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From gandhira...@apache.org
Subject svn commit: r1845321 [1/42] - in /ctakes/trunk/ctakes-web-rest: ./ src/ src/main/ src/main/java/ src/main/java/org/ src/main/java/org/apache/ src/main/java/org/apache/ctakes/ src/main/java/org/apache/ctakes/rest/ src/main/java/org/apache/ctakes/rest/fi...
Date Wed, 31 Oct 2018 11:04:01 GMT
Author: gandhirajan
Date: Wed Oct 31 11:03:43 2018
New Revision: 1845321

URL: http://svn.apache.org/viewvc?rev=1845321&view=rev
Log:
REST implementation in cTAKES. CTAKES-473: Creating a REST/SOAP and/or CLI interface

Added:
    ctakes/trunk/ctakes-web-rest/
    ctakes/trunk/ctakes-web-rest/README
    ctakes/trunk/ctakes-web-rest/pom.xml
    ctakes/trunk/ctakes-web-rest/src/
    ctakes/trunk/ctakes-web-rest/src/main/
    ctakes/trunk/ctakes-web-rest/src/main/java/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/filter/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/filter/CORSFilter.java
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/CtakesRestController.java
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/
    ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/XMLParser.java
    ctakes/trunk/ctakes-web-rest/src/main/resources/
    ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/
    ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/org.uimafit/
    ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/org.uimafit/types.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/all_cues.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words/conditional.psv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words/hypothetical.psv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words/negation_cue_class.psv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words/not_patient_cue_list.psv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/cue_words/speculation.psv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/cue.model   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/featureFile11b
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/generic.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/history.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/i2b2.model   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/polarity.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/pos.model   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/scope.model   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/sharpPolarityFrags.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/sharpUncertaintyFrags.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/models/uncertainty.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/allergy.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/association.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/avoid.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/cause.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/certainty.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/change_state.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/continue.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/copular.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/decline.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/def_determiner.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/deny.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/disappear.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/evidence.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/exception.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/experience.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/fail.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/history.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/hypothetical_cue_list.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/instance.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/stop.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/semantic_classes/uncertainty.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/zoner/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/zoner/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/zoner/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/chunker/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/chunker/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/chunker/models/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/chunker/models/chunker-model.zip   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/parser/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/parser/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/parser/models/sharpacq-1.5.bin   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/parser/models/sharpacq-3.1.bin   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/parser/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/constituency/parser/types/LabeledTree.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/cc/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/cc/jdbc/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/cc/jdbc/TestBinding.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/eclipse/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/eclipse/spellingdictionaryforsourcecode.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/log4j.properties
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sections/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sections/ccda_sections.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/mayo/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/mayo/sdmed.mod
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/sample_sd_included.mod
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/sd-med-model.zip   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/sentdetect/sdmed.mod
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/template.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/tokenizer/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/tokenizer/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/tokenizer/hyphenated.README.mayo
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/tokenizer/hyphenated.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/core/tokenizer/hyphenated_sample.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/anaphoricity.mayo.rbf.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/anaphoricity.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/anaphoricity.rbf.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/coref.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/dem.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/demngramids.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/frags.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.fdt   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.fdx   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.fnm
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.frq
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.nrm
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.prx
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.tii   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.tis   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.tvd   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.tvf   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/_3.tvx   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/segments.gen   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/index_med_5k/segments_1   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/ne.mayo.rbf.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/ne.rbf.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/ngramids.mayo.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/ngramids.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/pron.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/pronngramids.mayo.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/pronngramids.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/pronoun.mayo.rbf.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/pronoun.rbf.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/models/stop.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/BinaryRelation.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/BooleanLabeledFS.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/CollectionRelation.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/CoreferenceRelation.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/DiscoveryTechnique.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/Pair.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/PredicateArgRelation.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/Properties.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/Relation.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/RelationArgument.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/coreference/types/VecInst.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/dependency/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/dependency/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/dependency/mayo-en-dep-1.3.0.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/lemmatizer/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/lemmatizer/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/lemmatizer/dictionary-1.3.1.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/pred/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/pred/mayo-en-pred-1.3.0.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/role/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/role/mayo-en-role-1.3.0.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/srl/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/srl/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dependency/parser/models/srl/mayo-en-srl-1.3.0.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/ctakessnorx/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/ctakessnorx/ctakessnorx.properties
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/ctakessnorx/ctakessnorx.script   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/customDictionary.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/sno_rx_16ab.lck   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/sno_rx_16ab.log
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/sno_rx_16ab.properties
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/dictionary/lookup/fast/sno_rx_16ab/sno_rx_16ab.script
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/lookup/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/lookup/LookupDesc_DrugNER.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/tokenizer/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/tokenizer/hyphen_freq.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/drugner/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/2005_lemma.voc
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/2005_norm.voc
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/HSqlDb/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/HSqlDb/lvg2008.backup
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/HSqlDb/lvg2008.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/HSqlDb/lvg2008.properties
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/HSqlDb/lvg2008.script
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/ReadMe.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/diacriticMap.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/ligatureMap.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/nonStripMap.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/symbolMap.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/synonymMap.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/Unicode/unicodeMap.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/config/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/config/lvg.properties
