source: ccr/trunk/rxnorm/trunk/routines/C0CRXNRD.m@ 1642

Last change on this file since 1642 was 1642, checked in by Sam Habiel, 12 years ago

Fixed a tiny bug so that invalid vuids can't try to get a GCN
File size: 6.3 KB
Line 
1C0CRXNRD ; VEN/SMH - RxNorm Utilities: Routine to Read RxNorm files;2013-11-14 1:23 PM
2 ;;2.3;RXNORM FOR VISTA;;Jul 22, 2014;Build 10
3 ; (C) Sam Habiel 2013
4 ; See license for terms of use.
5 ;
6 W "No entry from top" Q
7IMPORT(PATH,RESTRICTED) ; PUBLIC ENTRY POINT. Rest are private
8 I PATH="" QUIT
9 S RESTRICTED=$G(RESTRICTED,0)
10 S U="^"
11 N STARTTIME S STARTTIME=$P($H,",")*24*60*60+$P($H,",",2)
12 N SABS
13 D SAB(PATH,.SABS) ; Load restriction values into SAB. ; 176.006
14 D CONSO(PATH,.SABS,RESTRICTED),SAT(PATH,.SABS,RESTRICTED) ; 176.001,176.002
15 D STY(PATH),REL(PATH),DOC(PATH) ; 176.003-5
16 N ENDTIME S ENDTIME=$P($H,",")*24*60*60+$P($H,",",2)
17 W !,(ENDTIME-STARTTIME)/60_" minutes elapsed"
18 QUIT
19 ;
20 ; Everything is private from down on...
21DELFILED(FN) ; Delete file data; PEP procedure; only for RxNorm files
22 ; FN is Filenumber passed by Value
23 QUIT:$E(FN,1,3)'=176 ; Quit if not RxNorm files
24 N ROOT S ROOT=$$ROOT^DILFD(FN,"",1) ; global root
25 N ZERO S ZERO=@ROOT@(0) ; Save zero node
26 S $P(ZERO,U,3,9999)="" ; Remove entry # and last edited
27 K @ROOT ; Kill the file -- so sad!
28 S @ROOT@(0)=ZERO ; It riseth again!
29 QUIT
30GETLINES(PATH,FILENAME) ; Get number of lines in a file
31 N POP
32 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
33 Q:POP
34 U IO
35 N I,LINE
36 F I=1:1 R LINE:0 Q:$$STATUS^%ZISH
37 D CLOSE^%ZISH("FILE")
38 Q I-1
39CONSO(PATH,SABS,RESTRICTED) ; Open and read concepts file: RXNCONSO.RRF
40 ; PATH ByVal, path of RxNorm files
41 ; SABS ByRef, arrays of SABS(SAB)=restriction level
42 ; RESTRICTED ByVal, include restricted sources. 1 for yes, 0 for no
43 I PATH="" QUIT
44 N FILENAME S FILENAME="RXNCONSO.RRF"
45 D DELFILED(176.001) ; delete data
46 N LINES S LINES=$$GETLINES(PATH,FILENAME)
47 N POP
48 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
49 IF POP D EN^DDIOL("Error reading file..., Please check...") G EX
50 N C0CCOUNT
51 F C0CCOUNT=1:1 D Q:$$STATUS^%ZISH
52 . U IO
53 . N LINE R LINE:0
54 . IF $$STATUS^%ZISH QUIT
55 . I '(C0CCOUNT#1000) U $P W C0CCOUNT," of ",LINES," read ",! U IO ; update every 1000
56 . ;
57 . ; Deal with restriction level
58 . N SAB S SAB=$P(LINE,"|",12)
59 . I 'RESTRICTED,SABS(SAB) QUIT ; If not include restricted, and SABS(SAB) is not zero, quit
60 . ;
61 . ; Save data
62 . S ^C0CRXN(176.001,C0CCOUNT,0)=$TR(LINE,"|^","^|")
63EX D CLOSE^%ZISH("FILE")
64 N DIK S DIK="^C0CRXN(176.001," D IXALL^DIK
65 QUIT
66 ;
67 ;
68SAT(PATH,SABS,RESTRICTED) ; Open and read Concept and Atom attributes: RXNSAT.RRF
69 ; PATH ByVal, path of RxNorm files
70 ; SABS ByRef, arrays of SABS(SAB)=restriction level
71 ; RESTRICTED ByVal, include restricted sources. 1 for yes, 0 for no
72 I PATH="" QUIT
73 N FILENAME S FILENAME="RXNSAT.RRF"
74 D DELFILED(176.002) ; delete data
75 N LINES S LINES=$$GETLINES(PATH,FILENAME)
76 N POP
77 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
78 IF POP W "Error reading file..., Please check...",! G EX2
79 N C0CCOUNT F C0CCOUNT=1:1 Q:$$STATUS^%ZISH D
80 . U IO
81 . N LINE R LINE:0
82 . IF $$STATUS^%ZISH QUIT
83 . I '(C0CCOUNT#1000) U $P W C0CCOUNT," of ",LINES," read ",! U IO ; update every 1000
84 . ;
85 . ; We switch around the fields .01 and .09 because the .01 isn't always present; where as .09 is required
86 . N RXCUI1,ATN9
87 . S RXCUI1=$P(LINE,"|",1)
88 . S ATN9=$P(LINE,"|",9)
89 . S $P(LINE,"|",1)=ATN9
90 . S $P(LINE,"|",9)=RXCUI1
91 . ;
92 . ; Deal with restricted sources
93 . N SAB S SAB=$P(LINE,"|",10)
94 . I 'RESTRICTED,SABS(SAB) QUIT ; If not include restricted, and SABS(SAB) is not zero, quit
95 . ;
96 . ; Save off
97 . S ^C0CRXN(176.002,C0CCOUNT,0)=$TR(LINE,"|^","^|")
98EX2 D CLOSE^%ZISH("FILE")
99 N DIK S DIK="^C0CRXN(176.002," D IXALL^DIK
100 QUIT
101 ;
102 ;
103SAB(PATH,SABS) ; Open the read RxNorm Sources file: RXNSAB.RRF
104 I PATH="" QUIT
105 N FILENAME S FILENAME="RXNSAB.RRF"
106 D DELFILED(176.003) ; delete data
107 N POP
108 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
109 IF POP W "Error reading file..., Please check...",! G EX3
110 N I F I=1:1 Q:$$STATUS^%ZISH D
111 . U IO
112 . N LINE R LINE:0
113 . IF $$STATUS^%ZISH QUIT
114 . U $P W I,! U IO ; Write I to the screen, then go back to reading the file
115 . ; Switch pieces 1 and 4 because 4 is always defined. Goes into .01 field.
