;;;; Author: Kevin M. Rosenberg
;;;; Created: Apr 2000
;;;;
-;;;; $Id$
-;;;;
;;;; This file, part of UMLisp, is
-;;;; Copyright (c) 2000-2006 by Kevin M. Rosenberg, M.D.
+;;;; Copyright (c) 2000-2010 by Kevin M. Rosenberg, M.D.
;;;;
;;;; UMLisp users are granted the rights to distribute and use this software
;;;; as governed by the terms of the GNU General Public License.
(defvar *current-srl* nil)
(defun current-srl ()
*current-srl*)
-(defun current-srl! (srl)
+(defun set-current-srl (srl)
(setq *current-srl* srl))
(defmacro query-string (table fields srl where-name where-value
- &key (lrl "KCUILRL") single distinct order like limit
+ &key (lrl "KCUILRL") single distinct order like limit
filter)
(let* ((%%fields (format nil "SELECT ~A~{~:@(~A~)~^,~} FROM ~:@(~A~)"
- (if distinct "DISTINCT " "") fields table))
- (%%order (if order (format nil " ORDER BY ~{~:@(~A~) ~(~A~)~^,~}"
- order)
- ""))
- (%%lrl (format nil " AND ~:@(~A~)<=" lrl))
- (%%where (when where-name
- (format nil " WHERE ~:@(~A~)~A" where-name
- (if like " like " ""))))
+ (if distinct "DISTINCT " "") (sqlname fields) table))
+ (%%order (if order (format nil " ORDER BY ~{~:@(~A~) ~(~A~)~^,~}"
+ order)
+ ""))
+ (%%lrl (format nil " AND ~:@(~A~)<=" lrl))
+ (%%where (when where-name
+ (format nil " WHERE ~:@(~A~)~A" (sqlname where-name)
+ (if like " like " ""))))
(%filter (gensym "FILTER-"))
(%single (gensym "SINGLE-"))
(%limit (gensym "LIMIT-")))
""))))))
(defun query-string-eval (table fields srl where-name where-value
- &key (lrl "KCUILRL") single distinct order like limit filter)
+ &key (lrl "KCUILRL") single distinct order like limit filter)
(when single (setq limit 1))
(concatenate
'string
(format nil "SELECT ~A~{~:@(~A~)~^,~} FROM ~:@(~A~)"
- (if distinct "DISTINCT " "") fields table)
- (if where-name (format nil " WHERE ~:@(~A~)" where-name) "")
+ (if distinct "DISTINCT " "") (sqlname fields) table)
+ (if where-name (format nil " WHERE ~:@(~A~)" (sqlname where-name)) "")
(if where-name
(format nil
- (typecase where-value
- (number "='~D'")
- (null " IS NULL")
- (t
- (if like " LINK '%~A%""='~A'")))
- where-value)
+ (typecase where-value
+ (number "='~D'")
+ (null " IS NULL")
+ (t
+ (if like " LIKE '%~A%'" "='~A'")))
+ where-value)
"")
(if filter (concatenate 'string " AND " filter) nil)
(if srl (format nil " AND ~:@(~A~)<=~D" lrl srl) "")
(defmacro umlisp-query (table fields srl where-name where-value
- &key (lrl "KCUILRL") single distinct order like
+ &key (lrl "KCUILRL") single distinct order like
limit filter (query-cmd 'mutex-sql-query))
"Query the UMLisp database. Return a list of umlisp objects whose name
is OBJNAME from TABLE where WHERE-NAME field = WHERE-VALUE with FIELDS"
:filter ,filter :limit ,limit)))
(defmacro umlisp-query-eval (table fields srl where-name where-value
- &key (lrl "KCUILRL") single distinct order like
+ &key (lrl "KCUILRL") single distinct order like
filter limit)
"Query the UMLisp database. Return a list of umlisp objects whose name
is OBJNAME from TABLE where WHERE-NAME field = WHERE-VALUE with FIELDS"
;; only WHERE-VALUE and SRL are evaluated
(defmacro collect-umlisp-query ((table fields srl where-name where-value
- &key (lrl "KCUILRL") distinct single
- order like (query-cmd 'mutex-sql-query)
+ &key (lrl "KCUILRL") distinct single
+ order like (query-cmd 'mutex-sql-query)
filter limit)
- &body body)
+ &body body)
(let ((value (gensym))
- (r (gensym)))
+ (r (gensym)))
(if single
(if (and limit (> limit 1))
(error "Can't set limit along with single.")
(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 :filter ,filter :like ,like
+ `(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 :filter ,filter :like ,like
:limit ,limit))
- (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 :filter ,filter :limit ,limit)
- collect (destructuring-bind ,fields tuple ,@body))))))
+ (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 :filter ,filter :limit ,limit)
+ collect (destructuring-bind ,fields tuple ,@body))))))
(defmacro collect-umlisp-query-eval ((table fields srl where-name where-value
- &key (lrl "KCUILRL") distinct single
- order like filter limit)
- &body body)
+ &key (lrl "KCUILRL") distinct single
+ order like filter limit)
+ &body body)
(let ((value (gensym))
- (r (gensym))
- (eval-fields (cadr fields)))
+ (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 :filter ,filter
+ `(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 :filter ,filter
:limit ,limit))))
- (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
+ (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
:filter ,filter :limit ,limit))
- (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 :filter ,filter
+ (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 :filter ,filter
:limit ,limit)
- collect (destructuring-bind ,eval-fields tuple ,@body))))))
+ collect (destructuring-bind ,eval-fields tuple ,@body))))))
;;;
;;; Read from SQL database
(make-instance 'ucon :cui cui :pfstr str
:lrl kcuilrl))))
-(defun find-uconso-cui (cui &key (srl *current-srl*))
+(defun find-uconso-cui (cui &key sab (srl *current-srl*))
"Find uconso for a cui."
(ensure-cui-integer cui)
(unless cui (return-from find-uconso-cui nil))
(collect-umlisp-query (mrconso (lat ts lui stt sui ispref aui saui scui sdui sab tty code str
srl suppress cvf kpfeng kcuisui kcuilui kcuilrl
- kluilrl ksuilrl) srl cui cui)
+ kluilrl ksuilrl) srl cui cui
+ :filter (if sab (concatenate 'string "SAB='" sab "'") nil))
(make-instance 'uconso :cui cui :lat lat :ts ts :lui lui :stt stt :sui sui :ispref ispref
:aui aui :saui saui :scui scui :sdui sdui :sab sab :tty tty :code code
:str str :srl srl :suppress suppress :cvf cvf :kpfeng kpfeng
:kcuisui kcuisui :kcuilui kcuilui :kcuilrl kcuilrl :kluilrl kluilrl
:ksuilrl ksuilrl)))
-(defun find-uconso-cui-sab (cui sab &key (srl *current-srl*))
- "Find uconso for a cui. If set SAB, the without-pfstr is on by default"
- (ensure-cui-integer cui)
- (unless (and cui (stringp sab))
- (return-from find-uconso-cui-sab nil))
-
- (collect-umlisp-query (mrconso (lat ts lui stt sui ispref aui saui scui sdui sab tty code str
+(defun find-uconso-cuisui (cuisui &key sab (srl *current-srl*))
+ "Find uconso for a cuisui."