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/config/lvg.properties.TEMPLATE
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/config/lvg.properties.hsql
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/misc/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/misc/conjunctionWord.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/misc/nonInfoWords.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/misc/removeS.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/misc/stopWords.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/misc/symbolSynonyms.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/dm.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/exceptionD.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/exceptionI.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/im.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/plural.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/ruleD.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/ruleI.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/trieD.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/trieI.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/lvg/data/rules/verbinfl.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/necontexts/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/necontexts/desc/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/necontexts/desc/NegationAnnotator.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/ExamTitleWords.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/ExamsForPAD.csv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/LookupDesc_PAD.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/StopWords.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/pad_anatomical_sites.csv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lookup/radiology/pad_disorders.csv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/2005_lemma.voc
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/2005_norm.voc
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/sample.prp
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/system/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/system/$db$types.tbl   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/system/sample$db$Cols.tbl   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/system/sample$db$Indexes.tbl   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/IDB/system/sample$db$Tables.tbl   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/ReadMe.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/config/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/config/lvg.properties
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/config/lvg.properties.windows
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/conjunctionWord.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/diacritics.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/ligatures.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/nonInfoWords.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/stopWords.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/misc/symbolSynonyms.data
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/dm.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/exceptionD.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/exceptionI.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/im.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/plural.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/ruleD.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/ruleI.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/trieD.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/trieI.data   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/lvg/data/rules/verbinfl.rul
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/negation/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/negation/boundaryData.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/sentenceDetector/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/sentenceDetector/sdmed.mod
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/tokenizer/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/tokenizer/hyphen_freq.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/padtermspotter/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/postagger/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/postagger/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/postagger/models/README
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/postagger/models/clearnlp/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/postagger/models/clearnlp/mayo-en-pos-1.3.0.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/postagger/models/mayo-pos.zip   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/cda/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/cda/NotesIIST_RTF.DTD
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/tokenizer/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/tokenizer/hyphenated.README.mayo
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/tokenizer/hyphenated.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/preprocessor/tokenizer/hyphenated_sample.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/frags_nolex_args.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/degree_of/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/degree_of/model.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/location_of/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/location_of/model.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/modifier_extractor/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/relationextractor/models/modifier_extractor/model.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/classifier/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/classifier/libsvm_model_onWholeSet
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/data/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/data/sentenceLevelMetaKeywords.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/lookup/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/lookup/LookupDesc_sideEffect.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/lookup/LookupDesc_sideEffectUMLS.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/lookup/additionalNE_dictionary.csv
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/lookup/sideEffect_dictionary.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/sideeffect/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/ArtificialSentenceAnnotator.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/KuRuleBasedClassifierAnnotator.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/PcsClassifierAnnotator_libsvm.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/ProductionPostSentenceAggregate_step1.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/ProductionPostSentenceAggregate_step2_libsvm.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/SentenceAdjuster.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/analysis_engine/SmokingStatusDictionaryLookupAnnotator.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/KU/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/KU/keywords.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/KU/unknown_words.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/PCS/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/PCS/keywords_PCS.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/PCS/pcs_libsvm-2.91.model
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/PCS/stopwords_PCS.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/SmokingStatusLookupConfig.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/context/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/context/boundaryData.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/context/negationContradictionWords.txt
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/nonsmoker.dictionary
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/data/smoker.dictionary
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/types/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/smokingstatus/types/TypeSystem.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/eventevent/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/eventevent/20150630/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/eventevent/20150630/model.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/eventtime/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/eventtime/20150629/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/temporal/ae/eventtime/20150629/model.jar   (with props)
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/mayo_sections.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/section_regex.04162012.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/section_regex.06162011.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/section_regex.out.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/section_regex.xml
    ctakes/trunk/ctakes-web-rest/src/main/resources/org/mitre/medfacts/uima/section_regex.xml.bak2
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/AdvancedTokenizerPipeline.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/AttributeCleartkSubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/ChunkerSubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/CorefSubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/Default.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/DictionarySubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/Full.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/TemporalSubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/TsAttributeCleartkSubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/TsChunkerSubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/TsDefaultTokenizerPipeline.piper
    ctakes/trunk/ctakes-web-rest/src/main/resources/pipers/TsDictionarySubPipe.piper
    ctakes/trunk/ctakes-web-rest/src/main/webapp/
    ctakes/trunk/ctakes-web-rest/src/main/webapp/META-INF/
    ctakes/trunk/ctakes-web-rest/src/main/webapp/META-INF/MANIFEST.MF
    ctakes/trunk/ctakes-web-rest/src/main/webapp/WEB-INF/
    ctakes/trunk/ctakes-web-rest/src/main/webapp/WEB-INF/ctakes-rest-service-servlet.xml
    ctakes/trunk/ctakes-web-rest/src/main/webapp/WEB-INF/web.xml
    ctakes/trunk/ctakes-web-rest/src/main/webapp/index.jsp
    ctakes/trunk/ctakes-web-rest/src/main/webapp/js/
    ctakes/trunk/ctakes-web-rest/src/main/webapp/js/app.js
    ctakes/trunk/ctakes-web-rest/src/main/webapp/js/jquery.js

Added: ctakes/trunk/ctakes-web-rest/README
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/README?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/README (added)
+++ ctakes/trunk/ctakes-web-rest/README Wed Oct 31 11:03:43 2018
@@ -0,0 +1,27 @@
+This is the README for the REST module in the cTakes project.
+
+This module performs natural language processing of input payload using REST API
+endpoint and extracts out clicnical information in JSON format.
+
+Installation:
+
+1) Build all the cTAKES modules as this module contains a number of references 
+to other cTAKES modules.
+
+2) Modify 'src\main\resources\org\apache\ctakes\dictionary\lookup\fast\customDictionary.xml'
+to refer to the respective database where dictionary is loaded or use UMLS database.
+
+3) Build ctakes-web-rest module and deploy ctakes-web-rest.war available 
+under 'target' folder in Apache Tomcat.
