;;;; Author: Kevin M. Rosenberg
;;;; Created: Apr 2000
;;;;
-;;;; $Id$
-;;;;
;;;; This file, part of UMLisp, is
-;;;; Copyright (c) 2000-2004 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.
(:default-print-slots sab srl)
(:description "Custom Table: Source Restriction Level"))
-
+
(defclass urank (umlsclass)
((rank :value-type fixnum :initarg :rank :reader rank)
(sab :value-type string :initarg :sab :reader sab)
(tty :value-type string :initarg :tty :reader tty)
- (supres :value-type string :initarg :supres :reader supres))
+ (suppress :value-type string :initarg :suppress :reader suppress))
(:metaclass hyperobject-class)
(:user-name "Rank")
- (:default-print-slots rank sab tty supres))
+ (:default-print-slots rank sab tty suppress))
(defclass udef (umlsclass)
((def :value-type cdata :initarg :def :reader def)
- (sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab))
+ (sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab)
+ (suppress :value-type string :initarg :suppress :reader suppress))
(:metaclass hyperobject-class)
(:user-name "Definition")
(:default-print-slots sab def))
(rcui :value-type fixnum :initarg :rcui :reader rcui :print-formatter fmt-cui)
(vsab :value-type string :initarg :vsab :reader vsab)
(rsab :value-type string :initarg :rsab :reader rsab :hyperlink find-ustr-sab
- :hyperlink-parameters (("subobjects" . "no")))
+ :hyperlink-parameters (("subobjects" . "no")))
(son :value-type string :initarg :son :reader son)
(sf :value-type string :initarg :sf :reader sf)
(sver :value-type string :initarg :sver :reader sver)
(lat :value-type string :initarg :lat :reader lat)
(cenc :value-type string :initarg :cenc :reader cenc)
(curver :value-type string :initarg :curver :reader curver)
- (sabin :value-type string :initarg :sabin :reader sabin))
+ (sabin :value-type string :initarg :sabin :reader sabin)
+ (ssn :value-type string :initarg :ssn :reader ssn)
+ (scit :value-type string :initarg :scit :reader scit))
(:metaclass hyperobject-class)
(:user-name "Source Abbreviation")
(:default-print-slots vcui rcui vsab rsab son sf sver vstart vend imeta
- rmeta slc scc srl tfr cfr cxty ttyl atnl lat cenc
- curver sabin))
-
-(defclass ucxt (umlsclass)
- ((sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab)
- (code :value-type string :initarg :code :reader code)
+ rmeta slc scc srl tfr cfr cxty ttyl atnl lat cenc
+ curver sabin ssn scit))
+
+(defclass uhier (umlsclass)
+ ((cui :value-type fixnum :initarg :cui :reader cui :hyperlink find-ucon-cui
+ :print-formatter fmt-cui)
+ (aui :value-type fixnum :initarg :aui :reader aui :hyperlink find-ucon-aui
+ :print-formatter fmt-aui)
(cxn :value-type fixnum :initarg :cxn :reader cxn)
- (cxl :value-type string :initarg :cxl :reader cxl)
- (cxs :value-type cdata :initarg :cxs :reader cxs)
- (cui2 :value-type fixnum :initarg :cui2 :reader cui2 :hyperlink find-ucon-cui
- :print-formatter fmt-cui)
- (hcd :value-type string :initarg :hcd :reader hcd)
+ (paui :value-type fixnum :initarg :paui :reader paui
+ :print-formatter fmt-aui)
+ (sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab)
(rela :value-type string :initarg :rela :reader rela)
- (xc :value-type string :initarg :xc :reader xc))
+ (ptr :value-type string :initarg :ptr :reader ptr)
+ (hcd :value-type string :initarg :hcd :reader hcd)
+ (cvf :value-type string :initarg :cvf :reader cvf))
