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Fixing dependency issues #3

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8 changes: 6 additions & 2 deletions Extractors/Gender/GenderRegExtractor.py
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Expand Up @@ -11,8 +11,12 @@ def __init__(self, rawTextFileName, intermediateXMLFileName):
def findEntity(self):
extract_gender_m = []
extract_gender_f = []
extract_gender_m = re.search(r'.(\bmale\b)',self.Text,re.IGNORECASE)
extract_gender_f = re.search(r'.(\bfemale\b)',self.Text,re.IGNORECASE)
gender = ""
gender_offset = ""

extract_gender_m = re.search(r'.(\bmale\b|\bman\b|he|his|him)',self.Text,re.IGNORECASE)
extract_gender_f = re.search(r'.(\bfemale\b|\bwoman\b|she|her|hers)',self.Text,re.IGNORECASE)

if not extract_gender_f:
if not extract_gender_m:
gender = "UNK"
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1 change: 1 addition & 0 deletions Extractors/Weight/WeightNltkExtractor.py
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Expand Up @@ -58,6 +58,7 @@ def findEntity(self):
for tags in final_tags:
if any(word in tags for word in weight_keyword_list):
extract_weight_weightCode = tags #format: '71;50:52 year;53:57'
break #assuming that the demographics (weight) of the patient is always at the beginning of the narrative

if not extract_weight_weightCode:
weight = "UNK"
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2 changes: 1 addition & 1 deletion Postprocessing/Intermediate4/fda008_Intermediate.xml
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2 changes: 1 addition & 1 deletion Postprocessing/Intermediate4/fda009_Intermediate.xml
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2 changes: 1 addition & 1 deletion Postprocessing/Intermediate4/fda010_Intermediate.xml
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2 changes: 1 addition & 1 deletion Postprocessing/Intermediate4/gen034_Intermediate.xml
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2 changes: 1 addition & 1 deletion Postprocessing/Intermediate4/gen043_Intermediate.xml
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2 changes: 1 addition & 1 deletion Postprocessing/Intermediate4/gen046_Intermediate.xml
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86 changes: 86 additions & 0 deletions Resources/Concept.py
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@@ -0,0 +1,86 @@


# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
# http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

from collections import namedtuple

FIELD_NAMES_MMI = ('index', 'mm', 'score', 'preferred_name', 'cui', 'semtypes',
'trigger', 'location', 'pos_info', 'tree_codes')

FIELD_NAMES_AA = ('index', 'aa', 'short_form', 'long_form', 'num_tokens_short_form',
'num_chars_short_form', 'num_tokens_long_form',
'num_chars_long_form')#, 'pos_info')

FIELD_NAMES_UA = ('index', 'ua', 'short_form', 'long_form', 'num_tokens_short_form',
'num_chars_short_form', 'num_tokens_long_form',
'num_chars_long_form', 'pos_info')

class ConceptMMI(namedtuple('Concept', FIELD_NAMES_MMI)):
def __repr__(self):
items = [(field, getattr(self, field, None)) for field in FIELD_NAMES_MMI]
fields = ['%s=%r' % (k, v) for k, v in items if v is not None]
return '%s(%s)' % (self.__class__.__name__, ', '.join(fields))

def as_mmi(self):
return '|'.join([get(field) for field in FIELD_NAMES_MMI])

@classmethod
def from_mmi(this_class, line):
fields = line.split('|')
return this_class(**dict(zip(FIELD_NAMES_MMI, fields)))

class ConceptAA(namedtuple('Concept', FIELD_NAMES_AA)):
def __repr__(self):
items = [(field, getattr(self, field, None)) for field in FIELD_NAMES_AA]
fields = ['%s=%r' % (k, v) for k, v in items if v is not None]
return '%s(%s)' % (self.__class__.__name__, ', '.join(fields))

def as_mmi(self):
return '|'.join([get(field) for field in FIELD_NAMES_AA])

@classmethod
def from_mmi(this_class, line):
fields = line.split('|')
return this_class(**dict(zip(FIELD_NAMES_AA, fields)))

class ConceptUA(namedtuple('Concept', FIELD_NAMES_UA)):
def __repr__(self):
items = [(field, getattr(self, field, None)) for field in FIELD_NAMES_UA]
fields = ['%s=%r' % (k, v) for k, v in items if v is not None]
return '%s(%s)' % (self.__class__.__name__, ', '.join(fields))

def as_mmi(self):
return '|'.join([get(field) for field in FIELD_NAMES_UA])