+
+4) Access the following URL to peform text analysis using cTAKES web application:
+
+	http://<host-name>:<port>/ctakes-web-rest/index.jsp
+
+5) Access the following REST API endpoint to perform text analysis using default pipeline:
+
+	http://<host-name>:<port>/ctakes-web-rest/service/analyze?pipeline=Default
+
+6) Access the following REST API endpoint to perform text analysis using full pipeline:
+
+	http://<host-name>:<port>/ctakes-web-rest/service/analyze?pipeline=Full
\ No newline at end of file

Added: ctakes/trunk/ctakes-web-rest/pom.xml
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/pom.xml?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/pom.xml (added)
+++ ctakes/trunk/ctakes-web-rest/pom.xml Wed Oct 31 11:03:43 2018
@@ -0,0 +1,293 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
+	xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
+	<modelVersion>4.0.0</modelVersion>
+	<groupId>org.apache.ctakes</groupId>
+	<artifactId>ctakes-web-rest</artifactId>
+	<version>4.0.1</version>
+	<name>ctakes-web-rest</name>
+	<packaging>war</packaging>
+	<description></description>
+	<properties>
+		<ctakes.version>4.0.1-SNAPSHOT</ctakes.version>
+		<springframework.version>4.3.12.RELEASE</springframework.version>
+		<jackson.version>2.9.7</jackson.version>
+		<maven.compiler.source>1.8</maven.compiler.source>
+		<maven.compiler.target>1.8</maven.compiler.target>
+		<project.build.sourceEncoding>UTF-8</project.build.sourceEncoding>
+		<jettyVersion>9.2.6.v20141205</jettyVersion>
+	</properties>
+	<dependencies>
+		<!-- cTAKES module versions-->
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-type-system</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-utils</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-core</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-core-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-dictionary-lookup</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-dictionary-lookup-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+				<groupId>org.apache.ctakes</groupId>
+				<artifactId>ctakes-dictionary-lookup-fast</artifactId>
+				<version>${ctakes.version}</version>
+			</dependency>
+			<dependency>
+				<groupId>org.apache.ctakes</groupId>
+				<artifactId>ctakes-dictionary-lookup-fast-res</artifactId>
+				<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-preprocessor</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-pos-tagger</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-pos-tagger-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-chunker</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-chunker-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-lvg</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-lvg-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-context-tokenizer</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-clinical-pipeline</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-clinical-pipeline-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-ne-contexts</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-ne-contexts-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-assertion</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-assertion-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-assertion-zoner</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>			
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-assertion-zoner-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-constituency-parser</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-constituency-parser-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-coreference</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-coreference-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-drug-ner</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-drug-ner-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-side-effect</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-side-effect-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-smoking-status</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-smoking-status-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-dependency-parser</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-dependency-parser-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-relation-extractor</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-relation-extractor-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-temporal</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.ctakes</groupId>
+			<artifactId>ctakes-temporal-res</artifactId>
+			<version>${ctakes.version}</version>
+		</dependency>		
+		<dependency>
+			<groupId>org.apache.uima</groupId>
+			<artifactId>uimaj-core</artifactId>
+			<version>2.4.0</version>
+		</dependency>
+		<dependency>
+			<groupId>org.apache.uima</groupId>
+			<artifactId>uimafit-core</artifactId>
+			<version>2.1.0</version>
+		</dependency>
+		<dependency>
+			<groupId>mysql</groupId>
+			<artifactId>mysql-connector-java</artifactId>
+			<version>6.0.6</version>
+		</dependency>
+
+		<dependency>
+			<groupId>javax.servlet</groupId>
+			<artifactId>servlet-api</artifactId>
+			<version>2.5</version>
+			<scope>provided</scope>
+		</dependency>
+		<dependency>
+			<groupId>org.springframework</groupId>
+			<artifactId>spring-core</artifactId>
+			<version>${springframework.version}</version>
+		</dependency>
+
+		<dependency>
+			<groupId>org.springframework</groupId>
+			<artifactId>spring-web</artifactId>
+			<version>${springframework.version}</version>
+		</dependency>
+
+		<dependency>
+			<groupId>org.springframework</groupId>
+			<artifactId>spring-webmvc</artifactId>
+			<version>${springframework.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.springframework</groupId>
+			<artifactId>spring-context</artifactId>
+			<version>${springframework.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>org.springframework</groupId>
+			<artifactId>spring-beans</artifactId>
+			<version>${springframework.version}</version>
+		</dependency>
+		<dependency>
+			<groupId>com.fasterxml.jackson.core</groupId>
+			<artifactId>jackson-databind</artifactId>
+			<version>${jackson.version}</version>
+		</dependency>
+
+
+	</dependencies>
+	<build>
+		<finalName>ctakes-web-rest</finalName>
+		<plugins>
+			<plugin>
+				<artifactId>maven-compiler-plugin</artifactId>
+				<version>2.4</version>
+				<configuration>
+					<source>1.8</source>
+					<target>1.8</target>
+					<compilerArgument>-Xlint</compilerArgument>
+				</configuration>
+			</plugin>
+		</plugins>
+	</build>
+</project>

Added: ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/filter/CORSFilter.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/filter/CORSFilter.java?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/filter/CORSFilter.java (added)
+++ ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/filter/CORSFilter.java Wed Oct 31 11:03:43 2018
@@ -0,0 +1,26 @@
+package org.apache.ctakes.rest.filter;
+import java.io.IOException;
+
+import javax.servlet.FilterChain;
+import javax.servlet.ServletException;
+import javax.servlet.http.HttpServletRequest;
+import javax.servlet.http.HttpServletResponse;
+import org.apache.commons.logging.Log;
+import org.apache.commons.logging.LogFactory;
+import org.springframework.web.filter.OncePerRequestFilter;
+
+public class CORSFilter extends OncePerRequestFilter {
+    private static final Log log = LogFactory.getLog(CORSFilter.class);
+
+    @Override
+    protected void doFilterInternal(HttpServletRequest request, HttpServletResponse response, FilterChain filterChain) throws ServletException, IOException {
+        log.debug("Invoking CORS filter");
+        response.addHeader("Access-Control-Allow-Origin", "*");
+        if (request.getHeader("Access-Control-Request-Method") != null && "OPTIONS".equals(request.getMethod())) {
+            response.addHeader("Access-Control-Allow-Methods", "GET, POST, PUT, DELETE");
+            response.addHeader("Access-Control-Allow-Headers", "Content-Type");
+        }
+        filterChain.doFilter(request, response);
+        log.debug("Exiting CORS filter");
+    }
+}
\ No newline at end of file

Added: ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/CtakesRestController.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/CtakesRestController.java?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/CtakesRestController.java (added)
+++ ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/service/CtakesRestController.java Wed Oct 31 11:03:43 2018
@@ -0,0 +1,126 @@
+/**
+ * Licensed to the Apache Software Foundation (ASF) under one
+ * or more contributor license agreements.  See the NOTICE file
+ * distributed with this work for additional information
+ * regarding copyright ownership.  The ASF licenses this file
+ * to you 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
+ * <p>
+ * http://www.apache.org/licenses/LICENSE-2.0
+ * <p>
+ * 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.