+ (collect-umlisp-query (mrconso (cui lat ts lui stt sui ispref aui saui scui sdui sab tty code str
srl suppress cvf kpfeng kcuisui kcuilui kcuilrl
- kluilrl ksuilrl) srl cui cui
- :filter (concatenate 'string "SAB='" sab "'"))
+ kluilrl ksuilrl) srl kcuisui cuisui
+ :filter (if sab (concatenate 'string "SAB='" sab "'") nil))
(make-instance 'uconso :cui cui :lat lat :ts ts :lui lui :stt stt :sui sui :ispref ispref
:aui aui :saui saui :scui scui :sdui sdui :sab sab :tty tty :code code
:str str :srl srl :suppress suppress :cvf cvf :kpfeng kpfeng
:kcuisui kcuisui :kcuilui kcuilui :kcuilrl kcuilrl :kluilrl kluilrl
:ksuilrl ksuilrl)))
-(defun find-uconso-sui-sab (sui sab &key (srl *current-srl*))
+
+(defun find-uconso-code (code &key first sab (srl *current-srl*) (like nil))
+ "Return list of uconso objects that match code. Optional, filter for SAB. Optionally, use SQL's LIKE syntax"
+ (collect-umlisp-query (mrconso (cui sab) srl code code :like like :distinct t
+ :lrl klrl
+ :filter (if sab (concatenate 'string "SAB='" sab "'") nil))
+ (let ((uconsos (find-uconso-cui cui :sab sab :srl srl)))
+ (if first
+ (first uconsos)
+ uconsos))))
+
+(defun find-uconso-sui (sui &key sab (srl *current-srl*))
"Find uconso for a sui. If set SAB, the without-pfstr is on by default"
(ensure-sui-integer sui)
- (unless (and sui (stringp sab))
- (return-from find-uconso-sui-sab nil))
+;; (unless (and sui (stringp sab))
+ (unless sui
+ (return-from find-uconso-sui nil))
(collect-umlisp-query (mrconso (cui lat ts lui stt sui ispref aui saui scui sdui sab tty code str
srl suppress cvf kpfeng kcuisui kcuilui kcuilrl
kluilrl ksuilrl) srl sui sui
- :filter (concatenate 'string "SAB='" sab "'"))
+ :distinct t
+ :filter (if sab (concatenate 'string "SAB='" sab "'") nil))
(make-instance 'uconso :cui cui :lat lat :ts ts :lui lui :stt stt :sui sui :ispref ispref
:aui aui :saui saui :scui scui :sdui sdui :sab sab :tty tty :code code
:str str :srl srl :suppress suppress :cvf cvf :kpfeng kpfeng
(ensure-sui-integer sui)
(collect-umlisp-query (mrconso (cui kcuilrl) srl sui sui :distinct t)
(make-instance 'ucon :cui (ensure-integer cui) :pfstr (find-pfstr-cui cui)
- :lrl (ensure-integer kcuilrl))))
+ :lrl (ensure-integer kcuilrl))))
(defun find-ucon-aui (aui &key (srl *current-srl*))
"Find list of ucon for aui"
(ensure-aui-integer aui)
(collect-umlisp-query (mrconso (cui kcuilrl) srl aui aui :distinct t)
(make-instance 'ucon :cui (ensure-integer cui) :pfstr (find-pfstr-cui cui)
- :lrl (ensure-integer kcuilrl))))
+ :lrl (ensure-integer kcuilrl))))
-(defun find-ucon-cuisui (cui sui &key (srl *current-srl*))
+(defun find-ucon-cuisui (cuisui &key (srl *current-srl*))
+ "Find ucon for cui/sui"
+ (collect-umlisp-query (mrconso (cui kcuilrl) srl kcuisui cuisui)
+ (make-instance 'ucon :cui cui
+ :pfstr (find-pfstr-cui cui)
+ :lrl (ensure-integer kcuilrl))))
+
+(defun find-ucon-cui-sui (cui sui &key (srl *current-srl*))
"Find ucon for cui/sui"
(ensure-cui-integer cui)
(ensure-sui-integer sui)
(when (and cui sui)
- (collect-umlisp-query (mrconso (kcuilrl) srl kcuisui
- (make-cuisui cui sui))
- (make-instance 'ucon :cui cui
- :pfstr (find-pfstr-cui cui)
- :lrl (ensure-integer kcuilrl)))))
+ (find-ucon-cui-sui cui sui :srl srl)))
(defun find-ucon-str (str &key (srl *current-srl*))
"Find ucon that are exact match for str"
(collect-umlisp-query (mrconso (cui kcuilrl) srl str str :distinct t)
(make-instance 'ucon :cui (ensure-integer cui) :pfstr (find-pfstr-cui cui)
- :lrl (ensure-integer kcuilrl))))
+ :lrl (ensure-integer kcuilrl))))
(defun find-ucon-all (&key (srl *current-srl*))
"Return list of all ucon's"
(clsql:map-query
'list
#'(lambda (tuple)
- (destructuring-bind (cui cuilrl) tuple
- (make-instance 'ucon :cui (ensure-integer cui)
- :pfstr (find-pfstr-cui cui)
+ (destructuring-bind (cui cuilrl) tuple
+ (make-instance 'ucon :cui (ensure-integer cui)
+ :pfstr (find-pfstr-cui cui)
:lrl (ensure-integer cuilrl))))
(query-string mrconso (cui kcuilrl) srl nil nil
- :order (cui asc) :distinct t)
+ :order (cui asc) :distinct t)
:database db)))
(defun find-ucon-all2 (&key (srl *current-srl*))
"Return list of all ucon's"
(collect-umlisp-query (mrconso (cui kcuilrl) srl nil nil :order (cui asc)
- :distinct t)
+ :distinct t)
(make-instance 'ucon :cui (ensure-integer cui)
- :pfstr (find-pfstr-cui cui)
- :lrl (ensure-integer kcuilrl))))
+ :pfstr (find-pfstr-cui cui)
+ :lrl (ensure-integer kcuilrl))))
(defun find-cui-ucon-all (&key (srl *current-srl*))
"Return list of CUIs for all ucons"
(collect-umlisp-query (mrconso (cui) srl nil nil :order (cui asc)
- :distinct t)
- cui))
+ :distinct t)
+ cui))
(defun map-ucon-all (fn &key (srl *current-srl*))
"Map a function over all ucon's"
(clsql:map-query
nil
#'(lambda (tuple)
- (destructuring-bind (cui cuilrl) tuple
- (funcall fn (make-instance 'ucon :cui (ensure-integer cui)
- :pfstr (find-pfstr-cui cui)
- :lrl (ensure-integer cuilrl)))))
+ (destructuring-bind (cui cuilrl) tuple
+ (funcall fn (make-instance 'ucon :cui (ensure-integer cui)
+ :pfstr (find-pfstr-cui cui)
+ :lrl (ensure-integer cuilrl)))))
(query-string mrconso (cui kcuilrl) srl nil nil :order (cui asc)
- :distinct t)
+ :distinct t)
:database db)))
(defun find-udef-cui (cui &key (srl *current-srl*))
"Return a list of udefs for cui"
(ensure-cui-integer cui)
- (collect-umlisp-query (mrdef (sab def suppress) srl cui cui :lrl "KSRL")
+ (collect-umlisp-query (mrdef (sab def suppress) srl cui cui :lrl "KSRL"
+ :distinct t)
(make-instance 'udef :sab sab :def def :suppress suppress)))
(defun find-udoc-key (key)
(defun find-usty-word (word &key (srl *current-srl*))
"Return a list of usty that match word"
