incubator-ctakes-commits mailing list archives

Site index · List index
Message view « Date » · « Thread »
Top « Date » · « Thread »
From s..@apache.org
Subject svn commit: r1425045 - /incubator/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
Date Fri, 21 Dec 2012 17:45:49 GMT
Author: swu
Date: Fri Dec 21 17:45:49 2012
New Revision: 1425045

URL: http://svn.apache.org/viewvc?rev=1425045&view=rev
Log:
additions to common type system that should not cause any errors with previous types used

Modified:
    incubator/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml

Modified: incubator/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
URL: http://svn.apache.org/viewvc/incubator/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml?rev=1425045&r1=1425044&r2=1425045&view=diff
==============================================================================
--- incubator/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
(original)
+++ incubator/ctakes/trunk/ctakes-type-system/src/main/resources/org/apache/ctakes/typesystem/types/TypeSystem.xml
Fri Dec 21 17:45:49 2012
@@ -1750,5 +1750,834 @@ Equivalent to cTAKES: edu.mayo.bmi.uima.
         </featureDescription>
       </features>
     </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textspan.LookupWindowAnnotation</name>
+      <description>Defines a window within which dictionary terms may match.  An auxiliary
spanned type.
+Equivalent to cTAKES: edu.mayo.bmi.uima.lookup.type.LookupWindowAnnotation</description>
+      <supertypeName>uima.tcas.Annotation</supertypeName>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationRoute</name>
+      <description>Means by which the medication was taken or administered.  Value
set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationForm</name>
+      <description>Form of this medication.  Value set includes tablet, capsule, liquid,
inhalant, gel, other, etc.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationStrength</name>
+      <description>Strength indicates the strength number and unit of the prescribed
drug.  E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>number</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>unit</name>
+          <description>the unit of measurement</description>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationDuration</name>
+      <description>The amount of time after which a medication should stop being used,
e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationDosage</name>
+      <description>Dosage indicates how much of a prescribed drug should be taken.
 E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationFrequency</name>
+      <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day"
would have a number=2 and unit=day.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>number</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>unit</name>
+          <description>The periodic unit used, e.g day, month, hour, etc.</description>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationStatusChange</name>
+      <description>Status refers to the whether the medication is currently being taken
or not.  Value set: start, stop, increase, decrease, no change.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description>Indicates the change status of 'stop', 'start', 'increase',
'decrease', or 'noChange'.</description>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.ProcedureDevice</name>
+      <description>Corresponds to the UMLS Devices semantic group: medical device and
research device. 
+Example: arterial line has a Medical Device semantic type. This is qualifying information
on how a procedure was done.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.ProcedureMethod</name>
+      <description>The way or the equipment used to give or administration something
(medication, test). This corresponds to the Procedures UMLS semantic group.
+More qualifying information on how the procedure was done.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.LabDeltaFlag</name>
+      <description>An indicator to warn that the laboratory test result has changed
significantly from the previous identical laboratory test result.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.LabValue</name>
+      <description>Quantitative results of a laboratory, with number and unit.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>number</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>unit</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.LabReferenceRange</name>
+      <description>Holds a narrative (i.e. string) reference range</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.BodyLaterality</name>
+      <description>The proximity of the location in anatomical terms (distal, proximal,
superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.BodySide</name>
+      <description>Value set: unmarked (default), left, right, bilateral</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.Course</name>
+      <description>An indication of progress or decline of a condition.  Value set:
unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.Severity</name>
+      <description>An explicitly-mentioned indication of the seriousness of a condition.
 Value Set: unmarked (default), severe, moderate, slight</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.refsem.Attribute</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+
+    <!-- ADDED MANUALLY BY STEPHEN: ATTRIBUTE CONVERSION TO MODIFIER -->
+
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationRouteModifier</name>
+      <description>Means by which the medication was taken or administered.  Value
set includes Topical, Enteral_Oral, Parenteral_Intravenous, Other, undetermined, etc.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationFormModifier</name>
+      <description>Form of this medication.  Value set includes tablet, capsule, liquid,
inhalant, gel, other, etc.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationStrengthModifier</name>
+      <description>Strength indicates the strength number and unit of the prescribed
drug.  E.g. "5 mg" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>number</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>unit</name>
+          <description>the unit of measurement</description>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationDurationModifier</name>
+      <description>The amount of time after which a medication should stop being used,
e.g., "2 weeks" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationDosageModifier</name>
+      <description>Dosage indicates how much of a prescribed drug should be taken.
