Return-Path: X-Original-To: apmail-ctakes-commits-archive@www.apache.org Delivered-To: apmail-ctakes-commits-archive@www.apache.org Received: from mail.apache.org (hermes.apache.org [140.211.11.3]) by minotaur.apache.org (Postfix) with SMTP id 1A6B611EE1 for ; Fri, 18 Apr 2014 19:50:32 +0000 (UTC) Received: (qmail 86285 invoked by uid 500); 18 Apr 2014 19:50:26 -0000 Delivered-To: apmail-ctakes-commits-archive@ctakes.apache.org Received: (qmail 86189 invoked by uid 500); 18 Apr 2014 19:50:24 -0000 Mailing-List: contact commits-help@ctakes.apache.org; run by ezmlm Precedence: bulk List-Help: List-Unsubscribe: List-Post: List-Id: Reply-To: dev@ctakes.apache.org Delivered-To: mailing list commits@ctakes.apache.org Received: (qmail 85903 invoked by uid 99); 18 Apr 2014 19:50:23 -0000 Received: from athena.apache.org (HELO athena.apache.org) (140.211.11.136) by apache.org (qpsmtpd/0.29) with ESMTP; Fri, 18 Apr 2014 19:50:23 +0000 X-ASF-Spam-Status: No, hits=-2000.0 required=5.0 tests=ALL_TRUSTED X-Spam-Check-By: apache.org Received: from [140.211.11.4] (HELO eris.apache.org) (140.211.11.4) by apache.org (qpsmtpd/0.29) with ESMTP; Fri, 18 Apr 2014 19:50:20 +0000 Received: from eris.apache.org (localhost [127.0.0.1]) by eris.apache.org (Postfix) with ESMTP id D48DE2388CCD; Fri, 18 Apr 2014 19:48:52 +0000 (UTC) Content-Type: text/plain; charset="utf-8" MIME-Version: 1.0 Content-Transfer-Encoding: 7bit Subject: svn commit: r1588552 [41/42] - in /ctakes/sandbox/ctakes-web-client: ./ .settings/ WebContent/ WebContent/META-INF/ WebContent/WEB-INF/ WebContent/WEB-INF/lib/ src/ src/main/ src/main/java/ src/main/java/org/ src/main/java/org/apache/ src/main/java/org... Date: Fri, 18 Apr 2014 19:48:35 -0000 To: commits@ctakes.apache.org From: chenpei@apache.org X-Mailer: svnmailer-1.0.9 Message-Id: <20140418194852.D48DE2388CCD@eris.apache.org> X-Virus-Checked: Checked by ClamAV on apache.org Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/boundaryData.txt URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/boundaryData.txt?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/boundaryData.txt (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/boundaryData.txt Fri Apr 18 19:47:21 2014 @@ -0,0 +1,22 @@ +but +however +nevertheless +notwithstanding +though +although +if +when +how +what +which +while +since +then +i +he +she +they +we +; +. +) \ No newline at end of file Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/boundaryData.txt ------------------------------------------------------------------------------ svn:mime-type = text/plain Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/negationContradictionWords.txt URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/negationContradictionWords.txt?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/negationContradictionWords.txt (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/negationContradictionWords.txt Fri Apr 18 19:47:21 2014 @@ -0,0 +1,8 @@ +quit +quits +stop +stops +stopped +discontinue +discontinues +discontinued \ No newline at end of file Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/context/negationContradictionWords.txt ------------------------------------------------------------------------------ svn:mime-type = text/plain Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/nonsmoker.dictionary URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/nonsmoker.dictionary?