;;;; Author: Kevin M. Rosenberg
;;;; Date Started: Apr 2000
;;;;
-;;;; $Id: sql-classes.lisp,v 1.56 2003/05/03 22:45:56 kevin Exp $
+;;;; $Id: sql-classes.lisp,v 1.70 2003/05/05 23:13:28 kevin Exp $
;;;;
;;;; This file, part of UMLisp, is
;;;; Copyright (c) 2000-2002 by Kevin M. Rosenberg, M.D.
(defun current-srl! (srl)
(setq *current-srl* srl))
-;; only WHERE-VALUE and SRL are evaluated
-(defmacro with-umlisp-query ((table fields srl where-name where-value
- &key (lrl "KCUILRL") distinct single
- order like)
- &body body)
- (let ((value (gensym)))
- (if single
- `(let ((,value ,where-value))
- (when ,value
- (let ((tuple (car (umlisp-query ,table ,fields ,srl ,where-name ,value
- :lrl ,lrl :single ,single
- :distinct ,distinct :order ,order
- :like ,like))))
- (when tuple
- (destructuring-bind ,fields tuple
- ,@body)))))
- `(let ((,value ,where-value))
- (when ,value
- (loop for tuple in
- (umlisp-query ,table ,fields ,srl ,where-name ,value
- :lrl ,lrl :single ,single :distinct ,distinct
- :order ,order :like ,like)
- collect (destructuring-bind ,fields tuple
- ,@body)))))))
-
-(defmacro umlisp-query (table fields srl where-name where-value
- &key (lrl "KCUILRL") single distinct order like)
- "Query the UMLisp database. Return a list of umlisp objects whose name
-is OBJNAME from TABLE where WHERE-NAME field = WHERE-VALUE with FIELDS"
- `(mutex-sql-query
- (query-string-macro ,table ,fields ,srl ,where-name ,where-value
- :lrl ,lrl :single ,single :distinct ,distinct :order ,order :like ,like)))
-
-
-(defmacro query-string-macro (table fields &optional srl where-name where-value
+(defmacro query-string (table fields &optional srl where-name where-value
&key (lrl "KCUILRL") single distinct order like)
(let* ((%%fields (format nil "select ~A~{~:@(~A~)~^,~} from ~:@(~A~)"
(if distinct "distinct " "") fields table))
(%%lrl (format nil " and ~:@(~A~)<=" lrl))
(%%where (when where-name
(format nil " where ~:@(~A~)~A" where-name
- (if like " like " "=")))))
+ (if like " like " "")))))
`(concatenate
'string
,%%fields
,@(when %%where (list %%where))
,@(when %%where
- `((if (numberp ,where-value)
- (write-to-string ,where-value)
- (format nil ,(if like "'%~A%'" "'~A'") ,where-value))))
+ `((typecase ,where-value
+ (number
+ (concatenate 'string "=" (write-to-string ,where-value)))
+ (null
+ " is null")
+ (t
+ (format nil ,(if like "'%~A%'" "='~A'") ,where-value)))))
(if ,srl (concatenate 'string ,%%lrl (write-to-string ,srl)) "")
,@(when %%order (list %%order))
,@(when single (list " limit 1")))))
-(defun query-string (table fields &optional srl where-name where-value
- &key (lrl "KCUILRL") single distinct order like)
+(defun query-string-eval (table fields &optional srl where-name where-value
+ &key (lrl "KCUILRL") single distinct order like)
(concatenate
'string
(format nil "select ~A~{~:@(~A~)~^,~} from ~:@(~A~)"
(if distinct "distinct " "") fields table)
(if where-name
(format nil
- (if (stringp where-value)