(:metaclass hyperobject-class)
(:user-name "Context")
- (:default-print-slots sab code rnk cxn cxl hcd rela xc cui2 cxs))
+ (:default-print-slots cxn paui sab rela ptr hcd))
(defclass ustr (umlsclass)
((sui :value-type fixnum :initarg :sui :reader sui :print-formatter fmt-sui
- :hyperlink find-ustr-sui)
+ :hyperlink find-ustr-sui)
(cui :value-type fixnum :initarg :cui :reader cui :print-formatter fmt-cui
- :hyperlink find-ucon-cui)
+ :hyperlink find-ucon-cui)
(lui :value-type fixnum :initarg :lui :reader lui :print-formatter fmt-lui
- :hyperlink find-uterm-lui)
+ :hyperlink find-uterm-lui)
(cuisui :value-type integer :initarg :cuisui :reader cuisui )
(str :value-type cdata :initarg :str :reader str)
(lrl :value-type fixnum :initarg :lrl :reader lrl)
(stt :value-type string :initarg :stt :reader stt)
+ (suppress :value-type string :initarg :suppress :reader suppress)
(s#so :reader s#so :subobject (find-uso-cuisui cui sui))
- (s#sat :reader s#sat :subobject (find-usat-ui cui lui sui))
- (s#cxt :reader s#cxt :subobject (find-ucxt-cuisui cui sui)))
+ (s#sat :reader s#sat :subobject (find-usat-ui cui lui sui)))
(:metaclass hyperobject-class)
(:user-name "String")
- (:default-print-slots sui stt lrl str))
+ (:default-print-slots sui stt lrl str suppress))
+
(defclass uso (umlsclass)
- ((aui :value-type fixnum :initarg :aui :reader aui :print-formatter fmt-aui)
+ ((aui :value-type fixnum :initarg :aui :reader aui :print-formatter fmt-aui
+ :hyperlink find-ucon-aui)
(cui :value-type fixnum :initarg :cui :reader cui :print-formatter fmt-cui
- :hyperlink find-ucon-cui)
+ :hyperlink find-ucon-cui)
(sui :value-type fixnum :initarg :sui :reader sui :print-formatter fmt-sui
- :hyperlink find-ucon-sui)
+ :hyperlink find-ucon-sui)
(saui :value-type string :initarg :saui :reader saui)
(sdui :value-type string :initarg :sdui :reader sdui)
(scui :value-type string :initarg :scui :reader scui)
- (tty :value-type string :initarg :tty :reader tty :hyperlink find-btty-tty)
- (sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab)
+ (tty :value-type string :initarg :tty :reader tty)
(code :value-type string :initarg :code :reader code)
- (srl :value-type fixnum :initarg :srl :reader srl))
+ (sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab)
+ (lat :value-type string :initarg :lat :reader lat)
+ (str :value-type cdata :initarg :str :reader str)
+ (srl :value-type fixnum :initarg :srl :reader srl)
+ (ts :value-type string :initarg :ts :reader ts))
(:metaclass hyperobject-class)
(:user-name "Source")
- (:default-print-slots aui sab code saui sdui scui tty srl))
-
-(defclass ulo (umlsclass)
- ((isn :value-type string :initarg :isn :reader isn)
- (fr :value-type fixnum :initarg :fr :reader fr)
- (un :value-type string :initarg :un :reader un)
- (sui :value-type fixnum :initarg :sui :reader sui :print-formatter fmt-sui)
- (sna :value-type string :initarg :sna :reader sna)
- (soui :value-type string :initarg :soui :reader soui))
- (:metaclass hyperobject-class)
- (:user-name "Locator")
- (:default-print-slots isn fr un sna soui sui))
+ (:default-print-slots aui sab code saui sdui scui tty srl ts))
(defclass uterm (umlsclass)
((lui :value-type fixnum :initarg :lui :reader lui :print-formatter fmt-lui
- :hyperlink find-uterm-lui)
+ :hyperlink find-uterm-lui)
(cui :value-type fixnum :initarg :cui :reader cui :print-formatter fmt-cui