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/nonsmoker.dictionary (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/nonsmoker.dictionary Fri Apr 18 19:47:21 2014 @@ -0,0 +1,4 @@ +non-smoker +nonsmoker +non-smoking +nonsmoking Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/smoker.dictionary URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/smoker.dictionary?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/smoker.dictionary (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/data/smoker.dictionary Fri Apr 18 19:47:21 2014 @@ -0,0 +1,15 @@ +smoke +smokes +smoked +smoking +smoker +tobacco +tobaccos +tob +nicotine +cigar +cigars +cig +cigs +cigarette +cigarettes \ No newline at end of file Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/types/TypeSystem.xml URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/types/TypeSystem.xml?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/types/TypeSystem.xml (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/types/TypeSystem.xml Fri Apr 18 19:47:21 2014 @@ -0,0 +1,190 @@ + + + + org.apache.ctakes.smokingstatus.types.TypeSystem + + 1.0 + + + + + + + org.apache.ctakes.smokingstatus.i2b2.type.RecordSentence + Represents a single sentence from an I2B2 record. + + uima.tcas.Annotation + + + recordID + ID of record that this sentence belongs to. + + uima.cas.String + + + classification + Smoking status classification for the given sentence. + + uima.cas.String + + + recordTextBegin + Begin offset of the sentence relative to the entire + record text. + + uima.cas.Integer + + + recordTextEnd + End offset of the sentence relative to the entire + record text. + + uima.cas.Integer + + + + + org.apache.ctakes.smokingstatus.type.SmokerNamedEntityAnnotation + + + org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation + + + + org.apache.ctakes.smokingstatus.type.NonSmokerNamedEntityAnnotation + + + org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation + + + + org.apache.ctakes.smokingstatus.type.SmokingDocumentClassification + + Represents classification related to the document + + uima.tcas.Annotation + + + classification + represents the document level classification that + RecordResolutionAnnotator assigns + + uima.cas.String + + + recordID + Represents the document record id + uima.cas.String + + + + + org.apache.ctakes.smokingstatus.type.UnknownSmokerNamedEntityAnnotation + + + org.apache.ctakes.typesystem.type.textsem.IdentifiedAnnotation + + + + org.apache.ctakes.smokingstatus.type.libsvm.NumericAttributeValue + + Corresponds to the ARFF numeric attributes. + + org.apache.ctakes.smokingstatus.type.libsvm.AttributeValue + + + + numericValue + + uima.cas.String + + + + + org.apache.ctakes.smokingstatus.type.libsvm.AttributeValue + + + uima.tcas.Annotation + + + attributeName + + uima.cas.String + + + + + org.apache.ctakes.smokingstatus.type.libsvm.NominalAttributeValue + + + org.apache.ctakes.smokingstatus.type.libsvm.AttributeValue + + + + nominalValue + + uima.cas.String + + + + + org.apache.ctakes.smokingstatus.type.libsvm.StringAttributeValue + + + org.apache.ctakes.smokingstatus.type.libsvm.AttributeValue + + + + attributeStringValue + + uima.cas.String + + + + + org.apache.ctakes.smokingstatus.type.libsvm.DateAttributeValue + + + org.apache.ctakes.smokingstatus.type.libsvm.AttributeValue + + + + dateValue + + uima.cas.String + + + + + org.apache.ctakes.smokingstatus.type.libsvm.DocumentID + + uima.tcas.Annotation + + + documentID + + uima.cas.String + + + + + Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/apache/ctakes/smokingstatus/types/TypeSystem.xml ------------------------------------------------------------------------------ svn:mime-type = text/plain Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/mayo_sections.xml URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/mayo_sections.xml?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/mayo_sections.xml (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/mayo_sections.xml Fri Apr 18 19:47:21 2014 @@ -0,0 +1,408 @@ + + + + + + + +
+ ((addendum)\s*\:) + +
+ +
+ (\[start section id=\"20100\"\]) + +
+ +
+ (\[start section id=\"20101\"\]) + +
+ +
+ (\[start section id=\"20102\"\]) + +
+ +
+ (\[start section id=\"20103\"\]) + +
+ +
+ (\[start section id=\"20104\"\]) + +
+ +
+ (\[start section id=\"20105\"\]) + +
+ +
+ (\[start section id=\"20106\"\]) + +
+ +
+ (\[start section id=\"20107\"\]) + +
+ +
+ (\[start section id=\"20108\"\]) + +
+ +
+ (\[start section id=\"20109\"\]) + +
+ +
+ (\[start section id=\"20110\"\]) + +
+ +
+ (\[start section id=\"20111\"\]) + +
+ +
+ (\[start section id=\"20112\"\]) + +
+ +
+ (\[start section id=\"20113\"\]) + +
+ +
+ (\[start section id=\"20114\"\]) + +
+ +
+ (\[start section id=\"20115\"\]) + +
+ +
+ (\[start section id=\"20116\"\]) + +
+ +
+ (\[start section id=\"20117\"\]) + +
+ +
+ (\[start section id=\"20118\"\]) + +
+ +
+ (\[start section id=\"20119\"\]) + +
+ +
+ (\[start section id=\"20120\"\]) + +
+ +
+ (\[start section id=\"20121\"\]) + +
+ +
+ (\[start section id=\"20122\"\]) + +
+ +
+ (\[start section id=\"20123\"\]) + +
+ +
+ (\[start section id=\"20124\"\]) + +
+ +
+ (\[start section id=\"20125\"\]) + +
+ +
+ (\[start section id=\"20126\"\]) + +
+ +
+ (\[start section id=\"20127\"\]) + +
+ +
+ (\[start section id=\"20128\"\]) + +
+ +
+ (\[start section id=\"20129\"\]) + +
+ +
+ (\[start section id=\"20130\"\]) + +
+ + +
+ (\[start section id=\"20132\"\]) + +
+ +
+ (\[start section id=\"20133\"\]) + +
+ +
+ (\[start section id=\"20134\"\]) + +
+ +
+ (\[start section id=\"20135\"\]) + +
+ +
+ (\[start section id=\"20136\"\]) + +
+ +
+ (\[start section id=\"20137\"\]) + +
+ +
+ (\[start section id=\"20138\"\]) + +
+ +
+ (\[start section id=\"20139\"\]) + +
+ +
+ (\[start section id=\"20140\"\]) + +
+ +
+ (\[start section id=\"20141\"\]) + +
+ +
+ (\[start section id=\"20142\"\]) + +
+ +
+ (\[start section id=\"20143\"\]) + +
+ +
+ (\[start section id=\"20144\"\]) + +
