ ; CODE IS MISSING IN THAT FILE, VARXN=N
+ ; IF THE TEXT STRINGS DO NOT MATCH EXACTLY, TXTM=N AND ALL THREE STRINGS
+ ; ARE SHOWN; NDF TEXT=NDF TEXT STRING, VA MAP TEXT=VA MAPPING TEXT STRING
+ ; RXNORM TEXT=RXNORM TEXT STRING 
+ ; THE FILE IS KEYED ON VUID AND WOULD USUALLY BE SORTED BY VUID
+ ; THE OBJECTIVE IS TO SEE IF NDF (50.68) AND VA MAPPING (176.111) HAVE 
+ ; ALL THE VUID CODES THAT ARE IN THE UMLS RXNORM DATABASE
+ N C0CFDA,C0CA,C0CB,C0CC,C0CZX ;FDA WORK ARRAY, RNF ARRAYS, AND IEN ITERATOR
+ N C0CFVA,C0CFRXN ; CLOSED ROOTS FOR SOURCE FILES
+ N C0CF ; CLOSED ROOT FOR DESTINATION FILE
+ S C0CVA=$$FILEREF^C0CRNF(176.111) ; C0C PHARMACY VA RXNORM MAPPING FILE
+ S C0CFRXN=$$FILEREF^C0CRNF(176.001) ; CLOSED ROOT FOR RXNORM CONCEPT FILE
+ ;S C0CF=$$FILEREF^C0CRNF(176.113) ; C0C RXNORM VUID MAPPING ADDITIONAL FILE
+ W C0CVA,C0CFRXN,! ;C0CF,!
+ S C0CZX=0
+ S (NDFVCNT,NDFTCNT,NDFNO)=0 ; COUNTERS FOR NDF TESTS
+ S (VAVCNT,VATCNT,VARCNT,VANO)=0 ; COUNTERS FOR VA MAPPING FILE TESTS
+ F  S C0CZX=$O(^C0CRXN(176.001,"VUID",C0CZX)) Q:+C0CZX=0  D  ; FOR EVERY VUID
+ . K C0CA,C0CB,C0CC,C0CD ; CLEAR ARRAYS
+ . D FIELDS^C0CRNF("C0CC",176.113) ;GET FIELD NAMES FOR OUTPUT FILE
+ . D GETN2^C0CRNF("C0CA",176.001,C0CZX,"VUID","ALL") ;GET FROM RXNORM FILE
+ . D GETN2^C0CRNF("C0CB",176.111,C0CZX,"B","ALL") ;GET FROM VA MAPPING FILE
+ . D GETN2^C0CRNF("C0CD",50.68,C0CZX,"AVUID","ALL") ;GET FROM NDF
+ . ;D SETFDA("VUID",$$ZVALUE("CODE")) ;SET THE VUID CODE
+ . D SETFDA("RXNORM",$$ZVALUE("RXCUI")) ;SET THE RXNORM CODE
+ . D SETFDA("RXNORM TEXT",$$ZVALUE("STR")) ;SET THE RXNORM TEXT
+ . ;VA MAPPING FILE TESTS
+ . I $$ZVALUE("VUID","C0CB")=C0CZX D  ; VUID FOUND
+ . . S VAVCNT=VAVCNT+1 ;INCREMENT COUNT
+ . . I $$ZVALUE("STR")'=$$ZVALUE("VUID TEXT","C0CB") D  ;TEXT MISMATCH
+ . . . S VATCNT=VATCNT+1 ; INCREMENT VA TEXT MISMATCH COUNT
+ . . . D SETFDA("TXTM","N") ;MARK THAT TEXT DOESN'T MATCH
+ . . . D SETFDA("VA MAP TEXT",$$ZVALUE("VUID TEXT","C0CB")) ; SET VA MAP TEXT
+ . E  D  ; VUID NOT FOUND
+ . . S VANO=VANO+1