(collect-umlisp-query (mrsty (tui sty) srl sty word :lrl klrl :like t
- :distinct t)
+ :distinct t)
(make-instance 'usty :tui (ensure-integer tui) :sty sty)))
(defun find-urel-cui (cui &key (srl *current-srl*) filter without-pfstr2)
"Return a list of urel for cui"
(ensure-cui-integer cui)
(collect-umlisp-query (mrrel (aui1 rel stype1 cui2 aui2 stype2 rela rui srui sab sl rg dir suppress cvf)
- srl cui1 cui :lrl "KSRL" :filter filter)
+ srl cui1 cui :lrl "KSRL" :filter filter)
(let ((rel
(make-instance 'urel :cui1 cui :aui1 (ensure-integer aui1) :stype1 stype1 :rel rel
:cui2 (ensure-integer cui2) :aui2 (ensure-integer aui2) :stype2 stype2
"Return the urel for a rui"
(ensure-rui-integer rui)
(collect-umlisp-query (mrrel (aui1 rel stype1 cui1 cui2 aui2 stype2 rela rui srui sab sl rg dir suppress cvf)
- srl rui rui :lrl "KSRL" :single t)
+ srl rui rui :lrl "KSRL" :single t)
(make-instance 'urel :cui1 cui1 :aui1 (ensure-integer aui1) :stype1 stype1 :rel rel
- :cui2 (ensure-integer cui2) :aui2 (ensure-integer aui2) :stype2 stype2
- :rui (ensure-integer rui) :srui srui :rela rela :sab sab :sl sl :rg rg :dir dir
- :suppress suppress :cvf cvf :pfstr2 (find-pfstr-cui cui2))))
+ :cui2 (ensure-integer cui2) :aui2 (ensure-integer aui2) :stype2 stype2
+ :rui (ensure-integer rui) :srui srui :rela rela :sab sab :sl sl :rg rg :dir dir
+ :suppress suppress :cvf cvf :pfstr2 (find-pfstr-cui cui2))))
(defun find-cui2-urel-cui (cui &key (srl *current-srl*))
"Return a list of urel for cui"
(ensure-cui-integer cui)
(collect-umlisp-query (mrrel (cui2) srl cui1
- cui :lrl "KSRL")
- cui2))
+ cui :lrl "KSRL")
+ cui2))
(defun find-urel-cui2 (cui2 &key (srl *current-srl*))
"Return a list of urel for cui2"
(ensure-cui-integer cui2)
(collect-umlisp-query (mrrel (rel cui1 aui1 stype1 aui2 stype2 rela rui srui sab sl rg dir suppress cvf)
- srl cui2 cui2 :lrl "KSRL")
+ srl cui2 cui2 :lrl "KSRL")
(make-instance 'urel :cui2 cui2 :rel rel :aui2 (ensure-integer aui2)
:stype2 stype2 :rui (ensure-integer rui) :srui srui
- :stype1 stype1 :cui1 (ensure-integer cui1)
+ :stype1 stype1 :cui1 (ensure-integer cui1)
:aui1 (ensure-integer aui1)
- :rela rela :sab sab :sl sl :rg rg :dir dir :suppress suppress :cvf cvf
- :pfstr2 (find-pfstr-cui cui2))))
+ :rela rela :sab sab :sl sl :rg rg :dir dir :suppress suppress :cvf cvf
+ :pfstr2 (find-pfstr-cui cui2))))
(defun find-ucon-rel-cui2 (cui2 &key (srl *current-srl*))
(ensure-cui-integer cui2)
(loop for cui in (remove-duplicates
- (mapcar #'cui1 (find-urel-cui2 cui2 :srl srl)))
- collect (find-ucon-cui cui :srl srl)))
+ (mapcar #'cui1 (find-urel-cui2 cui2 :srl srl)))
+ collect (find-ucon-cui cui :srl srl)))
-(defun find-ucoc-cui (cui &key (srl *current-srl*))
+#+mrcoc (defun find-ucoc-cui (cui &key (srl *current-srl*))
"Return a list of ucoc for cui"
(ensure-cui-integer cui)
(collect-umlisp-query (mrcoc (aui1 cui2 aui2 sab cot cof coa) srl cui1
- cui :lrl klrl :order (cof asc))
+ cui :lrl klrl :order (cof asc))
(setq cui2 (ensure-integer cui2))
(when (eql 0 cui2) (setq cui2 nil))
(make-instance 'ucoc :cui1 cui :aui1 (ensure-integer aui1)
- :cui2 (ensure-integer cui2) :aui2 (ensure-integer aui2)
- :cot cot :cof (ensure-integer cof) :coa coa :sab sab
- :pfstr2 (find-pfstr-cui cui2))))
+ :cui2 (ensure-integer cui2) :aui2 (ensure-integer aui2)
+ :cot cot :cof (ensure-integer cof) :coa coa :sab sab
+ :pfstr2 (find-pfstr-cui cui2))))
-(defun find-ucoc-cui2 (cui2 &key (srl *current-srl*))
+#+mrcoc (defun find-ucoc-cui2 (cui2 &key (srl *current-srl*))
"Return a list of ucoc for cui2"
(ensure-cui-integer cui2)
(collect-umlisp-query (mrcoc (cui1 aui1 aui2 sab cot cof coa) srl cui2
- cui2 :lrl klrl :order (cof asc))
+ cui2 :lrl klrl :order (cof asc))
(when (zerop cui2) (setq cui2 nil))
(make-instance 'ucoc :cui1 (ensure-integer cui1) :cui2 cui2
- :aui1 (ensure-integer aui1) :aui2 (ensure-integer aui2)
- :sab sab :cot cot :cof (ensure-integer cof) :coa coa
- :pfstr2 (find-pfstr-cui cui2))))
+ :aui1 (ensure-integer aui1) :aui2 (ensure-integer aui2)
+ :sab sab :cot cot :cof (ensure-integer cof) :coa coa
+ :pfstr2 (find-pfstr-cui cui2))))
-(defun find-ucon-coc-cui2 (cui2 &key (srl *current-srl*))
+#+mrcoc (defun find-ucon-coc-cui2 (cui2 &key (srl *current-srl*))
"List of ucon with co-occurance cui2"
(ensure-cui-integer cui2)
(mapcar
"Return a list of uterm for cui"
(ensure-cui-integer cui)
(collect-umlisp-query (mrconso (lui lat ts kluilrl) srl cui cui
- :lrl kluilrl :distinct t)
+ :lrl kluilrl :distinct t)
(make-instance 'uterm :lui (ensure-integer lui) :cui cui
- :lat lat :ts ts :lrl (ensure-integer kluilrl))))
+ :lat lat :ts ts :lrl (ensure-integer kluilrl))))
(defun find-uterm-lui (lui &key (srl *current-srl*))
"Return a list of uterm for lui"
(ensure-lui-integer lui)
(collect-umlisp-query (mrconso (cui lat ts kluilrl) srl lui lui
- :lrl kluilrl :distinct t)
+ :lrl kluilrl :distinct t)
(make-instance 'uterm :cui (ensure-integer cui) :lui lui
- :lat lat :ts ts :lrl (ensure-integer kluilrl))))
+ :lat lat :ts ts :lrl (ensure-integer kluilrl))))
(defun find-uterm-cuilui (cui lui &key (srl *current-srl*))
"Return single uterm for cui/lui"
(ensure-cui-integer cui)
(ensure-lui-integer lui)
(collect-umlisp-query (mrconso (lat ts kluilrl) srl kcuilui
- (make-cuilui cui lui)
- :lrl kluilrl :single t)
+ (make-cuilui cui lui)
+ :lrl kluilrl :single t)
(make-instance 'uterm :cui cui :lui lui :lat lat :ts ts
- :lrl (ensure-integer kluilrl))))
+ :lrl (ensure-integer kluilrl))))
(defun find-ustr-cuilui (cui lui &key (srl *current-srl*))
"Return a list of ustr for cui/lui"
(ensure-cui-integer cui)
(ensure-lui-integer lui)
(collect-umlisp-query (mrconso (sui stt str suppress ksuilrl) srl kcuilui