+ */
+package org.apache.ctakes.rest.service;
+
+import org.apache.commons.io.output.ByteArrayOutputStream;
+import org.apache.ctakes.core.pipeline.PipelineBuilder;
+import org.apache.ctakes.core.pipeline.PiperFileReader;
+import org.apache.ctakes.rest.util.XMLParser;
+import org.apache.log4j.Logger;
+import org.apache.uima.UIMAFramework;
+import org.apache.uima.analysis_engine.AnalysisEngine;
+import org.apache.uima.analysis_engine.AnalysisEngineDescription;
+import org.apache.uima.cas.impl.XmiCasSerializer;
+import org.apache.uima.jcas.JCas;
+import org.apache.uima.util.JCasPool;
+import org.springframework.web.bind.annotation.*;
+
+import javax.annotation.PostConstruct;
+import javax.servlet.ServletException;
+import java.io.ByteArrayInputStream;
+import java.nio.file.Files;
+import java.nio.file.Paths;
+import java.util.HashMap;
+import java.util.List;
+import java.util.Map;
+import java.util.Optional;
+
+
+/*
+ * Rest web service that takes clinical text
+ * as input and produces extracted text as output
+ */
+@RestController
+public class CtakesRestController {
+
+    private static final Logger LOGGER = Logger.getLogger(CtakesRestController.class);
+    private static final String DEFAULT_PIPER_FILE_PATH = "pipers/Default.piper";
+    private static final String FULL_PIPER_FILE_PATH = "pipers/Full.piper";
+    private static final String DEFAULT_PIPELINE = "Default";
+    private static final String FULL_PIPELINE = "Full";
+    private static final Map<String, PipelineRunner> _pipelineRunners = new HashMap<>();
+
+    @PostConstruct
+    public void init() throws ServletException {
+        LOGGER.info("Initializing analysis engines and jcas pools");
+        _pipelineRunners.put(DEFAULT_PIPELINE, new PipelineRunner(DEFAULT_PIPER_FILE_PATH));
+        _pipelineRunners.put(FULL_PIPELINE, new PipelineRunner(FULL_PIPER_FILE_PATH));
+    }
+
+    @RequestMapping(value = "/analyze", method = RequestMethod.POST)
+    @ResponseBody
+    public Map<String, Map<String, List<String>>> getAnalyzedJSON(@RequestBody String analysisText,
+                                                                  @RequestParam("pipeline") Optional<String> pipelineOptParam)
+            throws Exception {
+        String pipeline = DEFAULT_PIPELINE;
+        if(pipelineOptParam.isPresent()) {
+            if(FULL_PIPELINE.equalsIgnoreCase(pipelineOptParam.get())) {
+                pipeline = FULL_PIPELINE;
+            }
+        }
+        final PipelineRunner runner = _pipelineRunners.get(pipeline);
+        return runner.process(analysisText);
+
+    }
+
+    static private Map<String, Map<String, List<String>>> formatResults(JCas jcas) throws Exception {
+        ByteArrayOutputStream output = new ByteArrayOutputStream();
+        XmiCasSerializer.serialize(jcas.getCas(), output);
+        String outputStr = output.toString();
+        // For debugging: Files.write(Paths.get("Result.xml"), outputStr.getBytes());
+        XMLParser parser = new XMLParser();
+        return parser.parse(new ByteArrayInputStream(outputStr.getBytes()));
+    }
+
+    static private final class PipelineRunner {
+        private final AnalysisEngine _engine;
+        private final JCasPool _pool;
+
+        private PipelineRunner(final String piperPath) throws ServletException {
+            try {
+                PiperFileReader reader = new PiperFileReader(piperPath);
+                PipelineBuilder builder = reader.getBuilder();
+                AnalysisEngineDescription pipeline = builder.getAnalysisEngineDesc();
+                _engine = UIMAFramework.produceAnalysisEngine(pipeline);
+                _pool = new JCasPool(10, _engine);
+            } catch (Exception e) {
+                LOGGER.error("Error loading pipers");
+                throw new ServletException(e);
+            }
+        }
+
+        public Map<String, Map<String, List<String>>> process(final String text) throws ServletException {
+            JCas jcas = null;
+            Map<String, Map<String, List<String>>> resultMap = null;
+            if (text != null) {
+                try {
+                    jcas = _pool.getJCas(-1);
+                    jcas.setDocumentText(text);
+                    _engine.process(jcas);
+                    resultMap = formatResults(jcas);
+                    _pool.releaseJCas(jcas);
+                } catch (Exception e) {
+                    LOGGER.error("Error processing Analysis engine");
+                    throw new ServletException(e);
+                }
+            }
+            return resultMap;
+        }
+    }
+}

Added: ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/XMLParser.java
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/XMLParser.java?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/XMLParser.java (added)
+++ ctakes/trunk/ctakes-web-rest/src/main/java/org/apache/ctakes/rest/util/XMLParser.java Wed Oct 31 11:03:43 2018
@@ -0,0 +1,237 @@
+package org.apache.ctakes.rest.util;
+
+import javax.xml.stream.XMLInputFactory;
+import javax.xml.stream.XMLStreamReader;
+import java.io.FileInputStream;
+import java.io.IOException;
+import java.io.InputStream;
+import java.util.*;
+
+
+public class XMLParser {
+
+    Map<String, String> polarityMap = new HashMap<>();
+
+    public Map<String, Map<String, List<String>>> parse(InputStream in) throws Exception {
+        XMLInputFactory inputFactory = XMLInputFactory.newInstance();
+        XMLStreamReader streamReader = inputFactory.createXMLStreamReader(in);
+        String analysisText = null;
+        Map<String, String> ontologyArrayMap = new HashMap<>();
+        Map<String, List> umlsConceptMap = new HashMap<>();
+        List<String> disorderList = new ArrayList<>();
+        List<String> findingsList = new ArrayList<>();
+        List<String> procedureList = new ArrayList<>();
+        List<String> timeList = new ArrayList<>();
+        List<String> fractionStrengthList = new ArrayList<>();
+        List<String> drugChangeStatusList = new ArrayList<>();
+        List<String> strengthUnitList = new ArrayList<>();
+        List<String> strengthList = new ArrayList<>();
+        List<String> routeList = new ArrayList<>();
+        List<String> frequencyUnitList = new ArrayList<>();
+        List<String> measurementList = new ArrayList<>();
+        List<String> dateList = new ArrayList<>();