+ +
+ (\[start section id=\"20145\"\]) + +
+ +
+ (\[start section id=\"20146\"\]) + +
+ +
+ (\[start section id=\"20147\"\]) + +
+ +
+ (\[start section id=\"20148\"\]) + +
+ +
+ (\[start section id=\"20149\"\]) + +
+ +
+ (\[start section id=\"20150\"\]) + +
+ +
+ (\[start section id=\"20151\"\]) + +
+ +
+ (\[start section id=\"20152\"\]) + +
+ +
+ (\[start section id=\"20153\"\]) + +
+ +
+ (\[start section id=\"20154\"\]) + +
+ +
+ (\[start section id=\"20155\"\]) + +
+ +
+ (\[start section id=\"20156\"\]) + +
+ +
+ (\[start section id=\"20157\"\]) + +
+ +
+ (\[start section id=\"20158\"\]) + +
+ +
+ (\[start section id=\"20159\"\]) + +
+ +
+ (\[start section id=\"20160\"\]) + +
+ +
+ (\[start section id=\"20161\"\]) + +
+ +
+ (\[start section id=\"20162\"\]) + +
+ +
+ (\[start section id=\"20163\"\]) + +
+ +
+ (\[start section id=\"20164\"\]) + +
+ +
+ (\[start section id=\"20165\"\]) + +
+ +
+ (\[start section id=\"20166\"\]) + +
+ +
+ (\[start section id=\"20167\"\]) + +
+ +
+ (\[start section id=\"20168\"\]) + +
+ +
+ (\[start section id=\"20169\"\]) + +
+ +
+ (\[start section id=\"20170\"\]) + +
+ + +
+ (\[start section id=\"20172\"\]) + +
+ +
+ (\[start section id=\"20173\"\]) + +
+ +
+ (\[start section id=\"20174\"\]) + +
+ +
+ (\[start section id=\"20175\"\]) + +
+ +
+ (\[start section id=\"20176\"\]) + +
+ + +
+ (\[start section id=\"20178\"\]) + +
+ +
+ (\[start section id=\"20179\"\]) + +
+ + Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/mayo_sections.xml ------------------------------------------------------------------------------ svn:mime-type = text/plain Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.04162012.xml URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.04162012.xml?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.04162012.xml (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.04162012.xml Fri Apr 18 19:47:21 2014 @@ -0,0 +1,641 @@ + + + + + + admit + (?:admit(?:ting)?|admission) + + + be + (\s+(?:am|is|are|was|were)) + + + left-time-mods + ((?:(?:pre-)?|current|discharge|follow[\s+\-]?up|home|interim|initial|postpartum|(?:pre|post)op(?:erative)?|transfer)\s+) + + + left-descr-mods + ((?:brief(?:\s+resume\s+of)?|overall|other|additional|pertinent|relevant|(?:list\s+of\s+)?other|plan\s+for|standardized|summary\s+of|doctor(?:\s+\')?s)\s+) + + + include + (\s+(?:include[ds]?)) + + + right-time-mods + (\s+(?:(?:(?:UP)?ON|AS|AT|\@|OF|FOR|(?:PRIOR\s+TO)|(?:DURING))\s+(?:(?:(?:THE|THAT|THIS)\s+)?(?:TIME|DAY)\s+OF\s+)?(?:ADMISSION|ADMIT|DEATH|DISCHARGE|TRANSFER|COMPLICATIONS?|HOME|HOSPITALIZATION|OUTPATIENT))) + + + right-descr-mods + (\s+(?:(?:by\s+(?:problems?|(?:organ\s+)?systems?|issues?|report))|(?:\s+of\s+note))) + + + right-location-mods + (\s+in\s+the\s+emergency\s+department) + + + + + allergies1 + (?:allergies|allergy|adverse\s+drug\s+reactions?) + + + allergies2 + (allergy(\s*\/\s*reaction)?\s+profile) + + + famhistory + (?:family\s+(?:(?:medical|social)\s+)?history|fhx?|fam\s+hx) + + + sochistory + (social\s+history|social\s+hx|\bshx?|soc\s*hx|habits) + + + + medication1 + (medications?|medication\s*\(\s*s\s*\)|regimen|treatment\s+cycle) + + + medication2 + (meds?) + + + + physicalexam1 + ((physical|surgical)(\s+exam(ination)?|\s+findings)?|\bpe|\*pe|on\s+exam(ination)?|examination\s+data) + + + physicalexam2 + ((daily|patient)\s+status) + + + + + + + + time + (\d?\d\:\d\d[aApP][mM]) + + + mayodate + (([0123])?\d(Jan|Feb|Mar|Apr|May|Jun|Jul|Aug|Sep|Oct|Nov|Dec)(\d\d)?\d\d\s+) + + + mayodate2 + ([01]?\d/\d?\d/(\d\d)?\d\d\s+) + + + + + + +