- (make-cuilui cui lui) :lrl ksuilrl)
- (make-instance 'ustr :sui (ensure-integer sui) :cui cui :lui lui
- :cuisui (make-cuisui cui sui) :stt stt :str str :suppress suppress
- :lrl (ensure-integer ksuilrl))))
+ (make-cuilui cui lui) :lrl ksuilrl :distinct t)
+ (make-instance 'ustr :sui (ensure-integer sui) :cui cui :lui lui
+ :cuisui (make-cuisui cui sui) :stt stt :str str :suppress suppress
+ :lrl (ensure-integer ksuilrl))))
-(defun find-ustr-cuisui (cui sui &key (srl *current-srl*))
+(defun find-ustr-cuisui (cuisui &key (srl *current-srl*))
+ "Return the single ustr for cuisui"
+ (collect-umlisp-query (mrconso (cui lui sui stt str suppress ksuilrl) srl kcuisui
+ cuisui :lrl ksuilrl :single t)
+ (make-instance 'ustr :sui sui :cui cui :cuisui cuisui
+ :lui (ensure-integer lui) :stt stt :str str :suppress suppress
+ :lrl (ensure-integer ksuilrl))))
+
+(defun find-ustr-cui-sui (cui sui &key (srl *current-srl*))
"Return the single ustr for cuisui"
(ensure-cui-integer cui)
(ensure-sui-integer sui)
- (collect-umlisp-query (mrconso (lui stt str suppress ksuilrl) srl kcuisui
- (make-cuisui cui sui) :lrl lsuilrl :single t)
- (make-instance 'ustr :sui sui :cui cui :cuisui (make-cuisui cui sui)
- :lui (ensure-integer lui) :stt stt :str str :suppress suppress
- :lrl (ensure-integer ksuilrl))))
+ (find-ustr-cuisui (make-cuisui cui sui) :srl srl))
(defun find-ustr-sui (sui &key (srl *current-srl*))
"Return the list of ustr for sui"
(ensure-sui-integer sui)
(collect-umlisp-query (mrconso (cui lui stt str suppress ksuilrl) srl sui sui
- :lrl ksuilrl)
+ :lrl ksuilrl :distinct t)
(make-instance 'ustr :sui sui :cui cui :stt stt :str str
- :cuisui (make-cuisui (ensure-integer cui) sui)
- :suppress suppress
- :lui (ensure-integer lui) :lrl (ensure-integer ksuilrl))))
+ :cuisui (make-cuisui (ensure-integer cui) sui)
+ :suppress suppress
+ :lui (ensure-integer lui) :lrl (ensure-integer ksuilrl))))
(defun find-ustr-sab (sab &key (srl *current-srl*))
"Return the list of ustr for sab"
(collect-umlisp-query (mrconso (kcuisui) srl sab sab :lrl srl)
(let ((cuisui (ensure-integer kcuisui)))
- (apply #'find-ustr-cuisui
- (append
- (multiple-value-list (decompose-cuisui cuisui))
- (list :srl srl))))))
+ (find-ustr-cuisui cuisui :srl srl))))
(defun find-ustr-all (&key (srl *current-srl*))
"Return list of all ustr's"
(clsql:map-query
'list
#'(lambda (tuple)
- (destructuring-bind (cui lui sui stt ksuilrl suppress) tuple
- (make-instance 'ustr :cui (ensure-integer cui)
- :lui (ensure-integer lui) :sui (ensure-integer sui)
- :stt stt :str (find-pfstr-cui cui)
- :cuisui (make-cuisui (ensure-integer cui)
- (ensure-integer sui))
- :suppress suppress
- :lrl (ensure-integer ksuilrl))))
+ (destructuring-bind (cui lui sui stt ksuilrl suppress) tuple
+ (make-instance 'ustr :cui (ensure-integer cui)
+ :lui (ensure-integer lui) :sui (ensure-integer sui)
+ :stt stt :str (find-pfstr-cui cui)
+ :cuisui (make-cuisui (ensure-integer cui)
+ (ensure-integer sui))
+ :suppress suppress
+ :lrl (ensure-integer ksuilrl))))
(query-string mrconso (cui lui sui stt ksuilrl) srl nil nil :lrl ksuilrl
- :distinct t
- :order (sui asc))
+ :distinct t
+ :order (sui asc))
:database db)))
(defun find-string-sui (sui &key (srl *current-srl*))
(defun find-uso-cuisui (cui sui &key (srl *current-srl*))
(ensure-sui-integer sui)
(ensure-cui-integer cui)
- (collect-umlisp-query (mrconso (aui sab code srl tty saui sdui scui lat str)
+ (collect-umlisp-query (mrconso (aui sab code srl tty saui sdui scui lat str ts)
srl kcuisui (make-cuisui cui sui) :lrl srl)
(make-instance 'uso :aui aui :sab sab :code code :srl srl :tty tty
- :cui cui :sui sui :saui saui :sdui sdui :scui scui
- :lat lat :str str)))
+ :cui cui :sui sui :saui saui :sdui sdui :scui scui
+ :lat lat :str str :ts ts)))
(defun find-uso-cui (cui &key (srl *current-srl*) (english-only nil) limit)
(ensure-cui-integer cui)
- (collect-umlisp-query (mrconso (aui sab code srl tty saui sdui scui lat str sui)
+ (collect-umlisp-query (mrconso (aui sab code srl tty saui sdui scui lat str sui ts)
srl cui cui :lrl srl :limit limit
:filter (when english-only "LAT='ENG'"))
(make-instance 'uso :aui aui :sab sab :code code :srl srl :tty tty
:cui cui :sui sui :saui saui :sdui sdui :scui scui
- :lat lat :str str)))
+ :lat lat :str str :ts ts)))
(defun find-uso-aui (aui &key (srl *current-srl*))
(ensure-sui-integer aui)
(collect-umlisp-query (mrconso (sab cui sui code srl tty saui sdui scui lat
- str) srl aui aui :lrl srl :single t)
+ str ts) srl aui aui :lrl srl :single t)
(make-instance 'uso :aui aui :cui cui :sab sab :code code :srl srl :tty tty
- :sui sui :saui saui :sdui sdui :scui scui :lat lat
- :str str)))
+ :sui sui :saui saui :sdui sdui :scui scui :lat lat
+ :str str :ts ts)))
(defun find-uhier-cui (cui &key (srl *current-srl*))
(ensure-cui-integer cui)
(collect-umlisp-query (mrhier (aui cxn paui sab rela ptr hcd cvf)
- srl cui cui :lrl ksrl)
+ srl cui cui :lrl ksrl)
(make-instance 'uhier :cui cui :aui (ensure-integer aui)
- :cxn (ensure-integer cxn)
- :paui (ensure-integer paui)
- :sab sab :rela rela :ptr ptr :hcd hcd :cvf cvf)))
+ :cxn (ensure-integer cxn)
+ :paui (ensure-integer paui)
+ :sab sab :rela rela :ptr ptr :hcd hcd :cvf cvf)))
(defun find-uhier-all (&key (srl *current-srl*))
(collect-umlisp-query (mrhier (cui aui cxn paui sab rela ptr hcd cvf)
- srl nil nil :lrl ksrl)
+ srl nil nil :lrl ksrl)
(make-instance 'uhier :cui cui :aui (ensure-integer aui)
- :cxn (ensure-integer cxn)
- :paui (ensure-integer paui)
- :sab sab :rela rela :ptr ptr :hcd hcd :cvf cvf)))
+ :cxn (ensure-integer cxn)
+ :paui (ensure-integer paui)
+ :sab sab :rela rela :ptr ptr :hcd hcd :cvf cvf)))