116 . N VCUI S VCUI=$P(LINE,"|",1)
117 . N RSAB S RSAB=$P(LINE,"|",4)
118 . S $P(LINE,"|",1)=RSAB
119 . S $P(LINE,"|",4)=VCUI
120 . S ^C0CRXN(176.003,I,0)=$TR(LINE,"^|","|^")
121EX3 D CLOSE^%ZISH("FILE")
122 N DIK S DIK="^C0CRXN(176.003," D IXALL^DIK
123 N C0CI F C0CI=0:0 S C0CI=$O(^C0CRXN(176.003,C0CI)) Q:'C0CI D
124 . S SABS($$GET1^DIQ(176.003,C0CI,.01))=$$GET1^DIQ(176.003,C0CI,"SRL")
125 QUIT
126STY(PATH) ; Open and read RxNorm Semantic types file: RXNSTY.RRF
127 I PATH="" QUIT
128 N FILENAME S FILENAME="RXNSTY.RRF"
129 D DELFILED(176.004) ; delete data
130 N LINES S LINES=$$GETLINES(PATH,FILENAME) ; Get # of lines
131 N POP
132 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
133 IF POP W "Error reading file..., Please check...",! G EX4
134 N I F I=1:1 Q:$$STATUS^%ZISH D
135 . U IO
136 . N LINE R LINE:0
137 . IF $$STATUS^%ZISH QUIT
138 . I '(I#1000) U $P W I," of ",LINES," read ",! U IO ; update every 1000
139 . S ^C0CRXN(176.004,I,0)=$TR(LINE,"^|","|^")
140EX4 D CLOSE^%ZISH("FILE")
141 N DIK S DIK="^C0CRXN(176.004," D IXALL^DIK
142 QUIT
143 ;
144REL(PATH) ; Open and read RxNorm Relationships file: RXNREL.RRF
145 I PATH="" QUIT
146 N FILENAME S FILENAME="RXNREL.RRF"
147 D DELFILED(176.005) ; delete data
148 N LINES S LINES=$$GETLINES(PATH,FILENAME) ; Get # of lines
149 N POP
150 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
151 IF POP W "Error reading file..., Please check...",! G EX5
152 N I F I=1:1 Q:$$STATUS^%ZISH D
153 . U IO
154 . N LINE R LINE:0
155 . IF $$STATUS^%ZISH QUIT
156 . I '(I#1000) U $P W I," of ",LINES," read ",! U IO ; update every 1000
157 . ; swap RXCUI1 location with SAB b/c SAB is required so can be .01 field
158 . N RXCUI1 S RXCUI1=$P(LINE,"|",1)
159 . N SAB S SAB=$P(LINE,"|",11)
160 . S $P(LINE,"|",1)=SAB
161 . S $P(LINE,"|",11)=RXCUI1
162 . S ^C0CRXN(176.005,I,0)=$TR(LINE,"^|","|^")
163EX5 D CLOSE^%ZISH("FILE")
164 N DIK S DIK="^C0CRXN(176.005," D IXALL^DIK
165 QUIT
166DOC(PATH) ; Open the read RxNorm Abbreviation Documentation file: RXNDOC.RRF
167 I PATH="" QUIT
168 N FILENAME S FILENAME="RXNDOC.RRF"
169 D DELFILED(176.006) ; delete data
170 N LINES S LINES=$$GETLINES(PATH,FILENAME) ; Get # of lines
171 N POP
172 D OPEN^%ZISH("FILE",PATH,FILENAME,"R")
173 IF POP W "Error reading file..., Please check...",! G EX6
174 N I F I=1:1 Q:$$STATUS^%ZISH D
175 . U IO
176 . N LINE R LINE:0
177 . IF $$STATUS^%ZISH QUIT
178 . I '(I#1000) U $P W I," of ",LINES," read ",! U IO ; update every 1000
179 . S ^C0CRXN(176.006,I,0)=$TR(LINE,"^|","|^")
180EX6 D CLOSE^%ZISH("FILE")
181 N DIK S DIK="^C0CRXN(176.006," D IXALL^DIK
182 QUIT
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