@classmethod
def from_mmi(this_class, line):
fields = line.split('|')
return this_class(**dict(zip(FIELD_NAMES_UA, fields)))

class Corpus(list):
@classmethod
def load(this_class, stream):
stream = iter(stream)
corpus = this_class()
for line in stream:
fields = line.split('|')
if fields[1] == 'MMI':
corpus.append(ConceptMMI.from_mmi(line))
elif fields[1] == 'AA':
corpus.append(ConceptAA.from_mmi(line))
else:
corpus.append(ConceptUA.from_mmi(line))

return corpus


2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda001_SEX_Semifinal.xml
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Expand Up @@ -10,7 +10,7 @@
<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
</DEMOGRAPHICS>
<SEX end="49" extractor="GenderRegExtrator" start="45">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda007_AGE_SET_Semifinal.xml
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Expand Up @@ -4,7 +4,7 @@
<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="154" extractor="AgeRegExtrator" start="152">54</AGE><AGE_COD end="159" extractor="AgeRegExtrator" start="155">YR</AGE_COD></AGE_SET>
<AGE end="154" extractor="AgeRegExtrator" start="152">54</AGE><AGE_COD end="159" extractor="AgeRegExtrator" start="155">YR</AGE_COD><AGE end="154" extractor="AgeNltkExtrator" start="152">54</AGE><AGE_COD end="159" extractor="AgeNltkExtrator" start="155">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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4 changes: 2 additions & 2 deletions Test_Suite/Eval_Env/semifinal/fda008_AGE_SET_Semifinal.xml
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@@ -1,10 +1,10 @@
<ANNOTATIONS annotator="Project MEFA Program" textSource="/home/vsocrates/My_Documents/fda_textmining/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="3508" extractor="AgeRegExtrator" start="3507">5</AGE><AGE_COD end="3514" extractor="AgeRegExtrator" start="3509">YR</AGE_COD></AGE_SET>
<AGE end="3508" extractor="AgeRegExtrator" start="3507">5</AGE><AGE_COD end="3514" extractor="AgeRegExtrator" start="3509">YR</AGE_COD><AGE end="3508" extractor="AgeNltkExtrator" start="3507">5</AGE><AGE_COD end="3514" extractor="AgeNltkExtrator" start="3509">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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4 changes: 2 additions & 2 deletions Test_Suite/Eval_Env/semifinal/fda008_EVENT_DT_Semifinal.xml
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@@ -1,4 +1,4 @@
<ANNOTATIONS annotator="Project MEFA Program" textSource="/home/vsocrates/My_Documents/fda_textmining/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
Expand Down Expand Up @@ -42,4 +42,4 @@
</INSTANCE>
</INDICATION_FILE>
<COMMENT>This section is for freeform comments from the annotator regarding any particular test case.</COMMENT>
<EVENT_DT end="1835" extractor="AERecognitionEventDateExtractor" start="1823">unspecified date</EVENT_DT><EVENT_DT end="1303" extractor="SuspectRecognitionEventDateExtractor" start="1286">unspecified date</EVENT_DT><EVENT_DT end="19" extractor="NaiveEventDateExtractory" start="8">16-Apr-2015</EVENT_DT></ANNOTATIONS>
<EVENT_DT end="1801" extractor="AERecognitionEventDateExtractor" start="1793">unspecified date</EVENT_DT><EVENT_DT end="1264" extractor="SuspectRecognitionEventDateExtractor" start="1259">unspecified date</EVENT_DT><EVENT_DT end="19" extractor="NaiveEventDateExtractory" start="8">16-Apr-2015</EVENT_DT></ANNOTATIONS>
4 changes: 2 additions & 2 deletions Test_Suite/Eval_Env/semifinal/fda008_SEX_Semifinal.xml
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@@ -1,4 +1,4 @@
<ANNOTATIONS annotator="Project MEFA Program" textSource="/home/vsocrates/My_Documents/fda_textmining/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
Expand All @@ -10,7 +10,7 @@
<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
<SEX end="234" extractor="GenderRegExtrator" start="227">F</SEX></DEMOGRAPHICS>
<SEX end="180" extractor="GenderRegExtrator" start="176">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda008_WT_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="/home/vsocrates/My_Documents/fda_textmining/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda008">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda009_AGE_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda009">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda009">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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4 changes: 2 additions & 2 deletions Test_Suite/Eval_Env/semifinal/fda009_EVENT_DT_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda009">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda009">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