+ . . D SETFDA("VAMAP","N") ;MARK AS MISSING FROM VA MAPPING FILE
+ . ; NATIONAL DRUG FILE TESTS
+ . I $$ZVALUE("VUID","C0CD")=C0CZX D  ; FOUND IN NATIONAL DRUG FILE
+ . . S NDFVCNT=NDFVCNT+1 ;INCREMENT VUID FOUND COUNT
+ . . I $$ZVALUE("NAME","C0CD")'=$$ZVALUE("STR") D  ;NDF TEXT DOESN'T MATCH
+ . . . S NDFTCNT=NDFTCNT+1 ; INCREMENT MISMATCHED NDF TEXT COUNT
+ . . . D SETFDA("TXTM","N") ; SET TEXT MATCH FLAG TO N
+ . . . D SETFDA("NDF TEXT",$$ZVALUE("NAME","C0CD")) ;POST THE TEXT 
+ . E  D  ;
+ . . D SETFDA("NDF","N") ;MARK AS MISSING
+ . . S NDFNO=NDFNO+1 ;INCREMENT MISSING COUNT
+ . D CLEAN^DILF ; MAKE SURE WE ARE CLEANED UP
+ . S C0CFDA(176.113,"+"_C0CZX_",",.01)=C0CZX ; NEW VUID RECORD
+ . D UPDATE^DIE("","C0CFDA")
+ . I $D(^TMP("DIERR",$J)) U $P BREAK
+ W "VA MAPPING VUID COUNT: ",VAVCNT,!
+ W "VA MAPPING MISSING: ",VANO,!
+ W "VA MAPPING TEXT MISMATCH: ",VATCNT,!
+ W "NDF VUID COUNT: ",NDFVCNT,!
+ W "NDF MISSING: ",NDFNO,!
+ W "NDF TEXT MISMATCH: ",NDFTCNT,!
+ Q
+CHKNDF ; ROUTINE TO CHECK THE NATIONAL DRUG FILE WITH THE UMLS RXNORM DB
+ ; USING THE AVUID INDEX, READS ALL VUID CODES IN ^PSNDF(50.68),
+ ; CHECKS TO SEE IF THE CODE IS IN 176.001, AND CREATES A RECORD
+ ; IN 176.114 
+ ; THE OBJECTIVE IS TO SEE IF ^PSNDF(50.68) HAS ALL THE VUID CODES IN THE 
+ ; UMLS RXNORM DATABASE AND IF THE TEXT FIELDS MATCH
+ ; ALSO CAPTURES THE RXNORM CODE MAPPING
+ ; CHKNDF2 WILL CHECK THE OTHER DIRECTION, STARTING WITH THE 176.001 VUID INDEX
+ ; THIS ROUTINE ALSO CHECKS IF THE VUID CODE IS IN 176.111 AND IF NOT
+ ; SETS NOTMAPPED=Y
+ N C0CFDA,C0CA,C0CB,C0CC,C0CZX ;FDA WORK ARRAY, RNF ARRAYS, AND IEN ITERATOR
+ N C0CFVA,C0CFRXN,C0CPSNDF ; CLOSED ROOTS FOR SOURCE FILES
+ N C0CF ; CLOSED ROOT FOR DESTINATION FILE
+ S C0CPSNDF=$$FILEREF^C0CRNF(50.68) ; NDF CLOSED ROOT REFERENCE
+ S C0CVA=$$FILEREF^C0CRNF(176.111) ; C0C PHARMACY VA RXNORM MAPPING FILE
+ S C0CFRXN=$$FILEREF^C0CRNF(176.001) ; CLOSED ROOT FOR RXNORM CONCEPT FILE
+ ;S C0CF=$$FILEREF^C0CRNF(176.113) ; C0C RXNORM VUID MAPPING ADDITIONAL FILE
+ W C0CVA,C0CFRXN,! ;C0CF,!