- (if like
- " where ~A like '%~A%'"
- " where ~A='~A'")
- " where ~A=~A")
- where-name where-value)
+ (typecase where-value
+ (number " where ~A=~D")
+ (null " where ~A is null")
+ (t
+ (if like
+ " where ~A like '%~A%'"
+ " where ~A='~A'")))
+ where-name where-value)
"")
- (if srl (format nil " and ~:@(~A~) <= ~D" lrl srl) "")
+ (if srl (format nil " and ~:@(~A~)<=~D" lrl srl) "")
(if order (format nil " order by ~{~:@(~A~) ~(~A~)~^,~}" order) "")
(if single " limit 1" "")))
+
+(defmacro umlisp-query (table fields srl where-name where-value
+ &key (lrl "KCUILRL") single distinct order like)
+ "Query the UMLisp database. Return a list of umlisp objects whose name
+is OBJNAME from TABLE where WHERE-NAME field = WHERE-VALUE with FIELDS"
+ `(mutex-sql-query
+ (query-string ,table ,fields ,srl ,where-name ,where-value
+ :lrl ,lrl :single ,single :distinct ,distinct :order ,order :like ,like)))
+
+(defmacro umlisp-query-eval (table fields srl where-name where-value
+ &key (lrl "KCUILRL") single distinct order like)
+ "Query the UMLisp database. Return a list of umlisp objects whose name
+is OBJNAME from TABLE where WHERE-NAME field = WHERE-VALUE with FIELDS"
+ `(mutex-sql-query
+ (query-string-eval ,table ,fields ,srl ,where-name ,where-value
+ :lrl ,lrl :single ,single :distinct ,distinct :order ,order :like ,like)))
+
+;; only WHERE-VALUE and SRL are evaluated
+(defmacro with-umlisp-query ((table fields srl where-name where-value
+ &key (lrl "KCUILRL") distinct single
+ order like)
+ &body body)
+ (let ((value (gensym))
+ (r (gensym)))
+ (if single
+ `(let* ((,value ,where-value)
+ (tuple (car (umlisp-query ,table ,fields ,srl ,where-name ,value
+ :lrl ,lrl :single ,single
+ :distinct ,distinct :order ,order
+ :like ,like))))
+ ,@(unless where-name `((declare (ignore ,value))))
+ (when tuple
+ (destructuring-bind ,fields tuple
+ ,@body)))
+ `(let ((,value ,where-value))
+ ,@(unless where-name `((declare (ignore ,value))))
+ (let ((,r '()))
+ (dolist (tuple (umlisp-query ,table ,fields ,srl ,where-name ,value
+ :lrl ,lrl :single ,single :distinct ,distinct
+ :order ,order :like ,like))
+ (push (destructuring-bind ,fields tuple ,@body) ,r))
+ (nreverse ,r))
+ #+ignore
+ (loop for tuple in
+ (umlisp-query ,table ,fields ,srl ,where-name ,value
+ :lrl ,lrl :single ,single :distinct ,distinct
+ :order ,order :like ,like)
+ collect (destructuring-bind ,fields tuple ,@body))))))
+
+(defmacro with-umlisp-query-eval ((table fields srl where-name where-value
+ &key (lrl "KCUILRL") distinct single
+ order like)
+ &body body)
+ (let ((value (gensym))
+ (r (gensym))
+ (eval-fields (cadr fields)))
+ (if single
+ `(let* ((,value ,where-value)
+ (tuple (car (umlisp-query-eval ,table ,fields ,srl ,where-name ,value
+ :lrl ,lrl :single ,single
+ :distinct ,distinct :order ,order
+ :like ,like))))
+ (when tuple
+ (destructuring-bind ,eval-fields tuple
+ ,@body)))
+ `(let ((,value ,where-value)
+ (,r '()))