Expand Down Expand Up @@ -42,4 +42,4 @@
</INSTANCE>
</INDICATION_FILE>
<COMMENT>This section is for freeform comments from the annotator regarding any particular test case.</COMMENT>
<EVENT_DT end="1262" extractor="SuspectRecognitionEventDateExtractor" start="1250">unknown date</EVENT_DT><EVENT_DT end="562" extractor="NaiveEventDateExtractory" start="550">unknown date</EVENT_DT></ANNOTATIONS>
<EVENT_DT end="1249" extractor="SuspectRecognitionEventDateExtractor" start="1234">unknown date</EVENT_DT><EVENT_DT end="562" extractor="NaiveEventDateExtractory" start="550">unknown date</EVENT_DT></ANNOTATIONS>
2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda009_SEX_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda009">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda009">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda009_WT_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda009">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda009">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda010_AGE_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda010">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda010">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda010_EVENT_DT_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda010">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda010">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda010_SEX_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda010">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda010">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/fda010_WT_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/fda010">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/fda010">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen011_AGE_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/gen011">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/gen011">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen011_EVENT_DT_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/gen011">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/gen011">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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4 changes: 2 additions & 2 deletions Test_Suite/Eval_Env/semifinal/gen011_SEX_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/gen011">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/gen011">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
Expand All @@ -10,7 +10,7 @@
<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
</DEMOGRAPHICS>
<SEX end="677" extractor="GenderRegExtrator" start="673">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen011_WT_SET_Semifinal.xml
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<ANNOTATIONS annotator="Project MEFA Program" textSource="Test_Suite/Test_Cases/gen011">
<ANNOTATIONS annotator="Project MEFA Program" textSource="/work/swunnava/git-repos/TSIntegration1/FDA-Textmining/Test_Suite/Test_Cases/gen011">
<EVENT_DT end="" start="" />
<DEMOGRAPHICS>
<AGE_SET>
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen012_SEX_Semifinal.xml
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Expand Up @@ -10,7 +10,7 @@
<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
</DEMOGRAPHICS>
<SEX end="809" extractor="GenderRegExtrator" start="805">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen013_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="14" extractor="AgeRegExtrator" start="12">47</AGE><AGE_COD end="19" extractor="AgeRegExtrator" start="15">YR</AGE_COD></AGE_SET>
<AGE end="14" extractor="AgeRegExtrator" start="12">47</AGE><AGE_COD end="19" extractor="AgeRegExtrator" start="15">YR</AGE_COD><AGE end="14" extractor="AgeNltkExtrator" start="12">47</AGE><AGE_COD end="19" extractor="AgeNltkExtrator" start="15">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen013_SEX_Semifinal.xml
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<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
<SEX end="34" extractor="GenderRegExtrator" start="29">M</SEX></DEMOGRAPHICS>
<SEX end="1985" extractor="GenderRegExtrator" start="1981">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen014_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="263" extractor="AgeRegExtrator" start="261">65</AGE><AGE_COD end="268" extractor="AgeRegExtrator" start="264">YR</AGE_COD></AGE_SET>
<AGE end="263" extractor="AgeRegExtrator" start="261">65</AGE><AGE_COD end="268" extractor="AgeRegExtrator" start="264">YR</AGE_COD><AGE end="263" extractor="AgeNltkExtrator" start="261">65</AGE><AGE_COD end="268" extractor="AgeNltkExtrator" start="264">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen014_SEX_Semifinal.xml