- :hyperlink find-ucon-cui)
+ :hyperlink find-ucon-cui)
(lat :value-type string :initarg :lat :reader lat)
(ts :value-type string :initarg :ts :reader ts)
(lrl :value-type fixnum :initarg :lrl :reader lrl)
(defclass usty (umlsclass)
((tui :value-type fixnum :initarg :tui :reader tui :print-formatter fmt-tui
- :hyperlink find-ucon-tui
- :hyperlink-parameters (("subobjects" . "no")))
+ :hyperlink find-ucon-tui
+ :hyperlink-parameters (("subobjects" . "no")))
(sty :value-type string :initarg :sty :reader sty))
(:metaclass hyperobject-class)
(:user-name "Semantic Type")
(:default-print-slots tui sty))
(defclass urel (umlsclass)
- ((rel :value-type string :initarg :rel :reader rel :hyperlink find-brel-rel)
+ ((rel :value-type string :initarg :rel :reader rel)
(cui1 :value-type fixnum :initarg :cui1 :reader cui1 :print-formatter fmt-cui)
- (cui2 :value-type fixnum :initarg :cui2 :reader cui2 :hyperlink find-ucon-sui
- :print-formatter fmt-cui)
+ (aui1 :value-type fixnum :initarg :aui1 :reader aui1 :print-formatter fmt-aui)
+ (stype1 :value-type string :initarg :stype1 :reader stype1)
+ (cui2 :value-type fixnum :initarg :cui2 :reader cui2 :hyperlink find-ucon-cui
+ :print-formatter fmt-cui)
+ (aui2 :value-type fixnum :initarg :aui2 :reader aui2 :hyperlink find-ucon-aui
+ :print-formatter fmt-aui)
(pfstr2 :value-type cdata :initarg :pfstr2 :reader pfstr2)
+ (stype2 :value-type string :initarg :stype2 :reader stype2)
(rela :value-type string :initarg :rela :reader rela)
+ (rui :value-type fixnum :initarg :rui :reader rui :print-formatter fmt-rui)
+ (srui :value-type string :initarg :srui :reader srui)
(sab :value-type string :initarg :sab :reader sab :hyperlink find-usab-rsab)
- (sl :value-type string :initarg :sl :reader sl))
+ (sl :value-type string :initarg :sl :reader sl)
+ (rg :value-type string :initarg :rg :reader rg)
+ (dir :value-type string :initarg :dir :reader dir)
+ (suppress :value-type string :initarg :suppress :reader suppress)
+ (cvf :value-type string :initarg :cvf :reader cvf))
(:metaclass hyperobject-class)
(:user-name "Relationship")
- (:default-print-slots rel rela sab sl cui2 pfstr2))
-
+ (:default-print-slots stype1 rel cui2 aui2 stype2 rela rui srui sab sl rg dir suppress pfstr2))
+
+#+mrcoc
(defclass ucoc (umlsclass)
((cui1 :value-type fixnum :initarg :cui1 :reader cui1 :print-formatter fmt-cui)
+ (aui1 :value-type fixnum :initarg :aui1 :reader aui1 :print-formatter fmt-aui)
(cui2 :value-type fixnum :initarg :cui2 :reader cui2 :print-formatter fmt-cui
- :hyperlink find-ucon-cui)
+ :hyperlink find-ucon-cui)
+ (aui2 :value-type fixnum :initarg :aui2 :reader aui2 :print-formatter fmt-aui
+ :hyperlink find-ucon-aui)
(pfstr2 :value-type cdata :initarg :pfstr2 :reader pfstr2)
+ (sab :value-type string :initarg :sab :reader sab)
(cot :value-type string :initarg :cot :reader cot)
(cof :value-type fixnum :initarg :cof :reader cof)
- (coa :value-type cdata :initarg :coa :reader coa))
+ (coa :value-type cdata :initarg :coa :reader coa)
+ (cvf :value-type string :initarg :cvf :reader cvf))
(:metaclass hyperobject-class)
(:user-name "Co-occuring Concept")
- (:default-print-slots soc cot cof coa cui2 pfstr2))
+ (:default-print-slots cot cof coa cui2 aui2 sab pfstr2))
-
(defclass ucon (umlsclass)
((cui :value-type fixnum :initarg :cui :reader cui :print-formatter fmt-cui
- :hyperlink find-ucon-cui)