+ (dolist (tuple (umlisp-query-eval ,table ,fields ,srl ,where-name ,value
+ :lrl ,lrl :single ,single :distinct ,distinct
+ :order ,order :like ,like))
+ (push (destructuring-bind ,eval-fields tuple ,@body) ,r))
+ (nreverse ,r)
+ #+ignore
+ (loop for tuple in
+ (umlisp-query-eval ,table ,fields ,srl ,where-name ,value
+ :lrl ,lrl :single ,single :distinct ,distinct
+ :order ,order :like ,like)
+ collect (destructuring-bind ,eval-fields tuple ,@body))))))
+
+;;;
+;;; Read from SQL database
+
(defun find-ucon-cui (cui &key (srl *current-srl*))
"Find ucon for a cui"
(with-umlisp-query (mrcon (kpfstr kcuilrl) srl cui (parse-cui cui) :single t)
- (make-instance 'ucon :cui (parse-cui cui)
- :pfstr kpfstr
+ (make-instance 'ucon :cui (parse-cui cui) :pfstr kpfstr
:lrl (ensure-integer kcuilrl))))
-(defun find-ucon-cui-old (cui &key (srl *current-srl*))
- "Find ucon for a cui"
- (when (stringp cui) (setq cui (parse-cui cui)))
- (when cui
- (let ((ls (format nil "select KPFSTR,KCUILRL from MRCON where CUI=~d" cui)))
- (when srl
- (string-append ls (format nil " and KCUILRL <= ~d" srl)))
- (string-append ls " limit 1")
- (let ((tuple (car (mutex-sql-query ls))))
- (destructuring-bind (kpfstr kcuilrl) tuple
- (make-instance 'ucon :cui cui :pfstr kpfstr
- :lrl (ensure-integer kcuilrl)))))))
-
(defun find-ucon-cui-sans-pfstr (cui &key (srl *current-srl*))
"Find ucon for a cui"
(with-umlisp-query (mrcon (kcuilrl) srl cui (parse-cui cui) :single t)
- (make-instance 'ucon :cui (parse-cui cui)
- :lrl (ensure-integer kcuilrl)
+ (make-instance 'ucon :cui (parse-cui cui) :lrl (ensure-integer kcuilrl)
:pfstr nil)))
(defun find-pfstr-cui (cui &key (srl *current-srl*))
(defun find-ucon-lui (lui &key (srl *current-srl*))
"Find list of ucon for lui"
(with-umlisp-query (mrcon (cui kpfstr kcuilrl) srl lui (parse-lui lui) :distinct t)
- (make-instance 'ucon :cui (ensure-integer cui)
- :pfstr kpfstr
+ (make-instance 'ucon :cui (ensure-integer cui) :pfstr kpfstr
:lrl (ensure-integer kcuilrl))))
(defun find-ucon-sui (sui &key (srl *current-srl*))
(make-instance 'ucon :cui (ensure-integer cui)
:pfstr pfstr
:lrl (ensure-integer cuilrl)))
- (query-string 'mrcon '(cui kpfstr kcuilrl) srl nil nil
+ (query-string mrcon (cui kpfstr kcuilrl) srl nil nil
:order (cui asc) :distinct t)
:database db)))
+(defun find-ucon-all2 (&key (srl *current-srl*))
+ "Return list of all ucon's"
+ (with-umlisp-query (mrcon (cui kpfstr kcuilrl) srl nil nil :order (cui asc) :distinct t)
+ (make-instance 'ucon :cui (ensure-integer cui)
+ :pfstr kpfstr
+ :lrl (ensure-integer kcuilrl))))
+
(defun map-ucon-all (fn &key (srl *current-srl*))
"Map a function over all ucon's"
(with-sql-connection (db)
(make-instance 'ucon :cui (ensure-integer cui)
:pfstr pfstr
:lrl (ensure-integer cuilrl))))
- (query-string 'mrcon '(cui kpfstr kcuilrl) srl nil nil :order (cui asc) :distinct t)
+ (query-string mrcon (cui kpfstr kcuilrl) srl nil nil :order (cui asc) :distinct t)
:database db)))