+        List<String> anatomicalList = new ArrayList<>();
+        List<String> medicalList = new ArrayList<>();
+
+        Map<String, String> disorderPosMap = new HashMap<>();
+        Map<String, String> findingsPosMap = new HashMap<>();
+        Map<String, String> procedurePosMap = new HashMap<>();
+        Map<String, String> timePosMap = new HashMap<>();
+        Map<String, String> fractionStrengthPosMap = new HashMap<>();
+        Map<String, String> drugChangeStatusPosMap = new HashMap<>();
+        Map<String, String> strengthUnitPosMap = new HashMap<>();
+        Map<String, String> strengthPosMap = new HashMap<>();
+        Map<String, String> routePosMap = new HashMap<>();
+        Map<String, String> datePosMap = new HashMap<>();
+        Map<String, String> frequencyPosMap = new HashMap<>();
+        Map<String, String> measurementPosMap = new HashMap<>();
+        Map<String, String> anatomicalPosMap = new HashMap<>();
+        Map<String, String> medicalPosMap = new HashMap<>();
+
+
+        Map<String, List<String>> disorderDetailMap = new HashMap<>();
+        Map<String, List<String>> findingsDetailMap = new HashMap<>();
+        Map<String, List<String>> procedureDetailMap = new HashMap<>();
+        Map<String, List<String>> timeDetailMap = new HashMap<>();
+        Map<String, List<String>> fractionStrengthDetailMap = new HashMap<>();
+        Map<String, List<String>> drugChangeStatusDetailMap = new HashMap<>();
+        Map<String, List<String>> strengthUnitDetaillMap = new HashMap<>();
+        Map<String, List<String>> strengthDetailMap = new HashMap<>();
+        Map<String, List<String>> routeDetailMap = new HashMap<>();
+        Map<String, List<String>> frequencyUnitDetailMap = new HashMap<>();
+        Map<String, List<String>> measurementDetailMap = new HashMap<>();
+        Map<String, List<String>> dateDetailMap = new HashMap<>();
+        Map<String, List<String>> anatomicalDetailMap = new HashMap<>();
+        Map<String, List<String>> medicalDetailMap = new HashMap<>();
+
+        while (streamReader.hasNext()) {
+            if (streamReader.isStartElement()) {
+                if (analysisText == null) {
+                    if (streamReader.getLocalName().equalsIgnoreCase("Sofa")) {
+                        analysisText = streamReader.getAttributeValue(null,"sofaString");
+                    }
+                }
+                try {
+                    disorderList = extractData(streamReader, analysisText, SemanticNames.DiseaseDisorderMention.name(), disorderPosMap, disorderList, ontologyArrayMap);
+                    findingsList = extractData(streamReader, analysisText, SemanticNames.SignSymptomMention.name(), findingsPosMap, findingsList, ontologyArrayMap);
+                    procedureList = extractData(streamReader, analysisText, SemanticNames.ProcedureMention.name(), procedurePosMap, procedureList, ontologyArrayMap);
+                    timeList = extractData(streamReader, analysisText, SemanticNames.TimeMention.name(), timePosMap, timeList, ontologyArrayMap);
+                    fractionStrengthList = extractData(streamReader, analysisText, SemanticNames.FractionStrengthAnnotation.name(), fractionStrengthPosMap, fractionStrengthList, ontologyArrayMap);
+                    drugChangeStatusList = extractData(streamReader, analysisText, SemanticNames.DrugChangeStatusAnnotation.name(), drugChangeStatusPosMap, drugChangeStatusList, ontologyArrayMap);
+                    strengthUnitList = extractData(streamReader, analysisText, SemanticNames.StrengthUnitAnnotation.name(), strengthUnitPosMap, strengthUnitList, ontologyArrayMap);
+                    strengthList = extractData(streamReader, analysisText, SemanticNames.StrengthAnnotation.name(), strengthPosMap, strengthList, ontologyArrayMap);
+                    routeList = extractData(streamReader, analysisText, SemanticNames.RouteAnnotation.name(), routePosMap, routeList, ontologyArrayMap);
+                    frequencyUnitList = extractData(streamReader, analysisText, SemanticNames.FrequencyUnitAnnotation.name(), frequencyPosMap, frequencyUnitList, ontologyArrayMap);
+                    dateList = extractData(streamReader, analysisText, SemanticNames.DateAnnotation.name(), datePosMap, dateList, ontologyArrayMap);
+                    measurementList = extractData(streamReader, analysisText, SemanticNames.MeasurementAnnotation.name(), measurementPosMap, measurementList, ontologyArrayMap);
+                    anatomicalList = extractData(streamReader, analysisText, SemanticNames.AnatomicalSiteMention.name(), anatomicalPosMap, anatomicalList, ontologyArrayMap);
+                    medicalList = extractData(streamReader, analysisText, SemanticNames.MedicationMention.name(), medicalPosMap, medicalList, ontologyArrayMap);
+                } catch (Exception e) {
+                    e.printStackTrace();
+                }
+                if (streamReader.getLocalName().equalsIgnoreCase("UmlsConcept")) {
+                    String id = streamReader.getAttributeValue(null, "id");
+                    List<String> umlsDetailList = new ArrayList<>();
+                    umlsDetailList.add("codingScheme: " + streamReader.getAttributeValue(null, "codingScheme"));
+                    umlsDetailList.add("code: " + streamReader.getAttributeValue(null, "code"));
+                    umlsDetailList.add("cui: " + streamReader.getAttributeValue(null, "cui"));
+                    umlsDetailList.add("tui: " + streamReader.getAttributeValue(null, "tui"));
+                    umlsConceptMap.put(id, umlsDetailList);
+                }
+            }
+            streamReader.next();
+        }
+
+        disorderDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, disorderDetailMap, disorderList, disorderPosMap);
+        findingsDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, findingsDetailMap, findingsList, findingsPosMap);
+        procedureDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, procedureDetailMap, procedureList, procedurePosMap);
+        timeDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, timeDetailMap, timeList, timePosMap);
+        fractionStrengthDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, fractionStrengthDetailMap, fractionStrengthList, fractionStrengthPosMap);