+ S C0CZX=0
+ S (FOUND,MISSING)=0
+ S (NOVUID,VMATCH,NOMATCH,MISSING,FOUND,TXTMATCH,NOTM,NVAM)=0 ; COUNTERS
+ F  S C0CZX=$O(^PSNDF(50.68,"AVUID",C0CZX)) Q:+C0CZX=0  D  ; FOR EVERY VUID
+ . K C0CA,C0CB,C0CC,C0CD ; CLEAR ARRAYS
+ . ;D FIELDS^C0CRNF("C0CC",176.113) ;GET FIELD NAMES FOR OUTPUT FILE
+ . D GETN2^C0CRNF("C0CA",50.68,C0CZX,"AVUID","ALL") ;GET THE FIELDS
+ . I $$ZVALUE("VUID")="" D  ; ERROR, SHOULD NOT HAPPEN
+ . . S NOVUID=NOVUID+1 ; FLAG THE ERROR
+ . . D PUSH^GPLXPATH("NOVUID",C0CZX) ; RECORD THE VUID
+ . D GETN2^C0CRNF("C0CD",176.001,C0CZX,"VUID","ALL") ;TRY RXNORM DB
+ . I $$ZVALUE("CODE","C0CD")=C0CZX D  ; FOUND IN RXNORM
+ . . S VMATCH=VMATCH+1 ; COUNT OF PSNDF VUIDS FOUND IN RXNORM
+ . . I $$ZVALUE("NAME")=$$ZVALUE("STR","C0CD") D  ;TEXT MATCHES
+ . . . S TXTMATCH=TXTMATCH+1 ; COUNT IT
+ . . E  D  ; TEXT DOESN'T MATCH
+ . . . S NOTM=NOTM+1 ;NO TEXT MATCH COUNTER
+ . . . S ZV=$$ZVALUE("NAME")_"^"_$$ZVALUE("STR","C0CD")
+ . . . W ZV,!
+ . . . D PUSH^GPLXPATH("TXTNM",ZV) ; RECORD THE TXT MISMATCH
+ . E  S NOMATCH=NOMATCH+1 ; NOT FOUND IN RXNORM
+ . D GETN2^C0CRNF("C0CB",176.111,C0CZX,"B","ALL") ;TRY TO GET FROM 176.111
+ . I $$ZVALUE("VUID","C0CB")="" D  ; VUID NOT FOUND
+ . . ;W "NOT FOUND: ",C0CZX," ",$$ZVALUE("STR")," ",$$ZVALUE("RXCUI"),!
+ . . S MISSING=MISSING+1
+ . . D PUSH^GPLXPATH("MISSING",C0CZX) ;MISSING FROM MAPPING FILE
+ . E  D  ; FOUND IN VA MAPPING FILE
+ . . S FOUND=FOUND+1
+ . . I $$ZVALUE("VUID TEXT","C0CB")'=$$ZVALUE("NAME") D  ; TEXT DOESN'T MATCH
+ . . . S NVAM=NVAM+1 ; MAPPING FILE TEXT IS DIFFERENT THAN NDF
+ . . . S ZY=$$ZVALUE("VUID TEXT","C0CB")_"^"_$$ZVALUE("NAME") ;BOTH STRINGS
+ . . . W "VA: ",ZY,!
+ . . . D PUSH^GPLXPATH("NVAM",ZY) ;SAVE IT 
+ W "MISSING IN MAPPING FILE: ",MISSING,!
+ W "FOUND IN MAPPING FILE: ",FOUND,!
+ W "FOUND IN RXNORM: ",VMATCH,!
+ W "NOT FOUND IN RXNORM: ",NOMATCH,!
+ W "ERRORS: ",NOVUID,!
+ Q
+ ;
  . I $$ZVALUE("MEDIATION CODE")="" D
  . . S NORXN=NORXN+1 ;
@@ -81 +244 @@
  W "TEXT MATCHES:",TXTMATCH,!
  Q
- ;
 SETFDA(C0CSN,C0CSV) ; INTERNAL ROUTINE TO MAKE AN FDA ENTRY FOR FIELD C0CSN
  ; TO SET TO VALUE C0CSV.