 E.g. "one" in "one 5 mg tablet twice-a-day for 2 weeks"</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationFrequencyModifier</name>
+      <description>How often a medication should be used. e.g., BID or b.i.d. or "twice-a-day"
would have a number=2 and unit=day.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>number</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>unit</name>
+          <description>The periodic unit used, e.g day, month, hour, etc.</description>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationStatusChangeModifier</name>
+      <description>Status refers to the whether the medication is currently being taken
or not.  Value set: start, stop, increase, decrease, no change.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description>Indicates the change status of 'stop', 'start', 'increase',
'decrease', or 'noChange'.</description>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier</name>
+      <description>Corresponds to the UMLS Devices semantic group: medical device and
research device. 
+Example: arterial line has a Medical Device semantic type. This is qualifying information
on how a procedure was done.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier</name>
+      <description>The way or the equipment used to give or administration something
(medication, test). This corresponds to the Procedures UMLS semantic group.
+More qualifying information on how the procedure was done.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.LabDeltaFlagModifier</name>
+      <description>An indicator to warn that the laboratory test result has changed
significantly from the previous identical laboratory test result.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.LabValueModifier</name>
+      <description>Quantitative results of a laboratory, with number and unit.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>number</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>unit</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.LabReferenceRangeModifier</name>
+      <description>Holds a narrative (i.e. string) reference range</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</name>
+      <description>The proximity of the location in anatomical terms (distal, proximal,
superior, anterior and etc.). This is finer-grained to allow combinations of values.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</name>
+      <description>Value set: unmarked (default), left, right, bilateral</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.CourseModifier</name>
+      <description>An indication of progress or decline of a condition.  Value set:
unmarked (default), changed, increased, decreased, improved, worsened, resolved</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.SeverityModifier</name>
+      <description>An explicitly-mentioned indication of the seriousness of a condition.
 Value Set: unmarked (default), severe, moderate, slight</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+
+    <!-- ADDED MANUALLY BY STEPHEN: INDICATOR ADDITIONS TO MODIFIER -->
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.PolarityModifier</name>
+      <description>Used to indicate that a procedure or assertion did not occur or
does not exist. If indicated, negation is present and polarity should be -1.  If not indicated,
negation is not present and polarity should be +1 by default.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.ConditionalModifier</name>
+      <description>The Conditional modifier refers to mentions which could exist under
certain circumstances.  If indicated, there are conditions under which an associated Named
Entity mention might not be truly asserted.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.UncertaintyModifier</name>
+      <description>An introduction of a measure of doubt into a statement.  If indicated,
there is uncertainty.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.GenericModifier</name>
+      <description>The Generic modifier indicates that a named entity mention is generic,
i.e., not related to the instance of a disorder, sign/symptom, etc.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.SubjectModifier</name>
+      <description>The person the observation is on, i.e., a Person mention. This modifier
refers to the entity experiencing the disorder.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.HistoryOfModifier</name>
+      <description>An indication of explicit mentioning of a past history. The indicator
captures only very explicit mentions of historicity.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+
+    <!-- MANUALLY ADDED BY STEPHEN: CEM-SPECIFIC INDICATORS (NOT GENERAL) -->
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.LabInterpretationModifier</name>
+      <description>Test result interpretations organized in a valued list e.g., "rare
cells seen" or "few cells seen" in urinalysis, now combined with very_abnormal and abnormal.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>value</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.MedicationAllergyModifier</name>
+      <description>Indication of whether the medication is mentioned in the context
of Allergies.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.textsem.LabEstimatedModifier</name>
+      <description>Signals that the lab value was estimated, e.g., "GFR (estimated):
81".  True means that there is an indicator signalling that there was an estimation of the
value.</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.Modifier</supertypeName>
+      <features>
+        <featureDescription>
+          <name>indicated</name>
+          <description/>
+          <rangeTypeName>uima.cas.Boolean</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+
+    <!-- ADDED MANUALLY BY STEPHEN: NEW ENTITY AND EVENT MENTIONS --> 
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.AnatomicalSiteMention</name>
+      <description>A text string that refers to a (AnatomicalSite) Entity.  A body
part or area, corresponding to the UMLS semantic group of Anatomy.  Based on generic Clinical
Element Models (CEMs)</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.EntityMention</supertypeName>
+      <features>
+        <featureDescription>
+          <name>bodyLaterality</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodySide</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.MedicationMention</name>
+      <description>A text string that refers to a (Medication) Event.  This is an Event
from the UMLS semantic group of Chemicals and Drugs, pruned by RxNORM source.  Based on generic
Clinical Element Models (CEMs)</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