+        drugChangeStatusDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, drugChangeStatusDetailMap, drugChangeStatusList, drugChangeStatusPosMap);
+        strengthUnitDetaillMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, strengthUnitDetaillMap, strengthUnitList, strengthUnitPosMap);
+        strengthDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, strengthDetailMap, strengthList, strengthPosMap);
+        routeDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, routeDetailMap, routeList, routePosMap);
+        frequencyUnitDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, frequencyUnitDetailMap, frequencyUnitList, frequencyPosMap);
+        measurementDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, measurementDetailMap, measurementList, measurementPosMap);
+        dateDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, dateDetailMap, dateList, datePosMap);
+        anatomicalDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, anatomicalDetailMap, anatomicalList, anatomicalPosMap);
+        medicalDetailMap = processUMLSDetail(ontologyArrayMap, umlsConceptMap, medicalDetailMap, medicalList, medicalPosMap);
+
+        Map<String, Map<String, List<String>>> responseMap = new HashMap<>();
+        responseMap.put(SemanticNames.DiseaseDisorderMention.name(), disorderDetailMap);
+        responseMap.put(SemanticNames.SignSymptomMention.name(),findingsDetailMap);
+        responseMap.put(SemanticNames.ProcedureMention.name(),procedureDetailMap);
+        responseMap.put(SemanticNames.AnatomicalSiteMention.name(),anatomicalDetailMap);
+        responseMap.put(SemanticNames.MedicationMention.name(),medicalDetailMap);
+        responseMap.put(SemanticNames.TimeMention.name(),timeDetailMap);
+        responseMap.put(SemanticNames.FractionStrengthAnnotation.name(),fractionStrengthDetailMap);
+        responseMap.put(SemanticNames.DrugChangeStatusAnnotation.name(),drugChangeStatusDetailMap);
+        responseMap.put(SemanticNames.StrengthUnitAnnotation.name(),strengthUnitDetaillMap);
+        responseMap.put(SemanticNames.StrengthAnnotation.name(),strengthDetailMap);
+        responseMap.put(SemanticNames.RouteAnnotation.name(),routeDetailMap);
+        responseMap.put(SemanticNames.FrequencyUnitAnnotation.name(),frequencyUnitDetailMap);
+        responseMap.put(SemanticNames.DateAnnotation.name(),dateDetailMap);
+        responseMap.put(SemanticNames.MeasurementAnnotation.name(),measurementDetailMap);
+        return responseMap;
+    }
+
+    private Map<String, List<String>> processUMLSDetail(Map<String, String> ontologyArrayMap, Map<String, List> umlsConceptMap, Map<String, List<String>> semanticDetailsMap,
+                                                List<String> sematicList, Map<String, String> semanticPosMap) {
+        for (String semanticName : sematicList) {
+            List<String> semanticDetailsList = semanticDetailsMap.get(semanticName);
+            String[] posDetail = semanticPosMap.get(semanticName).split(",");
+            if(semanticDetailsList == null) {
+                semanticDetailsList = new ArrayList<>();
+            }
+            semanticDetailsList.add("start: " + posDetail[0]);
+            semanticDetailsList.add("end: " + posDetail[1]);
+            if(polarityMap.get(semanticName) != null) {
+                semanticDetailsList.add("polarity: " + polarityMap.get(semanticName));
+            }
+            String ontologyArrayRawString = ontologyArrayMap.get(semanticName);
+            if(ontologyArrayRawString != null) {
+                String[] ontologyStringArr = ontologyArrayRawString.split("\\s");
+                for (String ontologyString : ontologyStringArr) {
+                    List umlsDetList = umlsConceptMap.get(ontologyString);
+                    if (umlsDetList != null && umlsDetList.size() > 0) {
+                        if (!umlsDetList.contains(semanticDetailsList)) {
+                            semanticDetailsList.add(umlsDetList.toString());
+                        }
+                    }
+                    semanticDetailsMap.put(semanticName, semanticDetailsList);
+                }
+            }
+            else {
+                semanticDetailsMap.put(semanticName, semanticDetailsList);
+            }
+        }
+        return semanticDetailsMap;
+    }
+
+    private List<String> extractData(XMLStreamReader streamReader, String analysisText, String mentionName, Map<String, String> semanticPosMap,
+                                     List<String> semanticList, Map<String, String> ontologyArrayMap) {
+        if (streamReader.getLocalName().equalsIgnoreCase(mentionName)) {
+            Integer start = Integer.parseInt(streamReader.getAttributeValue(null, "begin"));
+            Integer end = Integer.parseInt(streamReader.getAttributeValue(null, "end"));
+            String ontologyConceptArr = streamReader.getAttributeValue(null, "ontologyConceptArr");
+            String polarity = streamReader.getAttributeValue(null, "polarity");
+            String chunk = analysisText.substring(start, end);
+            String chunkUpper = chunk.toUpperCase();
+            boolean isFound = false;
+            if (!semanticList.contains(chunkUpper)) {
+                String chunkArray[] = chunk.split("\\s");
+                for (String chunkedString : chunkArray) {
+                    final String trimmedChunkString = chunkedString.trim();
+                    if (!trimmedChunkString.equals("")) {
+                        Object[] matchedSemanticArray = semanticList.stream().filter(str -> str.trim().contains(trimmedChunkString.toUpperCase())).toArray();
+                        if (matchedSemanticArray.length > 0) {
+                            for (Object semanticObj : matchedSemanticArray) {
+                                String semanticTerm = semanticObj.toString();
+                                String pos = semanticPosMap.get(semanticTerm);
+                                if (pos != null) {
+                                    String posArr[] = pos.split(",");
+                                    int startPos = Integer.parseInt(posArr[0]);
+                                    int endPos = Integer.parseInt(posArr[1]);
+                                    if (start >= startPos && end <= endPos) {
+                                        isFound = true;
+                                        break;
+                                    }