- (lrl :value-type fixnum :initarg :lrl :reader lrl)
- (pfstr :value-type cdata :initarg :pfstr :reader pfstr)
+ :hyperlink find-ucon-cui)
+ (lrl :value-type fixnum :initarg :lrl :reader lrl
+ :compute-cached-value (find-lrl-cui cui))
+ (pfstr :value-type cdata :initarg :pfstr :reader pfstr
+ :compute-cached-value (find-pfstr-cui cui))
(s#def :reader s#def :subobject (find-udef-cui cui))
+ (s#so :reader s#so :subobject (find-uso-cui cui))
+ (s#hier :reader s#hier :subobject (find-uhier-cui cui))
+ (s#map :reader s#map :subobject (find-umap-cui cui))
+ (s#smap :reader s#smap :subobject (find-usmap-cui cui))
(s#sty :reader s#sty :subobject (find-usty-cui cui))
- (s#lo :reader s#lo :subobject (find-ulo-cui cui))
(s#term :reader s#term :subobject (find-uterm-cui cui))
(s#sat :reader s#sat :subobject (find-usat-ui cui))
(s#rel :reader s#rel :subobject (find-urel-cui cui))
- (s#coc :reader s#coc :subobject (find-ucoc-cui cui)))
+ #+mrcoc (s#coc :reader s#coc :subobject (find-ucoc-cui cui))
+ )
(:metaclass hyperobject-class)
(:user-name "Concept")
(:default-print-slots cui lrl pfstr))
+
+(defclass uconso (umlsclass)
+ ((cui :value-type fixnum :initarg :cui :reader cui :print-formatter fmt-cui
+ :hyperlink find-ucon-cui)
+ (pfstr :value-type cdata :initarg :pfstr :reader pfstr
+ :compute-cached-value (find-pfstr-cui cui))
+ (lat :value-type string :initarg :lat :reader lat)
+ (ts :value-type string :initarg :ts :reader ts)
+ (lui :value-type fixnum :initarg :lui :reader lui :print-formatter fmt-lui)
+ (stt :value-type string :initarg :stt :reader stt)
+ (sui :value-type fixnum :initarg :sui :reader sui :print-formatter fmt-sui)
+ (ispref :value-type string :initarg :ispref :reader ispref)
+ (aui :value-type fixnum :initarg :aui :reader aui :print-formatter fmt-aui)
+ (saui :value-type string :initarg :saui :reader saui)
+ (scui :value-type string :initarg :scui :reader scui)
+ (sdui :value-type string :initarg :sdui :reader sdui)
+ (sab :value-type string :initarg :sab :reader sab)
+ (tty :value-type string :initarg :tty :reader tty)
+ (code :value-type string :initarg :code :reader code)
+ (str :value-type string :initarg :str :reader str)
+ (srl :value-type fixnum :initarg :srl :reader srl)
+ (suppress :value-type string :initarg :suppress :reader suppress)
+ (cvf :value-type string :initarg :cvf :reader cvf)
+ (kpfeng :value-type string :initarg :kpfeng :reader kpfeng)
+ (kcuisui :value-type bigint :initarg :kcuisui :reader kcuisui)
+ (kcuilui :value-type bigint :initarg :kcuilui :reader kcuilui)
+ (kcuilrl :value-type fixnum :initarg :kcuilrl :reader kcuilrl)
+ (kluilrl :value-type fixnum :initarg :kluilrl :reader kluilrl)
+ (ksuilrl :value-type fixnum :initarg :ksuilrl :reader ksuilrl)
+ (s#def :reader s#def :subobject (find-udef-cui cui))
+ (s#so :reader s#so :subobject (find-uso-cui cui))
+ (s#hier :reader s#hier :subobject (find-uhier-cui cui))
+ (s#map :reader s#map :subobject (find-umap-cui cui))
+ (s#smap :reader s#smap :subobject (find-usmap-cui cui))
+ (s#sty :reader s#sty :subobject (find-usty-cui cui))
+ (s#term :reader s#term :subobject (find-uterm-cui cui))
+ (s#sat :reader s#sat :subobject (find-usat-ui cui))
+ (s#rel :reader s#rel :subobject (find-urel-cui cui))
+ #+mrcoc (s#coc :reader s#coc :subobject (find-ucoc-cui cui))
+ )
+ (:documentation "CONSO is a new concept from the RRF files.")