(defun find-urel-cui (cui &key (srl *current-srl*))
"Return a list of urel for cui"
(with-umlisp-query (mrrel (rel cui2 rela sab sl mg kpfstr2) srl cui1 (parse-cui cui) :lrl "KSRL")
- (make-instance 'urel :cui1 (parse-cui cui) :rel rel :cui2 (ensure-integer cui2) :rela rela
- :sab sab :sl sl :mg mg :pfstr2 kpfstr2)))
+ (make-instance 'urel :cui1 (parse-cui cui) :rel rel :cui2 (ensure-integer cui2)
+ :rela rela :sab sab :sl sl :mg mg :pfstr2 kpfstr2)))
(defun find-urel-cui2 (cui2 &key (srl *current-srl*))
"Return a list of urel for cui2"
(with-umlisp-query (mrrel (rel cui1 rela sab sl mg kpfstr2) srl cui2 (parse-cui cui2) :lrl "KSRL")
- (make-instance 'urel :cui2 (parse-cui cui2) :rel rel :cui1 (ensure-integer cui1) :rela rela
- :sab sab :sl sl :mg mg :pfstr2 kpfstr2)))
+ (make-instance 'urel :cui2 (parse-cui cui2) :rel rel :cui1 (ensure-integer cui1)
+ :rela rela :sab sab :sl sl :mg mg :pfstr2 kpfstr2)))
(defun find-ucon-rel-cui2 (cui2 &key (srl *current-srl*))
(mapcar
:lrl "KSRL" :order (cof asc))
(setq cui2 (ensure-integer cui2))
(when (zerop cui2) (setq cui2 nil))
- (make-instance 'ucoc :cui1 (parse-cui cui) :cui2 (ensure-integer cui2) :soc soc :cot cot
- :cof (ensure-integer cof) :coa coa :pfstr2 kpfstr2)))
+ (make-instance 'ucoc :cui1 (parse-cui cui) :cui2 (ensure-integer cui2) :soc soc
+ :cot cot :cof (ensure-integer cof) :coa coa :pfstr2 kpfstr2)))
(defun find-ucoc-cui2 (cui2 &key (srl *current-srl*))
"Return a list of ucoc for cui2"
:lrl "KSRL" :order (cof asc))
(setq cui2 (ensure-integer cui2))
(when (zerop cui2) (setq cui2 nil))
- (make-instance 'ucoc :cui1 (ensure-integer cui1) :cui2 (parse-cui cui2) :soc soc :cot cot
- :cof (ensure-integer cof) :coa coa :pfstr2 kpfstr2)))
+ (make-instance 'ucoc :cui1 (ensure-integer cui1) :cui2 (parse-cui cui2) :soc soc
+ :cot cot :cof (ensure-integer cof) :coa coa :pfstr2 kpfstr2)))
(defun find-ucon-coc-cui2 (cui2 &key (srl *current-srl*))
"List of ucon with co-occurance cui2"
(defun find-ulo-cui (cui &key (srl *current-srl*))
"Return a list of ulo for cui"
(with-umlisp-query (mrlo (isn fr un sui sna soui) srl cui (parse-cui cui) :lrl "KLRL")
- (make-instance 'ulo :isn isn :fr (ensure-integer fr) :un un :sui (ensure-integer sui) :sna sna
- :soui soui)))
+ (make-instance 'ulo :isn isn :fr (ensure-integer fr) :un un :sui (ensure-integer sui)
+ :sna sna :soui soui)))
(defgeneric suistr (lo))
(defmethod suistr ((lo ulo))
(with-umlisp-query (mrcon (lat ts kluilrl) srl kcuilui
(make-cuilui (parse-cui cui) (parse-lui lui))
:lrl kluilrl :single t)
- (make-instance 'uterm :cui cui :lui lui :lat lat :ts ts :lrl (ensure-integer kluilrl))))
+ (make-instance 'uterm :cui cui :lui lui :lat lat :ts ts
+ :lrl (ensure-integer kluilrl))))
(defun find-ustr-cuilui (cui lui &key (srl *current-srl*))
"Return a list of ustr for cui/lui"
(with-umlisp-query (mrcon (cui lui stt str lrl) srl sui (parse-sui sui) :lrl lrl)
(make-instance 'ustr :sui sui :cui cui :stt stt :str str