+                                    if (start <= startPos && end == endPos) {
+                                        semanticList.remove(semanticTerm);
+                                        semanticList.add(chunkUpper);
+                                        ontologyArrayMap.put(chunkUpper, ontologyConceptArr);
+                                        semanticPosMap.remove(semanticTerm);
+                                        semanticPosMap.put(chunkUpper, start + "," + end);
+                                        isFound = true;
+                                        if(polarity!=null) {
+                                            polarityMap.put(chunkUpper,polarity);
+                                        }
+                                        break;
+                                    }
+                                }
+                            }
+                        }
+                    }
+                }
+                if (!isFound) {
+                    semanticList.add(chunkUpper);
+                    if(polarity!=null) {
+                        polarityMap.put(chunkUpper,polarity);
+                    }
+                    ontologyArrayMap.put(chunkUpper, ontologyConceptArr);
+                    //System.out.println("mentionName -> " + mentionName + " part -> " + chunkUpper + " -- " + start + "," + end);
+                    semanticPosMap.put(chunkUpper, start + "," + end);
+                }
+
+            }
+        }
+        return semanticList;
+    }
+
+    public enum SemanticNames {
+        DiseaseDisorderMention, SignSymptomMention, ProcedureMention, TimeMention,
+        AnatomicalSiteMention, FractionStrengthAnnotation, DrugChangeStatusAnnotation,
+        StrengthUnitAnnotation, StrengthAnnotation, RouteAnnotation, FrequencyUnitAnnotation, DateAnnotation,
+        MeasurementAnnotation, MedicationMention
+    }
+}

Added: ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/org.uimafit/types.txt
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/org.uimafit/types.txt?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/org.uimafit/types.txt (added)
+++ ctakes/trunk/ctakes-web-rest/src/main/resources/META-INF/org.uimafit/types.txt Wed Oct 31 11:03:43 2018
@@ -0,0 +1 @@
+classpath*:org/apache/ctakes/assertion/zoner/types/TypeSystem.xml

Added: ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/all_cues.txt
URL: http://svn.apache.org/viewvc/ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/all_cues.txt?rev=1845321&view=auto
==============================================================================
--- ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/all_cues.txt (added)
+++ ctakes/trunk/ctakes-web-rest/src/main/resources/org/apache/ctakes/assertion/all_cues.txt Wed Oct 31 11:03:43 2018
@@ -0,0 +1,454 @@
+conditional	on exertion
+conditional	on exercise
+conditional	with exertion
+conditional	with exercise
+conditional	exertional
+conditional	intolerance
+conditional	after
+conditional	post
+conditional	while
+conditional	when
+conditional	planned
+conditional	in the event
+conditional	if
+conditional	awaiting
+conditional	continued
+conditional	proceed
+conditional	plan
+conditionalavoid	scheduled
+hypothetical	avoiding
+hypothetical	avoidance
+hypothetical	if
+hypothetical	unless
+hypothetical	monitor for
+hypothetical	monitors for
+hypothetical	monitored for
+hypothetical	monitoring for
+hypothetical	prn
+hypothetical	PRN
+hypothetical	p.r.n.
+hypothetical	P.R.N.
+hypothetical	as needed for
+hypothetical	as necessary for 
+hypothetical	call for
+hypothetical	call with
+hypothetical	return for
+hypothetical	return with
+hypothetical	return
+hypothetical	watch for
+hypothetical	report new
+hypothetical	potential
+hypothetical	potentially
+hypothetical	instructions for
+hypothetical	prevent
+hypothetical	preventing
+hypothetical	prevention
+hypothetical	risk
+hypothetical	risk stratification for
+hypothetical	future
+hypothetical	immunization against
+hypothetical	should
+hypothetical	should he experience
+hypothetical	should she experience
+hypothetical	should the patient experience
+hypothetical	prophylaxis
+hypothetical	prophylactic
+negation	not
+negation	n't
+negation	&apos;t
+negation	didn't
+negation	doesn't
+negation	don't
+negation	isn't
+negation	aren't
+negation	wasn't
+negation	weren't
+negation	hadn't
+negation	hasn't
+negation	haven't
+negation	won't
+negation	wouldn't
+negation	never
+negation	no longer
+negation	in no way
+negation	neither
+negation	nor
+negation	none
+negation	nobody
+negation	no one
+negation	nowhere
+negation	no place
+negation	no
+negation	without
+negation	absence of
+negation	free of
+negation	clear of
+negation	clear to
+negation	negative for
+negation	neg for
+negation	negative for
+negation	unremarkable for
+negation	unassociated with
+negation	( - )
+negation	non
+negation	lack of
+negation	lack
+negation	lacked
+negation	lacks
+negation	lacking
+negation	impossible
+negation	cannot
+negation	can't
+negation	couldn't
+negation	inability
+negation	unable
+negation	forget
+negation	forgets
+negation	forgetting
+negation	forgot
+negation	forgotten
+negation	fail
+negation	failed
+negation	failing
+negation	fails
+negation	failure
+negation	free of
+negation	free
+negation	absent
+negation	immune to
+negation	denied
+negation	denies
+negation	deny
+negation	denying
+negation	avoided
+negation	avoids
+negation	prevented
+negation	prevents
+negation	prophylaxis against
+negation	shouldn't
+negation	mustn't
+negation	unwilling
+negation	unwillingness
+negation	reluctance
+negation	reluctant
+negation	decline
+negation	declined
+negation	declines
+negation	declining
+negation	refusal
+negation	refuse
+negation	refused
+negation	refuses
+negation	refusing
+negation	excluded
+negation	excludes
+negation	ruled out
+negation	rules out
+negation	discontinuance
+negation	discontinuation
+negation	discontinue
+negation	discontinued
+negation	discontinues
+negation	discontinuing
+negation	quit
+negation	quits
+negation	quitting
+negation	stop
+negation	stopped
+negation	stopping
+negation	stops
+negation	used to
+negation	held
+negation	hold
+negation	holding
+negation	holds
+negation	on hold
+negation	off
+negation	elimination
+negation	eliminate
+negation	eliminated
+negation	eliminates
+negation	eliminating
+negation	eradication
+negation	eradicate