-(defun find-usat-ui (cui &key lui sui (srl *current-srl*))
+(defun find-usat-ui (cui &optional lui sui &key (srl *current-srl*))
(ensure-cui-integer cui)
(ensure-lui-integer lui)
(ensure-sui-integer sui)
(let ((ls "SELECT CODE,ATN,SAB,ATV FROM MRSAT WHERE "))
(cond
(sui (string-append ls "KCUISUI='"
- (integer-string (make-cuisui cui sui) 14)
- "'"))
+ (integer-string (make-cuisui cui sui) 14)
+ "'"))
(lui (string-append ls "KCUILUI='"
- (integer-string (make-cuilui cui lui) 14)
- "' and sui='0'"))
+ (integer-string (make-cuilui cui lui) 14)
+ "' and sui='0'"))
(t (string-append ls "cui='" (prefixed-fixnum-string cui nil 7)
- "' and lui='0' and sui='0'")))
+ "' and lui='0' and sui='0'")))
(when srl
(string-append ls " and KSRL<=" (prefixed-fixnum-string srl nil 3)))
(loop for tuple in (mutex-sql-query ls) collect
- (destructuring-bind (code atn sab atv) tuple
- (make-instance 'usat :code code :atn atn :sab sab :atv atv)))))
+ (destructuring-bind (code atn sab atv) tuple
+ (make-instance 'usat :code code :atn atn :sab sab :atv atv)))))
(defun find-usty-tui (tui)
"Find usty for tui"
(defun find-usab-all ()
"Return all usab objects"
(collect-umlisp-query (mrsab (vcui rcui vsab rsab son sf sver vstart vend imeta
- rmeta slc scc srl tfr cfr cxty ttyl atnl lat
- cenc curver sabin ssn scit) nil nil nil)
+ rmeta slc scc srl tfr cfr cxty ttyl atnl lat
+ cenc curver sabin ssn scit) nil nil nil)
(make-instance 'usab :vcui (ensure-integer vcui)
- :rcui (ensure-integer rcui) :vsab vsab :rsab rsab :son son
- :sf sf :sver sver :vstart vstart :vend vend :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 :ssn ssn :scit scit)))
-
-(defun find-usab-by-key (key-name key)
+ :rcui (ensure-integer rcui) :vsab vsab :rsab rsab :son son
+ :sf sf :sver sver :vstart vstart :vend vend :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 :ssn ssn :scit scit)))
+
+(defun find-usab-by-key (key-name key &key current)
"Find usab for a key"
(collect-umlisp-query-eval ('mrsab '(vcui rcui vsab rsab son sf sver vstart
- vend imeta rmeta slc scc srl tfr cfr cxty
- ttyl atnl lat cenc curver sabin
- ssn scit)
- nil key-name key :single t)
+ vend imeta rmeta slc scc srl tfr cfr cxty
+ ttyl atnl lat cenc curver sabin
+ ssn scit)
+ nil key-name key :single t
+ :filter (when current "RMETA=''"))
(make-instance 'usab :vcui (ensure-integer vcui)
- :rcui (ensure-integer rcui) :vsab vsab :rsab rsab :son son
- :sf sf :sver sver :vstart vstart :vend vend :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
- :ssn ssn :scit scit)))
-
-(defun find-usab-rsab (rsab)
+ :rcui (ensure-integer rcui) :vsab vsab :rsab rsab :son son
+ :sf sf :sver sver :vstart vstart :vend vend :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
+ :ssn ssn :scit scit)))
+
+(defun find-usab-rsab (rsab &key (current t))
"Find usab for rsab"
(find-usab-by-key 'rsab rsab))
-(defun find-usab-vsab (vsab)
+(defun find-usab-vsab (vsab &key (current t))
"Find usab for vsab"
(find-usab-by-key 'vsab vsab))
(defun find-umap-cui (cui)
(ensure-cui-integer cui)
(collect-umlisp-query (mrmap (mapsetsab mapsubsetid maprank fromid fromsid fromexpr
- fromtype fromrule fromres rel rela toid tosid
- toexpr totype torule tores maprule maptype
- mapatn mapatv cvf)
- nil mapsetcui cui)
+ fromtype fromrule fromres rel rela toid tosid
+ toexpr totype torule tores maprule maptype
+ mapatn mapatv cvf)
+ nil mapsetcui cui)
(make-instance 'umap :mapsetcui cui :mapsetsab mapsetsab :mapsubsetid mapsubsetid
- :maprank (ensure-integer maprank) :fromid fromid :fromsid fromsid
- :fromexpr fromexpr :fromtype fromtype :fromrule fromrule :fromres fromres
- :rel rel :rela rela :toid toid :tosid tosid :toexpr toexpr :totype totype
- :torule torule :tores tores :maprule maprule :maptype maptype :mapatn mapatn
- :mapatv mapatv :cvf cvf)))
+ :maprank (ensure-integer maprank) :fromid fromid :fromsid fromsid
+ :fromexpr fromexpr :fromtype fromtype :fromrule fromrule :fromres fromres
+ :rel rel :rela rela :toid toid :tosid tosid :toexpr toexpr :totype totype
+ :torule torule :tores tores :maprule maprule :maptype maptype :mapatn mapatn
+ :mapatv mapatv :cvf cvf)))
(defun find-usmap-cui (cui)
(ensure-cui-integer cui)
(collect-umlisp-query (mrsmap (mapsetsab fromexpr fromtype rel rela toexpr totype cvf)
- nil mapsetcui cui)
+ nil mapsetcui cui)
(make-instance 'usmap :mapsetcui cui :mapsetsab mapsetsab
- :fromexpr fromexpr :fromtype fromtype
- :rel rel :rela rela :toexpr toexpr :totype totype
+ :fromexpr fromexpr :fromtype fromtype
+ :rel rel :rela rela :toexpr toexpr :totype totype
:cvf cvf)))
;;;; Cross table find functions
(collect-umlisp-query (mrsty (cui) srl 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"
- (collect-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-uconso-word (word &key (srl *current-srl*) (like nil))
- "Return list of uconso objects that match word. Optionally, use SQL's LIKE syntax"
- (collect-umlisp-query-eval ('mrxw_eng '(cui) srl 'wd word :like like :distinct t
- :lrl 'klrl :order '(cui asc))
- (find-uconso-cui cui :srl srl)))
-
(defun mrconso-query-word-cui (word sab srl like)
- (format nil "SELECT DISTINCT c.cui FROM MRCONSO c,MRXW_ENG x WHERE x.WD ~A '~A' AND x.cui=c.cui AND ~A ~A"
- (if like "LIKE" "=")
+ (format nil "SELECT DISTINCT c.cui FROM MRCONSO c,MRXW_ENG x WHERE x.WD~A'~A' AND x.cui=c.cui~A~A"
+ (if like " LIKE " "=")
(clsql-sys::sql-escape-quotes word)
(etypecase sab
(string
- (format nil " c.sab='~A'" (clsql-sys::sql-escape-quotes sab)))
+ (format nil " AND c.sab='~A'" (clsql-sys::sql-escape-quotes sab)))
(cons
- (format nil " c.sab IN (~{'~A'~^,~})"
+ (format nil " AND c.sab IN (~{'~A'~^,~})"