:cuisui (make-cuisui (ensure-integer cui) (parse-sui sui))
- :lui (ensure-integer lui)
- :lrl (ensure-integer lrl))))
+ :lui (ensure-integer lui) :lrl (ensure-integer lrl))))
(defun find-ustr-sab (sab &key (srl *current-srl*))
"Return the list of ustr for sab"
(clsql:map-query
'list
#'(lambda (cui lui sui stt lrl pfstr)
- (setq cui (ensure-integer cui))
- (setq lui (ensure-integer lui))
- (setq sui (ensure-integer sui))
- (setq lrl (ensure-integer lrl))
- (make-instance 'ustr :cui cui
- :lui lui
- :sui sui
- :cuisui (make-cuisui cui sui)
- :stt stt
- :lrl lrl
- :str pfstr))
- (query-string 'mrcon '(cui lui sui stt lrl kpfstr) srl nil nil :lrl lrl :distinct t
+ (make-instance 'ustr :cui (ensure-integer cui) :lui (ensure-integer lui)
+ :sui (ensure-integer sui) :stt stt :str pfstr
+ :cuisui (make-cuisui (ensure-integer cui) (ensure-integer sui))
+ :lrl (ensure-integer lrl)))
+ (query-string mrcon (cui lui sui stt lrl kpfstr) srl nil nil :lrl lrl :distinct t
:order (sui asc))
:database db)))
(with-umlisp-query (mrcxt (sab code cxn cxl rnk cxs cui2 hcd rela xc) srl kcuisui
(make-cuisui cui sui) :lrl ksrl)
(make-instance 'ucxt :sab sab :code code
- :cxn (ensure-integer cxn)
- :cxl cxl :cxs cxs :hcd hcd :rela rela :xc xc
- :rnk (ensure-integer rnk)
- :cui2 (ensure-integer cui2))))
+ :cxn (ensure-integer cxn) :cxl cxl :cxs cxs :hcd hcd :rela rela :xc xc
+ :rnk (ensure-integer rnk) :cui2 (ensure-integer cui2))))
(defun find-usat-ui (cui &optional (lui nil) (sui nil) &key (srl *current-srl*))
(let ((ls (format nil "select CODE,ATN,SAB,ATV from MRSAT where ")))
(defun find-usab-all ()
"Find usab for a key"
- (with-umlisp-query (mrsab (vcui rcui vsab rsab son sf sver mstart mend imeta rmeta slc scc srl tfr cfr cxty ttyl atnl lat cenc curver sabin) nil nil nil)
+ (with-umlisp-query (mrsab (vcui rcui vsab rsab son sf sver mstart mend imeta rmeta slc
+ scc srl tfr cfr cxty ttyl atnl lat cenc curver sabin)
+ nil nil nil)
(make-instance 'usab :vcui (ensure-integer vcui)
- :rcui (ensure-integer rcui)
- :vsab vsab :rsab rsab :son son :sf sf :sver sver :mstart mstart
- :mend mend :imeta imeta :rmeta rmeta :slc slc :scc scc
- :srl (ensure-integer srl)
- :tfr (ensure-integer tfr) :cfr (ensure-integer cfr)
- :cxty cxty :ttyl ttyl :atnl atnl :lat lat :cenc cenc
- :curver curver :sabin sabin)))
+ :rcui (ensure-integer rcui) :vsab vsab :rsab rsab :son son :sf sf
+ :sver sver :mstart mstart :mend mend :imeta imeta :rmeta rmeta
+ :slc slc :scc scc :srl (ensure-integer srl) :tfr (ensure-integer tfr)
+ :cfr (ensure-integer cfr) :cxty cxty :ttyl ttyl :atnl atnl :lat lat
+ :cenc cenc :curver curver :sabin sabin)))
(defun find-usab-by-key (key-name key)
"Find usab for a key"
- (with-umlisp-query (mrsab (vcui rcui vsab rsab son sf sver mstart mend imeta rmeta slc scc srl tfr cfr cxty ttyl atnl lat cenc curver sabin) nil key-name key :single t)
+ (with-umlisp-query-eval ('mrsab '(vcui rcui vsab rsab son sf sver mstart mend imeta