+ ((addendum)\s*\:) + +
+ +
+ (?:(?:(?:admission\s+date)|(date\s+of\s+admission))\s*\:) + +
+ +
+ age\s*\: + +
+ +
+ (?:(?:|)\s*\:) + +
+ +
+ ((()|())?(appointments?(?:\(?:\s+s\s+\))?)\s*(?:\(\s+s\s+\))?\s*\:) + +
+ +
+ ((|)?(assessment)()?\s*\:) + +
+ +
+ ((()|)?((?:assessment\s*(?:and|\&|\/)\s*plan)|(?:a\s*(?:\&|\/)\s*p))()?\s*\:) + +
+ +
+ (?:attend(?:ing)?(?:\s+physician)?\s*\:) + +
+
+ ([A-Z]{2,2}\d{3,3}\/\d{4,4}\s+[A-Z]+\s+([A-Z]\.\s+)?[A-Z]+\s+\,(?:\s+(?:jr|iii)\s*\,\s*)?\s+M\.D\.)\s*\: + +
+ +
+ (?:(?:chief\s+complaint)|(?:patient\s+states\s+complaint)\s*\:) + +
+ +
+ ((clinical\s+findings?)\s*\:) + +
+ +
+ (?:((code(?:\s+status)?)\s*\:)) + +
+ +
+ (((?:additional\s+)comments)\s*\:) + +
+ +
+ (?:((complications?)\s*\:)) + +
+ +
+ (()?(condition)()?\s*\:) + +
+ +
+ ((consultants?)\s*\:) + +
+ +
+ ((consults)\s*\:) + +
+ +
+ date\s+of\s+birth\s*\: + +
+ +
+ date\s+of\s+expiration\s*\: + +
+ +
+ (((?:principal\s+discharge\s+diagnosis\s*;\s*responsible\s+after\s+study\s+for\s+causing\s+admission\s*\)\s?))\s?) + +
+
+ ((?:other\s+diagnosis\s*;\s*conditions\s*\,\s*infections\s*,\s*complications\s*,\s*affecting\s+treatment\s*\/?\s*stay)\s?) + +
+
+ (((?:cause\s+of\s+death\s+and\s+)?((?:final|principal|principle|primary|associated|secondary|additional|other)\s+)?(((?:pre-)?admission|admit(?:ting)?|discharge|(?:pre|post)?operative)\s+)?(?:problems\s+and\s+)?diagnos[ei]s(?:\s*\(\s*es\s*\))?)()?\s*\:) + +
+ +
+ ((?:(?:(?:entered|dictated)\s+by\b)|dictator)\s*\:) + +
+
+ ((?:(?:[A-Z]+\.?)\s+)*[A-Z]+\s*\,\s+M\.D\.\s+DICTATING\s+FOR\s*\:) + +
+
+ (This\s+report\s+was\s+created\s+by\s+[A-Z]) + +
+ +
+ (()?(diet)\s*\:) + +
+ +
+ (((?:discharge\s+)?activity)\s*\:) + +
+
+ (^((?:discharge\s+)?activity)\s*)(\n) + +
+ +
+ ((discharge\s+date)|(date\s+of\s+discharge))\s*\: + +
+ +
+ ((discharge\s+patient\s+on)\s*\:) + +
+ +
+ (((?:doctor\'?s\s+)?discharge\s+orders)\s*\:) + +
+ +
+ (ed\s+discharge\s+notification\s*\/\s*summary)(\s+) + +
+ +
+ (()?(disposition)()?\s*\:) + +
+ +
+ (()?((?:ed\s+course)|(?:emergency\s+department\s+course)|(?:in\s+(?:the\s+)?ed|\bed))?(\s*\:|\*+)) + +
+ +
+ evaluation\s+date\s*\: + +
+ +
+ ((events)\s*\:) + +
+ +
+ (?:(?:)\s*\:) + +
+
+ (?:(?:FAMILY\s+HISTORY\s+[a-z]+)) + +
+ +
+ ((discharged?\s+wound\s+care)\s*\:) + +
+
+ (((?:discharged?\s+follow[\s\-]?up(?:\s+care)?)|((?:standardized\s+)?discharge\s+orders\s+\(\s+medications\s+instructions\s+to\s+patient\s+\,\s+follow-up\s+care\s+\))|(disposition\s*\,\s+follow[\s+\-]up\s+and\s+instructions\s+to\s+patient)|(?:follow[\s\-]?up))\s*\:) + +
+