(mapcar 'clsql-sys::sql-escape-quotes sab)))
(null
- (error "SAB missing")))
- (if srl (format nil "AND KCUILRL <= ~A" srl) "")))
+ ""))
+ (if srl (format nil " AND KCUILRL <= ~A" srl) "")))
(defun mrconso-query-word-sui (word sab srl like)
- (format nil "SELECT DISTINCT c.sui FROM MRCONSO c,MRXW_ENG x WHERE x.WD ~A '~A' AND x.sui=c.sui AND ~A ~A"
- (if like "LIKE" "=")
+ (format nil "SELECT DISTINCT c.sui FROM MRCONSO c,MRXW_ENG x WHERE x.WD~A'~A' AND x.sui=c.sui~A~A"
+ (if like " LIKE " "=")
(clsql-sys::sql-escape-quotes word)
(etypecase sab
(string
- (format nil " c.sab='~A'" (clsql-sys::sql-escape-quotes sab)))
+ (format nil " AND c.sab='~A'" (clsql-sys::sql-escape-quotes sab)))
(cons
- (format nil " c.sab IN (~{'~A'~^,~})"
+ (format nil " AND c.sab IN (~{'~A'~^,~})"
(mapcar 'clsql-sys::sql-escape-quotes sab)))
(null
- (error "SAB missing")))
- (if srl (format nil "AND KCUILRL <= ~A" srl) "")))
-
-(defun find-uconso-word-sab (word &key sab (srl *current-srl*) (like nil))
- "Return list of uconso that match word in matching SAB. Optionally, use SQL's LIKE syntax"
- (let ((sui-query (mrconso-query-word-sui word sab srl like))
- (uconsos nil))
- (dolist (sui (remove-duplicates (sort (mapcar 'car (mutex-sql-query sui-query)) #'<)))
- (setq uconsos (nconc uconsos (find-uconso-sui-sab sui sab))))
- (remove-duplicates uconsos :key 'cui)))
-
-(defun find-ucon-word-sab (word &key sab (srl *current-srl*) (like nil))
- "Return list of ucon that match word in matching SAB. Optionally, use SQL's LIKE syntax"
- (let ((query (mrconso-query-word-cui word sab srl like)))
- (loop for tuple in (mutex-sql-query query)
- collect (make-instance 'ucon :cui (first tuple)))))
-
-(defun find-ustr-word-sab (word &key sab (srl *current-srl*) (like nil))
- "Return list of ustr that match word in matching SAB. Optionally, use SQL's LIKE syntax"
- (let ((query (format nil "SELECT c.sui,c.cui,c.lui,c.str,c.lrl,c.stt,c.suppress,c.cuisui FROM MRCONSO c,MRXW_ENG x WHERE x.WD ~A '~A' AND x.cui=c.cui AND x.lui=c.lui AND x.sui=c.sui AND ~A ~A"
- (if like "LIKE" "=")
- (clsql-sys::sql-escape-quotes word)
- (typecase sab
- (string
- (format nil " c.sab='~A'" (clsql-sys::sql-escape-quotes sab)))
- (cons
- (format nil " c.sab IN (~('~A'~^,~))"
- (mapcar 'clsql-sys::sql-escape-quotes sab)))
- (t
- (error "SAB missing")))
- (if srl (format nil "AND KCUILRL <= ~D" srl) ""))))
- (loop for tuple in (mutex-sql-query query)
- collect (destructuring-bind (sui cui lui str lrl stt suppress cuisui) tuple
- (make-instance 'ustr :sui sui :cui cui :lui lui :str str :lrl lrl
- :stt stt :suppress suppress :cuisui cuisui)))))
+ ""))
+ (if srl (format nil " AND KCUILRL <= ~A" srl) "")))
+(defun find-uconso-word (word &key sab (srl *current-srl*) (like nil))
+ "Return list of uconso that match word. Optionally, matching SAB. Optionally, use SQL's LIKE syntax"
+ (cond
+ (sab
+ (let ((sui-query (mrconso-query-word-sui word sab srl like))
+ (uconsos nil))
+ (dolist (sui (remove-duplicates (sort (mapcar 'car (mutex-sql-query sui-query)) #'<)))
+ (setq uconsos (nconc uconsos (find-uconso-sui sui :sab sab))))
+ (remove-duplicates uconsos :key 'cui)))
+ (t
+ (collect-umlisp-query-eval ('mrxw_eng '(kcuisui) srl 'wd word :like like
+ :lrl 'klrl :order '(kcuisui asc))
+ (find-uconso-cuisui kcuisui :srl srl)))))
+
+(defun find-ucon-word (word &key sab (srl *current-srl*) (like nil))
+ "Return list of ucon that match word in matching SAB. Optionally, use SQL's LIKE syntax"
+ (cond
+ (sab
+ (let ((query (mrconso-query-word-cui word sab srl like)))
+ (loop for tuple in (mutex-sql-query query)
+ collect (make-instance 'ucon :cui (first tuple)))))
+ (t
+ (collect-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"
(collect-umlisp-query-eval ('mrxnw_eng '(cui) srl 'nwd word :like like :distinct t
- :lrl 'klrl :order '(cui asc))
+ :lrl 'klrl :order '(cui asc))
(find-ucon-cui cui :srl srl)))
(defun find-cui-normalized-word (word &key (srl *current-srl*) (like nil))
"Return list of cui that match word, optionally use SQL's LIKE syntax"
(collect-umlisp-query-eval ('mrxnw_eng '(cui) srl 'nwd word :like like :distinct t
- :lrl 'klrl :order '(cui asc))
- cui))
+ :lrl 'klrl :order '(cui asc))
+ cui))
(defun find-lui-normalized-word (word &key (srl *current-srl*) (like nil))
"Return list of cui that match word, optionally use SQL's LIKE syntax"
(collect-umlisp-query-eval ('mrxnw_eng '(lui) srl 'nwd word :like like :distinct t
- :lrl 'klrl :order '(cui asc))
- lui))
+ :lrl 'klrl :order '(cui asc))
+ lui))
(defun find-sui-normalized-word (word &key (srl *current-srl*) (like nil))
"Return list of cui that match word, optionally use SQL's LIKE syntax"
(collect-umlisp-query-eval ('mrxnw_eng '(sui) srl 'nwd word :like like :distinct t
- :lrl 'klrl :order '(cui asc))
- sui))
+ :lrl 'klrl :order '(cui asc))
+ sui))
-(defun find-ustr-word (word &key (srl *current-srl*))
- "Return list of ustrs that match word"
- (collect-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-word (word &key sab (srl *current-srl*) (like nil))
+ "Return list of ustr that match word in matching SAB. Optionally, use SQL's LIKE syntax"
+ (cond
+ (sab
+ (let ((query (format nil "SELECT c.sui,c.cui,c.lui,c.str,c.lrl,c.stt,c.suppress,c.cuisui FROM MRCONSO c,MRXW_ENG x WHERE x.WD ~A '~A' AND x.cui=c.cui AND x.lui=c.lui AND x.sui=c.sui~A~A"
+ (if like "LIKE" "=")
+ (clsql-sys::sql-escape-quotes word)
+ (typecase sab
+ (string
+ (format nil " AND c.sab='~A'" (clsql-sys::sql-escape-quotes sab)))
+ (cons
+ (format nil " AND c.sab IN (~('~A'~^,~))"
+ (mapcar 'clsql-sys::sql-escape-quotes sab)))
+ (null
+ ""))
+ (if srl (format nil " AND KCUILRL <= ~D" srl) ""))))