+ rmeta slc scc srl tfr cfr cxty ttyl atnl lat cenc
+ curver sabin) nil key-name key :single t)
(make-instance 'usab :vcui (ensure-integer vcui)
- :rcui (ensure-integer rcui)
- :vsab vsab :rsab rsab :son son :sf sf :sver sver :mstart mstart
- :mend mend :imeta imeta :rmeta rmeta :slc slc :scc scc
- :srl (ensure-integer srl)
- :tfr (ensure-integer tfr) :cfr (ensure-integer cfr)
- :cxty cxty :ttyl ttyl :atnl atnl :lat lat :cenc cenc
- :curver curver :sabin sabin)))
+ :rcui (ensure-integer rcui) :vsab vsab :rsab rsab :son son :sf sf
+ :sver sver :mstart mstart :mend mend :imeta imeta :rmeta rmeta
+ :slc slc :scc scc :srl (ensure-integer srl) :tfr (ensure-integer tfr)
+ :cfr (ensure-integer cfr) :cxty cxty :ttyl ttyl :atnl atnl :lat lat
+ :cenc cenc :curver curver :sabin sabin)))
(defun find-usab-rsab (rsab)
"Find usab for rsab"
- (find-usab-by-key "RSAB" rsab))
+ (find-usab-by-key 'rsab rsab))
(defun find-usab-vsab (vsab)
"Find usab for vsab"
- (find-usab-by-key "VSAB" vsab))
+ (find-usab-by-key 'vsab vsab))
(defun find-cui-max ()
(ensure-integer (caar (mutex-sql-query "select max(CUI) from MRCON"))))
(defun find-ucon-tui (tui &key (srl *current-srl*))
"Find list of ucon for tui"
- (with-umlisp-query (mrsty (cui) srl tui (parse-tui tui) :lrl klrl
- :order (cui asc))
+ (with-umlisp-query (mrsty (cui) srl tui (parse-tui tui) :lrl klrl :order (cui asc))
(find-ucon-cui (ensure-integer cui) :srl srl)))
(defun find-ucon-word (word &key (srl *current-srl*) (like nil))
"Return list of ucons that match word. Optionally, use SQL's LIKE syntax"
- (with-umlisp-query (mrxw_eng (cui) srl wd word :like like :distinct t
- :lrl klrl :order (cui asc))
+ (with-umlisp-query-eval ('mrxw_eng '(cui) srl 'wd word :like like :distinct t
+ :lrl 'klrl :order '(cui asc))
(find-ucon-cui cui :srl srl)))
(defun find-ucon-normalized-word (word &key (srl *current-srl*) (like nil))
"Return list of ucons that match word, optionally use SQL's LIKE syntax"
- (with-umlisp-query (mrxnw_eng (cui) srl nwd word :like like :distinct t
- :lrl klrl :order (cui asc))
+ (with-umlisp-query-eval ('mrxnw_eng '(cui) srl 'nwd word :like like :distinct t
+ :lrl 'klrl :order '(cui asc))
(find-ucon-cui cui :srl srl)))
(defun find-ustr-word (word &key (srl *current-srl*))
"Return list of ustrs that match word"
- (with-umlisp-query (mrxw_eng (cui sui) srl wd word
- :lrl klrl
- :order (cui asc sui asc))
+ (with-umlisp-query (mrxw_eng (cui sui) srl wd word :lrl klrl
+ :order (cui asc sui asc))
(find-ustr-cuisui (ensure-integer cui) (ensure-integer sui) :srl srl)))
(defun find-ustr-normalized-word (word &key (srl *current-srl*))
"Sort a list of objects based on scoring to a string"
(let ((scored '()))
(dolist (obj objs)
- (push
- (list obj
- (score-multiword-match str (funcall lookup-func obj)))
+ (push (list obj (score-multiword-match str (funcall lookup-func obj)))
scored))
(mapcar #'car (sort scored #'> :key #'cadr))))
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