+ (:metaclass hyperobject-class)
+ (:user-name "Concept")
+ (:default-print-slots cui kcuilrl str sab))
+
+(defclass umap (umlsclass)
+ ((mapsetcui :value-type fixnum :initarg :mapsetcui :reader mapsetcui)
+ (mapsetsab :value-type string :initarg :mapsetsab :reader mapsetsab)
+ (mapsubsetid :value-type string :initarg :mapsubsetid :reader mapsubsetid)
+ ;; fixme: will convert to integer
+ (maprank :value-type string :initarg :maprank :reader maprank)
+ (fromid :value-type string :initarg :fromid :reader fromid)
+ (fromsid :value-type string :initarg :fromsid :reader fromsid)
+ (fromexpr :value-type string :initarg :fromexpr :reader fromexpr)
+ (fromtype :value-type string :initarg :fromtype :reader fromtype)
+ (fromrule :value-type string :initarg :fromrule :reader fromrule)
+ (fromres :value-type string :initarg :fromres :reader fromres)
+ (rel :value-type string :initarg :rel :reader rel)
+ (rela :value-type string :initarg :rela :reader rela)
+ (toid :value-type string :initarg :toid :reader toid)
+ (tosid :value-type string :initarg :tosid :reader tosid)
+ (toexpr :value-type string :initarg :toexpr :reader toexpr)
+ (totype :value-type string :initarg :totype :reader totype)
+ (torule :value-type string :initarg :torule :reader torule)
+ (tores :value-type string :initarg :tores :reader tores)
+ (maprule :value-type string :initarg :maprule :reader maprule)
+ (maptype :value-type string :initarg :maptype :reader maptype)
+ (mapatn :value-type string :initarg :mapatn :reader mapatn)
+ (mapatv :value-type string :initarg :mapatv :reader mapatv)
+ (cvf :value-type string :initarg :cvf :reader cvf))
+ (:metaclass hyperobject-class)
+ (:user-name "Mapping")
+ (:default-print-slots mapsetcui mapsetsab mapsubsetid maprank fromid fromsid fromexpr fromtype
+ fromrule fromres rel rela toid tosid toexpr totype torule tores maprule
+ maptype mapatn mapatv))
+
+(defclass usmap (umlsclass)
+ ((mapsetcui :value-type fixnum :initarg :mapsetcui :reader mapsetcui)
+ (mapsetsab :value-type string :initarg :mapsetsab :reader mapsetsab)
+ (fromexpr :value-type string :initarg :fromexpr :reader fromexpr)
+ (fromtype :value-type string :initarg :fromtype :reader fromtype)
+ (rel :value-type string :initarg :rel :reader rel)
+ (rela :value-type string :initarg :rela :reader rela)
+ (toexpr :value-type string :initarg :toexpr :reader toexpr)
+ (totype :value-type string :initarg :totype :reader totype)
+ (cvf :value-type string :initarg :cvf :reader cvf))
+ (:metaclass hyperobject-class)
+ (:user-name "Simple Mapping")
+ (:default-print-slots mapsetcui mapsetsab fromexpr fromtype rel rela toexpr totype))
+
(defclass uxw (umlsclass)
((wd :value-type string :initarg :wd :reader wd)
(cui :value-type fixnum :initform nil :initarg :cui :reader cui :print-formatter fmt-cui)
(:user-name "XNS Index" "XNS Indices")
(:default-print-slots lat nstr cuilist))
+(defclass udoc (umlsclass)
+ ((dockey :value-type string :initarg :dockey :reader dockey)
+ (expl :value-type cdata :initarg :expl :reader expl)
+ (dtype :value-type cdata :initarg :dtype :reader dtype)
+ (dvalue :value-type cdata :initarg :dvalue :reader dvalue))
+ (:metaclass hyperobject-class)
+ (:user-name "Documentation record")
+ (:default-print-slots dockey expl dtype dvalue))
+
;;; LEX objects
(defclass lexterm (umlsclass)
((eui :value-type fixnum :initarg :eui :reader eui :print-formatter fmt-eui