+ (loop for tuple in (mutex-sql-query query)
+ collect (destructuring-bind (sui cui lui str lrl stt suppress cuisui) tuple
+ (make-instance 'ustr :sui sui :cui cui :lui lui :str str :lrl lrl
+ :stt stt :suppress suppress :cuisui cuisui)))))
+ (t
+ (collect-umlisp-query (mrxw_eng (kcuisui) srl wd word :lrl klrl
+ :order (cui asc sui asc))
+ (find-ustr-cuisui kcuisui :srl srl)))))
(defun find-ustr-normalized-word (word &key (srl *current-srl*))
"Return list of ustrs that match word"
- (collect-umlisp-query (mrxnw_eng (cui sui) srl nwd word :lrl klrl
- :order (cui asc sui asc))
- (find-ustr-cuisui (ensure-integer cui) (ensure-integer sui) :srl srl)))
+ (collect-umlisp-query (mrxnw_eng (kcuisui) srl nwd word :lrl klrl
+ :order (cui asc sui asc))
+ (find-ustr-cuisui kcuisui :srl srl)))
(defun find-uterm-word (word &key (srl *current-srl*))
"Return list of uterms that match word"
(collect-umlisp-query (mrxw_eng (cui lui) srl wd word :lrl klrl
- :order (cui asc lui asc))
+ :order (cui asc lui asc))
(find-uterm-cuilui (ensure-integer cui) (ensure-integer lui) :srl srl)))
(defun find-uterm-normalized-word (word &key (srl *current-srl*))
"Return list of uterms that match word"
(collect-umlisp-query (mrxnw_eng (cui lui) srl nwd word :lrl klrl
- :order (cui asc lui asc))
+ :order (cui asc lui asc))
(find-uterm-cuilui (ensure-integer cui) (ensure-integer lui) :srl srl)))
(defun find-ucon-noneng-word (word &key (srl *current-srl*) (like nil))
"Return list of ucons that match non-english word"
(collect-umlisp-query-eval ('mrxw_noneng '(cui) srl 'wd word :like like
- :distinct t :lrl 'klrl :order '(cui asc))
+ :distinct t :lrl 'klrl :order '(cui asc))
(find-ucon-cui cui :srl srl)))
(defun find-ustr-noneng-word (word &key (srl *current-srl*))
"Return list of ustrs that match non-english word"
- (collect-umlisp-query (mrxw_noneng (cui sui) srl wd word :lrl klrl
- :order (cui asc sui asc))
- (find-ustr-cuisui (ensure-integer cui) (ensure-integer sui) :srl srl)))
+ (collect-umlisp-query (mrxw_noneng (kcuisui) srl wd word :lrl klrl
+ :order (cui asc sui asc))
+ (find-ustr-cuisui kcuisui :srl srl)))
;; Special tables
only-exact-if-match limit &key extra-lookup-args)
(let ((uobjs '()))
(dolist (word (delimited-string-to-list str #\space))
- (setq uobjs (append uobjs (apply obj-lookup-fun word :srl srl extra-lookup-args))))
+ (setq uobjs (nconc uobjs
+ (kmrcl:flatten (apply obj-lookup-fun word :srl srl extra-lookup-args)))))
(let ((sorted
- (funcall sort-fun str
- (delete-duplicates uobjs :test #'= :key key))))
+ (funcall sort-fun str
+ (delete-duplicates uobjs :test #'= :key key))))
(let ((len (length sorted)))
(cond
((zerop len)
sorted))))))
(defun find-ucon-multiword (str &key (srl *current-srl*)
- (only-exact-if-match t)
+ (only-exact-if-match t)
limit
sab)
- (if sab
- (find-uobj-multiword str #'find-ucon-word-sab #'sort-score-pfstr-str
- #'cui srl only-exact-if-match limit
- :extra-lookup-args (list :sab sab))
- (find-uobj-multiword str #'find-ucon-word #'sort-score-pfstr-str
- #'cui srl only-exact-if-match limit)))
+ (find-uobj-multiword str #'find-ucon-word #'sort-score-pfstr-str
+ #'cui srl only-exact-if-match limit
+ :extra-lookup-args (list :sab sab)))
(defun find-uconso-multiword (str &key (srl *current-srl*)
- (only-exact-if-match t)
+ (only-exact-if-match t)
limit
sab)
- (if sab
- (find-uobj-multiword str #'find-uconso-word-sab #'sort-score-pfstr-str
- #'cui srl only-exact-if-match limit
- :extra-lookup-args (list :sab sab))
- (find-uobj-multiword str #'find-uconso-word #'sort-score-pfstr-str
- #'cui srl only-exact-if-match limit)))
+ (find-uobj-multiword str #'find-uconso-word #'sort-score-pfstr-str
+ #'cui srl only-exact-if-match limit
+ :extra-lookup-args (list :sab sab)))
(defun find-uterm-multiword (str &key (srl *current-srl*)
- (only-exact-if-match t)
+ (only-exact-if-match t)
limit)
(find-uobj-multiword str #'find-uterm-word #'sort-score-pfstr-str
- #'lui srl only-exact-if-match limit))
+ #'lui srl only-exact-if-match limit))
(defun find-ustr-multiword (str &key (srl *current-srl*)
- (only-exact-if-match t)
+ (only-exact-if-match t)
limit
sab)
- (if sab
- (find-uobj-multiword str #'find-ustr-word-sab #'sort-score-ustr-str
- #'sui srl only-exact-if-match limit
- :extra-lookup-args (list :sab sab))
- (find-uobj-multiword str #'find-ustr-word #'sort-score-ustr-str
- #'sui srl only-exact-if-match limit)))
+ (find-uobj-multiword str #'find-ustr-word #'sort-score-ustr-str
+ #'sui srl only-exact-if-match limit
+ :extra-lookup-args (list :sab sab)))
(defun sort-score-pfstr-str (str uobjs)
"Return list of sorted and scored ucons. Score by match of str to ucon-pfstr"
(defun find-lexterm-word (wrd)
(collect-umlisp-query (lrwd (eui) nil wrd wrd)
(make-instance 'lexterm :eui (ensure-integer eui)
- :wrd (copy-seq wrd))))
+ :wrd (copy-seq wrd))))
;; LEX SQL Read functions
(ensure-eui-integer eui)
(collect-umlisp-query (lrabr (bas abr eui2 bas2) nil eui eui)
(make-instance 'labr :eui eui :bas bas :abr abr :bas2 bas2
- :eui2 (ensure-integer eui2))))
+ :eui2 (ensure-integer eui2))))
(defun find-labr-bas (bas)
(collect-umlisp-query (labr (eui abr eui2 bas2) nil bas bas)
(make-instance 'labr :eui (ensure-integer eui) :abr abr :bas2 bas2
- :bas (copy-seq bas) :eui2 (ensure-integer eui2))))
+ :bas (copy-seq bas) :eui2 (ensure-integer eui2))))
(defun find-lagr-eui (eui)
(ensure-eui-integer eui)
(collect-umlisp-query (lragr (str sca agr cit bas) nil eui eui)
(make-instance 'lagr :eui eui :str str :sca sca :agr agr
- :cit cit :bas bas)))
+ :cit cit :bas bas)))
(defun find-lcmp-eui (eui)
(ensure-eui-integer eui)
(ensure-eui-integer eui)
(collect-umlisp-query (lrnom (bas sca eui2 bas2 sca2) nil eui eui)