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<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
<SEX end="283" extractor="GenderRegExtrator" start="278">M</SEX></DEMOGRAPHICS>
<SEX end="1608" extractor="GenderRegExtrator" start="1604">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen015_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="83" extractor="AgeRegExtrator" start="81">65</AGE><AGE_COD end="88" extractor="AgeRegExtrator" start="84">YR</AGE_COD></AGE_SET>
<AGE end="83" extractor="AgeRegExtrator" start="81">65</AGE><AGE_COD end="88" extractor="AgeRegExtrator" start="84">YR</AGE_COD><AGE end="83" extractor="AgeNltkExtrator" start="81">65</AGE><AGE_COD end="88" extractor="AgeNltkExtrator" start="84">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen015_SEX_Semifinal.xml
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Expand Up @@ -10,7 +10,7 @@
<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
</DEMOGRAPHICS>
<SEX end="406" extractor="GenderRegExtrator" start="402">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen016_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="83" extractor="AgeRegExtrator" start="81">56</AGE><AGE_COD end="88" extractor="AgeRegExtrator" start="84">YR</AGE_COD></AGE_SET>
<AGE end="83" extractor="AgeRegExtrator" start="81">56</AGE><AGE_COD end="88" extractor="AgeRegExtrator" start="84">YR</AGE_COD><AGE end="233" extractor="AgeNltkExtrator" start="231">56</AGE><AGE_COD end="238" extractor="AgeNltkExtrator" start="234">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen016_SEX_Semifinal.xml
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<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
</DEMOGRAPHICS>
<SEX end="248" extractor="GenderRegExtrator" start="242">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen019_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="12" extractor="AgeRegExtrator" start="10">27</AGE><AGE_COD end="17" extractor="AgeRegExtrator" start="13">YR</AGE_COD></AGE_SET>
<AGE end="12" extractor="AgeRegExtrator" start="10">27</AGE><AGE_COD end="17" extractor="AgeRegExtrator" start="13">YR</AGE_COD><AGE end="12" extractor="AgeNltkExtrator" start="10">27</AGE><AGE_COD end="17" extractor="AgeNltkExtrator" start="13">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen021_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="12" extractor="AgeRegExtrator" start="10">75</AGE><AGE_COD end="15" extractor="AgeRegExtrator" start="13">YR</AGE_COD></AGE_SET>
<AGE end="12" extractor="AgeRegExtrator" start="10">75</AGE><AGE_COD end="15" extractor="AgeRegExtrator" start="13">YR</AGE_COD><AGE end="12" extractor="AgeNltkExtrator" start="10">75</AGE><AGE_COD end="15" extractor="AgeNltkExtrator" start="13">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen023_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="12" extractor="AgeRegExtrator" start="10">95</AGE><AGE_COD end="17" extractor="AgeRegExtrator" start="13">YR</AGE_COD></AGE_SET>
<AGE end="12" extractor="AgeRegExtrator" start="10">95</AGE><AGE_COD end="17" extractor="AgeRegExtrator" start="13">YR</AGE_COD><AGE end="12" extractor="AgeNltkExtrator" start="10">95</AGE><AGE_COD end="17" extractor="AgeNltkExtrator" start="13">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen025_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
<AGE end="18" extractor="AgeRegExtrator" start="16">67</AGE><AGE_COD end="27" extractor="AgeRegExtrator" start="19">YR</AGE_COD></AGE_SET>
<AGE end="18" extractor="AgeRegExtrator" start="16">67</AGE><AGE_COD end="27" extractor="AgeRegExtrator" start="19">YR</AGE_COD><AGE end="18" extractor="AgeNltkExtrator" start="16">67</AGE><AGE_COD end="23" extractor="AgeNltkExtrator" start="19">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen025_SEX_Semifinal.xml
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<WT_COD end="" start="" />
</WT_SET>
<SEX end="" start="" />
</DEMOGRAPHICS>
<SEX end="33" extractor="GenderRegExtrator" start="27">F</SEX></DEMOGRAPHICS>
<DRUG_FILE>

<INSTANCE id="" primary="" timePeriod="">
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2 changes: 1 addition & 1 deletion Test_Suite/Eval_Env/semifinal/gen026_AGE_SET_Semifinal.xml
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<AGE_SET>
<AGE end="" start="" />
<AGE_COD end="" start="" />
</AGE_SET>
<AGE end="26" extractor="AgeNltkExtrator" start="24">60</AGE><AGE_COD end="32" extractor="AgeNltkExtrator" start="28">YR</AGE_COD></AGE_SET>
<WT_SET>
<WT end="" start="" />
<WT_COD end="" start="" />
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