- :hyperlink find-lexterm-eui)
+ :hyperlink find-lexterm-eui)
(wrd :value-type string :initarg :wrd :reader wrd)
(s#abr :reader s#abr :subobject (find-labr-eui eui))
(s#agr :reader s#agr :subobject (find-lagr-eui eui))
(ui3 :value-type integer :initarg :ui3 :reader ui3 :print-formatter fmt-tui))
(:metaclass hyperobject-class)
(:user-name "Fully Inherited Set of Relation (TUIs)"
- "Fully Inherited Set of Relations (TUIs)")
+ "Fully Inherited Set of Relations (TUIs)")
(:default-print-slots ui ui2 ui3))
(defclass sstre2 (umlsclass)
(sty2 :value-type string :initarg :ui3 :reader sty2))
(:metaclass hyperobject-class)
(:user-name "Fully Inherited Set of Relation (strings)"
- "Fully Inherited Set of Relations (strings)")
+ "Fully Inherited Set of Relations (strings)")
(:default-print-slots sty rl sty2))
(defclass ustats (umlsclass)
((name :value-type string :initarg :name :reader name)
(hits :value-type integer :initarg :hits :reader hits
- :user-name "count"
- :print-formatter fmt-comma-integer)
+ :user-name "count"
+ :print-formatter fmt-comma-integer)
(srl :value-type fixnum :initarg :srl :reader srl))
(:metaclass hyperobject-class)
(:default-initargs :name nil :hits nil :srl nil)
(:user-name "UMLS Statistic")
(:default-print-slots name hits srl)
(:documentation "Custom Table: UMLS Database statistics."))
-
-
-(defclass bsab (umlsclass)
- ((sab :value-type string :initarg :sab :reader sab
- :hyperlink find-ustr-sab
- :hyperlink-parameters (("subobjects" . "no")))
- (name :value-type string :initarg :name :reader name)
- (hits :value-type fixnum :initarg :hits :reader hits
- :user-name "count"
- :print-formatter fmt-comma-integer))
- (:metaclass hyperobject-class)
- (:default-initargs :sab nil :name nil :hits nil)
- (:user-name "Source of Abbreviation")
- (:default-print-slots sab name hits)
- (:documentation "Bonus SAB file"))
-
-(defclass btty (umlsclass)
- ((tty :value-type string :initarg :tty :reader tty)
- (name :value-type string :initarg :name :reader name)
- (hits :value-type fixnum :initarg :hits :reader hits
- :user-name "count"
- :print-formatter fmt-comma-integer))
- (:metaclass hyperobject-class)
- (:default-initargs :tty nil :name nil :hits nil)
- (:user-name "Bonus TTY")
- (:default-print-slots tty name hits)
- (:documentation "Bonus TTY file"))
-
-(defclass brel (umlsclass)
- ((sab :value-type string :initarg :sab :reader sab)
- (sl :value-type string :initarg :sl :reader sl)
- (rel :value-type string :initarg :rel :reader rel)
- (rela :value-type string :initarg :rela :reader rela)
- (hits :value-type fixnum :initarg :hits :reader hits
- :user-name "count"
- :print-formatter fmt-comma-integer))
- (:metaclass hyperobject-class)
- (:default-initargs :sab nil :sl nil :rel nil :rela nil :hits nil)
- (:user-name "Bonus REL")
- (:default-print-slots sab sl rel rela hits)
- (:documentation "Bonus REL file"))
-
-(defclass batn (umlsclass)
- ((sab :value-type string :initarg :sab :reader sab)
- (atn :value-type string :initarg :atn :reader atn)
- (hits :value-type fixnum :initarg :hits :reader hits
- :user-name "count"
- :print-formatter fmt-comma-intger))
- (:metaclass hyperobject-class)
- (:default-initargs :sab nil :atn nil)
- (:user-name "Bonus ATN")
- (:default-print-slots sab atn hits)
- (:documentation "Bonus ATN file"))
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