(make-instance 'lnom :eui eui :bas bas :sca sca :bas2 bas2 :sca2 sca2
- :eui2 (ensure-integer eui2))))
+ :eui2 (ensure-integer eui2))))
(defun find-lprn-eui (eui)
(ensure-eui-integer eui)
(collect-umlisp-query (lrprn (bas num gnd cas pos qnt fea) nil eui eui)
(make-instance 'lprn :eui eui :bas bas :num num :gnd gnd
- :cas cas :pos pos :qnt qnt :fea fea)))
+ :cas cas :pos pos :qnt qnt :fea fea)))
(defun find-lprp-eui (eui)
(ensure-eui-integer eui)
(defun find-lwd-wrd (wrd)
(make-instance 'lwd :wrd wrd
- :euilist (collect-umlisp-query (lrwd (eui) nil wrd wrd)
- (ensure-integer eui))))
+ :euilist (collect-umlisp-query (lrwd (eui) nil wrd wrd)
+ (ensure-integer eui))))
;;; Semantic Network SQL access functions
(defun find-sdef-ui (ui)
(collect-umlisp-query (srdef (rt sty_rl stn_rtn def ex un rh abr rin)
- nil ui ui :single t)
+ nil ui ui :single t)
(make-instance 'sdef :rt rt :ui ui :styrl sty_rl :stnrtn stn_rtn
- :def def :ex ex :un un :rh rh :abr abr :rin rin)))
+ :def def :ex ex :un un :rh rh :abr abr :rin rin)))
(defun find-sstre1-ui (ui)
(collect-umlisp-query (srstre1 (ui2 ui3) nil ui ui)
(make-instance 'sstre1 :ui ui :ui2 (ensure-integer ui2)
- :ui3 (ensure-integer ui3))))
+ :ui3 (ensure-integer ui3))))
(defun find-sstre1-ui2 (ui2)
(collect-umlisp-query (srstre1 (ui ui3) nil ui2 ui2)
(make-instance 'sstre1 :ui (ensure-integer ui) :ui2 ui2
- :ui3 (ensure-integer ui3))))
+ :ui3 (ensure-integer ui3))))
(defun find-sstr-rl (rl)
(collect-umlisp-query (srstre (sty_rl sty_rl2 ls) nil rl rl)
;;; **************************
-(defun make-ustats ()
- (with-sql-connection (conn)
- (ignore-errors (sql-execute "drop table USTATS" conn))
- (sql-execute "create table USTATS (NAME varchar(160), COUNT bigint, SRL integer)" conn)
-
- (dotimes (srl 5)
- (insert-ustats-count conn "Concept Count" "MRCONSO" "distinct CUI" "KCUILRL" srl)
- (insert-ustats-count conn "Term Count" "MRCONSO" "distinct KCUILUI" "KCUILRL" srl)
- (insert-ustats-count conn "Distinct Term Count" "MRCONSO" "distinct LUI" "KLUILRL" srl)
- (insert-ustats-count conn "String Count" "MRCONSO" "*" "KSUILRL" srl)
- (insert-ustats-count conn "Distinct String Count" "MRCONSO" "distinct SUI" "KSUILRL" srl)
- (insert-ustats-count conn "Hierarchcy" "MRHIER" "*" "KSRL" srl)
- (insert-ustats-count conn "Mappings" "MRMAP" "*" "KSRL" srl)
- (insert-ustats-count conn "Simple Mappings" "MRSMAP" "*" "KSRL" srl)
- (insert-ustats-count conn "Co-occuring Concept Count" "MRCOC" "*" "KLRL" srl)
- (insert-ustats-count conn "Definition Count" "MRDEF" "*" "KSRL" srl)
- (insert-ustats-count conn "Rank Count" "MRRANK" "*" "KSRL" srl)
- (insert-ustats-count conn "Relationship Count" "MRREL" "*" "KSRL" srl)
- (insert-ustats-count conn "Semantic Type Count" "MRSTY" "*" "KLRL" srl)
- (insert-ustats-count conn "Simple Attribute Count" "MRSAT" "*" "KSRL" srl)
- (insert-ustats-count conn "Source Abbreviation Count" "MRSAB" "*" "SRL" srl)
- (insert-ustats-count conn "Word Index Count" "MRXW_ENG" "*" "KLRL" srl)
- (insert-ustats-count conn "Normalized Word Index Count" "MRXNW_ENG" "*" "KLRL" srl)
- (insert-ustats-count conn "Normalized String Index Count" "MRXNS_ENG" "*" "KLRL" srl))
- (sql-execute "create index USTATS_SRL on USTATS (SRL)" conn))
- (find-ustats-all))
-
-(defun insert-ustats-count (conn name table count-variable srl-control srl)
- (insert-ustats conn name (find-count-table conn table srl count-variable srl-control) srl))
-
(defun find-count-table (conn table srl count-variable srl-control)
+ (with-sql-connection (conn)
(cond
((stringp srl-control)
(ensure-integer
(caar (sql-query (format nil "select count(~a) from ~a where ~a <= ~d"
- count-variable table srl-control srl)
- conn))))
+ count-variable table srl-control srl)
+ conn))))
((null srl-control)
(ensure-integer
(caar (sql-query (format nil "select count(~a) from ~a"
- count-variable table )
- conn))))
+ count-variable table )
+ conn))))
(t
(error "Unknown srl-control")
- 0)))
+ 0))))
(defun insert-ustats (conn name count srl)
(sql-execute (format nil "insert into USTATS (name,count,srl) values ('~a',~d,~d)"
- name count (if srl srl 3))
- conn))
+ name count (if srl srl 3))
+ conn))
(defun find-ustats-all (&key (srl *current-srl*))
(if srl
(collect-umlisp-query (ustats (name count srl) nil srl srl
- :order (name asc))
- (make-instance 'ustats :name name
- :hits (ensure-integer count)
- :srl (ensure-integer srl)))
+ :order (name asc))
+ (make-instance 'ustats :name name
+ :hits (ensure-integer count)
+ :srl (ensure-integer srl)))
(collect-umlisp-query (ustats (name count srl) nil nil nil
- :order (name asc))
- (make-instance 'ustats :name name
- :hits (ensure-integer count)
- :srl (ensure-integer srl)))))
+ :order (name asc))
+ (make-instance 'ustats :name name
+ :hits (ensure-integer count)
+ :srl (ensure-integer srl)))))
(defun find-ustats-srl (srl)
(collect-umlisp-query (ustats (name count) nil srl srl :order (name asc))
- (make-instance 'ustats :name name :hits (ensure-integer count))))
+ (make-instance 'ustats :name name :hits (ensure-integer count))))
+(defun find-urank-sab (sab &key (srl *current-srl*))
+ (collect-umlisp-query (mrrank (rank sab suppress tty) nil sab sab)
+ (make-instance 'urank :rank rank :sab sab :tty tty :suppress suppress)))
+
+(defun find-urank-all (&key (srl *current-srl*))
+ (if srl
+ (collect-umlisp-query (mrrank (rank sab suppress tty) nil ksrl srl)
+ (make-instance 'urank :rank rank :sab sab :tty tty :suppress suppress))
+ (collect-umlisp-query (mrrank (rank sab suppress tty ksrl) nil nil nil)
+ (make-instance 'urank :rank rank :sab sab :tty tty :suppress suppress))))
projects / umlisp.git / blobdiff