+negation	eradicated
+negation	eradicates
+negation	eradicating
+negation	removal
+negation	remove
+negation	removed
+negation	removes
+negation	removing
+negation	purge
+negation	purged
+negation	purges
+negation	purging
+negation	wipe out
+negation	wiped out
+negation	wipes out
+negation	wiping out
+negation	rid
+negation	interrupt
+negation	interruption
+negation	interruptions
+negation	resolved
+negation	resolution
+negation	disappeared
+negation	disappearance
+negation	rather than
+negation	instead of
+negation	except
+negation	exception
+negation	besides
+negation	aside from
+negation	other than
+not_patient	mother
+not_patient	father
+not_patient	parent
+not_patient	parents
+not_patient	sister
+not_patient	sisters
+not_patient	brother
+not_patient	brothers
+not_patient	sibling
+not_patient	siblings
+not_patient	grandfather
+not_patient	grandfathers
+not_patient	grandmother
+not_patient	grandmothers
+not_patient	cousin
+not_patient	cousins
+not_patient	aunt
+not_patient	aunts
+not_patient	uncle
+not_patient	uncles
+not_patient	stepfather
+not_patient	stepmother
+not_patient	cousin
+not_patient	cousins
+not_patient	niece
+not_patient	nieces
+not_patient	nephew
+not_patient	nephews
+not_patient	wife
+not_patient	husband
+not_patient	spouse
+not_patient	partner
+not_patient	partners
+not_patient	roommate
+not_patient	roommates
+not_patient	classmate
+not_patient	classmates
+not_patient	friend
+not_patient	friends
+not_patient	acquaintance
+not_patient	acquaintances
+not_patient	individual
+not_patient	individuals
+not_patient	person
+not_patient	persons
+not_patient	relative
+not_patient	relatives
+not_patient	family
+not_patient	family member
+not_patient	family members
+not_patient	familiy history of 
+not_patient	fhx of
+not_patient	fam hx of
+not_patient	family hx
+not_patient	twin
+not_patient	familial
+speculation	uncertain
+speculation	unsure
+speculation	improbable
+speculation	unlikely
+speculation	doubtful
+speculation	doubt
+speculation	doubted
+speculation	doubting
+speculation	doubts
+speculation	possible
+speculation	poss
+speculation	hypothetical
+speculation	questionable
+speculation	consistent with
+speculation	compatible with
+speculation	equivocal for
+speculation	suspicious for
+speculation	potential
+speculation	concerned for
+speculation	concerning for
+speculation	worrisome for
+speculation	unclear
+speculation	unknown
+speculation	possibly
+speculation	potentially
+speculation	maybe
+speculation	perhaps
+speculation	possibilities
+speculation	possibility
+speculation	evidence for
+speculation	evidence of
+speculation	speculation
+speculation	consideration
+speculation	?
+speculation	ddx
+speculation	differential diagnosis
+speculation	differential diagnoses
+speculation	believe
+speculation	believed
+speculation	believes
+speculation	believing
+speculation	consider
+speculation	considered
+speculation	considering
+speculation	considers
+speculation	t/c
+speculation	entertain
+speculation	entertained
+speculation	entertaining
+speculation	entertains
+speculation	question
+speculation	questioned
+speculation	questioning
+speculation	questions
+speculation	speculate
+speculation	speculated
+speculation	speculates
+speculation	speculating
+speculation	can
+speculation	could
+speculation	may
+speculation	might
+speculation	whether or not
+speculation	whether
+speculation	either
+speculation	or
+speculation	if
+speculation	unless
+	probable	prob_adj
+speculation	likely
+speculation	presumed
+speculation	presumptive
+speculation	apparent
+speculation	preliminary
+speculation	putative
+speculation	indicative of
+speculation	suggestive of
+speculation	typical of
+speculation	probably
+speculation	likely
+speculation	presumably
+speculation	apparently
+speculation	reportedly
+speculation	seemingly
+speculation	supposedly
+speculation	must
+speculation	appear
+speculation	appeared
+speculation	appearing
+speculation	appears
+speculation	seem
+speculation	seemed
+speculation	seems
+speculation	seeming
+speculation	estimate
+speculation	estimated
+speculation	estimates
+speculation	estimating
+speculation	feel that
+speculation	feeling that
+speculation	feels that
+speculation	felt that
+speculation	hypothesize
+speculation	hypothesized
+speculation	hypothesizes
+speculation	hypothesizing
+speculation	implied
+speculation	implies
+speculation	imply
+speculation	implying
+speculation	indicate
+speculation	indicated
+speculation	indicates
+speculation	indicating
+speculation	postulate
+speculation	postulated
+speculation	postulating
+speculation	postulates
+speculation	propose
+speculation	proposed
+speculation	proposes
+speculation	proposing
+speculation	suggest
+speculation	suggested
+speculation	suggesting
+speculation	suggests
+speculation	support
+speculation	supported
+speculation	supporting
+speculation	supports
+speculation	suppose
+speculation	supposed
+speculation	supposes
+speculation	supposing
+speculation	suspect
+speculation	suspected
+speculation	suspecting
+speculation	suspects
+speculation	think
+speculation	thinks
+speculation	thinking
+speculation	thought
+speculation	concern for
+speculation	concerns for
+speculation	implication
+speculation	implications
+speculation	impression of
+speculation	indication of
+speculation	indications of
+speculation	suspicion
+speculation	suspicions
+speculation	suggestion
+speculation	suggestions
+speculation	hypothesis
+speculation	hypotheses
+speculation	probability
+speculation	probabilities
+speculation	sign of
+speculation	signs of
+speculation	v.s.
+speculation	versus
+speculation	vs.
+speculation	vs
+speculation	r / o
+speculation	ro
+speculation	r/o
+speculation	rule out
+speculation	ruling out
+speculation	rule - out
+speculation	ruling - out
+speculation	test for
+speculation	tested for
+speculation	testing for
+speculation	tests for
+speculation	check for
+speculation	checked for
+speculation	checking for
+speculation	checks for
+speculation	evaluate for
+speculation	eval for
+speculation	evaluated for
+speculation	evaluates for
+speculation	evaluating for
+speculation	evaluation for
+speculation	assess for
+speculation	assessment for
+speculation	monitor for
+speculation	monitored for
+speculation	monitoring for
+speculation	monitors for
+speculation	seriologies for
+speculation	seriology for
+speculation	work up for
+speculation	workup for



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