+      <features>
+        <featureDescription>
+          <name>medicationFrequency</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationFrequencyModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>medicationDuration</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationDurationModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>medicationRoute</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationRouteModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>medicationStatusChange</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationStatusChangeModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>medicationDosage</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationDosageModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>medicationStrength</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationStrengthModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>medicationForm</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.MedicationFormModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>startDate</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>endDate</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Date</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>relativeTemporalContext</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.ProcedureMention</name>
+      <description>A text string that refers to a (Procedure) Event.  This is from
the UMLS semantic group of Procedures (except that Laboratory procedures are separate).  Based
on generic Clinical Element Models (CEMs)</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
+      <features>
+        <featureDescription>
+          <name>bodyLaterality</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodySide</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodyLocation</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>procedureDevice</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.ProcedureDeviceModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>duration</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>endTime</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>method</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.ProcedureMethodModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>startTime</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>relativeTemporalContext</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.SignSymptomMention</name>
+      <description>A text string that refers to a (SignSymptom) Event.  This is from
the UMLS semantic group of Sign or Symtom.  Based on generic Clinical Element Models (CEMs)</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
+      <features>
+        <featureDescription>
+          <name>alleviatingFactor</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodyLaterality</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodySide</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodyLocation</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>course</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.CourseModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>duration</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>endTime</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>exacerbatingFactor</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>severity</name>
+          <description/>
+          <rangeTypeName>uima.cas.String</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>startTime</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>relativeTemporalContext</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.DiseaseDisorderMention</name>
+      <description>A text string that refers to a (DiseaseDisorder) Event.  This is
from the UMLS semantic group of Disorders (except that Sign and Symptom types are separate).
 Based on generic Clinical Element Models (CEMs)</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
+      <features>
+        <featureDescription>
+          <name>alleviatingFactor</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>associatedSignSymptom</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ManifestationOf</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodyLaterality</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodyLateralityModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodySide</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.BodySideModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>bodyLocation</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.LocationOf</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>course</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.CourseModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>duration</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>endTime</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>exacerbatingFactor</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.ElementRelation</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>startTime</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.refsem.Time</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>relativeTemporalContext</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.TemporalRelation</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+    <typeDescription>
+      <name>org.apache.ctakes.typesystem.type.refsem.LabMention</name>
+      <description>A text string that refers to a (Lab) Event.  This is from the UMLS
semantic group of Laboratory Procedures.  Based on generic Clinical Element Models (CEMs)</description>
+      <supertypeName>org.apache.ctakes.typesystem.type.textsem.EventMention</supertypeName>
+      <features>
+        <featureDescription>
+          <name>abnormalInterpretation</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>deltaFlag</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabDeltaFlagModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>labValue</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabValueModifier</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>ordinalInterpretation</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.relation.DegreeOf</rangeTypeName>
+        </featureDescription>
+        <featureDescription>
+          <name>referenceRangeNarrative</name>
+          <description/>
+          <rangeTypeName>org.apache.ctakes.typesystem.type.textsem.LabReferenceRangeModifier</rangeTypeName>
+        </featureDescription>
+      </features>
+    </typeDescription>
+   
+
   </types>
 </typeSystemDescription>
+
+<!--  LocalWords:  apache
+ -->



Mime
View raw message