+ ((((?:discharged?\s+follow[\s\-]?up(?:\s+care)?))|((?:standardized\s+)?discharge\s+orders\s+\(\s+medications\s+instructions\s+to\s+patient\s+\,\s+follow-up\s+care\s+\))|(disposition\s*\,\s+follow[\s+\-]up\s+and\s+instructions\s+to\s+patient)|(?:follow[\s\-]?up))\s*)(\n) + +
+ +
+ sex\s*\: + +
+ +
+ ^(health\s+status)\s*(\n) + +
+ +
+ (()?(?:history\s+(?:of\s+(?:the\s+)?)?(?:present|physical)\s+illness|hpi)\s+and\s+(?:(?:history\s+and\s+)?reasons?\s+(?:for\s+)?(?:hospitalization|admission|admit))\s*\:) + +
+
+ ((?:(?:history\s+and\s+)?reasons?\s+(?:for\s+)?(?:hospitalization|admission|admit))\s*\:) + +
+
+ (()?(((history\s+(of\s+(the\s+)?)?)?(present|physical)\s+illness)|hpi)\s*\:) + +
+
+ (((?:history\s+(?:of\s+(?:the\s+)?)?(?:present|physical)\s+illness)|hpi)\s*)\n + +
+
+ (^()?((?:clinical\s+)?history)\s*\:) + +
+ +
+ (()?(?:hosp(?:ital)?\s+course(?:\s+and\s+treatment)?)|(?:summary\s+of\s+hospitalization)?(\s*\:|\*+|\-+)) + +
+
+ (()?(?:hosp(?:ital)?\s+course(?:\s+and\s+treatment)?)|(?:summary\s+of\s+hospitalization)?)(\s*\n) + +
+
+ (\*+(hosp(?:ital)?\s+course(?:\s+and\s+treatment)?)|(?:summary\s+of\s+hospitalization)) + +
+
+ ((hosp(?:ital)?\s+course(\s+and\s+treatment)?)|(summary\s+of\s+hospitalization)\s+([a-z]+|\()) + +
+ +
+ ((impressions?|imp)()?\s*\:) + +
+ +
+ ((?:impression\s+and\s+plan)\s*\:) + +
+ +
+ ((?:impression\s+and\s+plan)\s*)(\n) + +
+ +
+ ((()|())+(instructions?)()?\s*\:) + +
+
+ (^(instructions?)()?\s*)(\n) + +
+ +
+ ((?:()|())?((?:summary\s+of\s+)?(?:(?:diagnostic\s+)?(?:laboratory|labs?|laboratories|diagnostic|radiologic)(?:(?:\s+and\s+)|(?:\/))?\s*(?:radiologic\s+)?(?:studies|data|results|exams?(?:inations?)?|evaluation|values|findings|tests?|x\-rays?)?)|(?:tests\/procedures|(?:studies\/(?:procedures|tests))|(?:proc(?:edures)?\/tests)|tests))()?\s*\:) + +
+
+ (((?:new|discrete|(?:today\s+\'s))\s+results(?:\s+only)?)\s*\:) + +
+
+ (((?:new|discrete|(?:today\s+\'s))\s+results(?:\s+only)?)\s*)\n + +
+
+ (()\s*data()?\s*\:) + +
+
+ ((?:\-+|\*+|\_+)\s*)(data()?\s*\:) + +
+ +
+ ()?()()?(|)?\s*\: + +
+
+ ^()?()()?(|)?\s*\n + +
+
+ ()()()?(|?\s*\:) + +
+
+ ^()()?(|?\s*\:) + +
+
+ (()?()\s+on\s+transfer\s+from(\s+[A-Z]+)+(|)?\s*\:) + +
+
+ (MEDICATIONS()?)(\s+[a-z]+) + +
+ +
+ (((?:(?:past\s+)?ob\-gyn\s+history))\s*\:) + +
+
+ (((?:past\s+obstetric\s+history))\s*\:) + +
+
+ ^(((?:past\s+gyn(?:ocologic(?:al)?)?\s+history))\s*\:) + +
+ +
+ (?:objective\s*\:?\n) + +
+
+ (?:^o\s*\:\n) + +
+ +
+ (((?:((?:principal|principle|primary|special)\s+)?(?:operations?\s+(?:and|or)\s+)?procedures?(\s+(?:and|or)\s+operations?)?(?:\s+performed)?)|(operations\s*\/\s*procedures)|(?:operations?))\s*\:) + +
+
+ ((((?:associated|secondary|additional|other)\s+)(?:operations?\s+(?:and|or)\s+)?procedures?(\s+(?:and|or)\s+operations?)?)\s*\:) + +
+
+ ((procedure\s+note)\s*\:) + +
+
+ ((procedure\s+in\s+detail)\s*\:) + +
+
+ ((postpartum\s+diagnostic\s+procedures)\s*\:) + +
+
+ ((postpartum\s+therapeutic\s+procedures)\s*\:) + +
+
+ ((other\s+postpartum\s+therapies)\s*\:) + +
+
+ ^procedure:\s*$ + +
+ +
+ ((past\s+cardiac\s+history)\s*\:) + +
+ +
+ (past\s+(medical\s+)?history|medical\s+history|pmhx?|pmedhx)\s*\: + +
+
+ ((past\s+(?:medical\s+)?history|medical\s+history|pmhx?|pmedhx)\/()\s*\:) + +
+ +
+ (past\s+surgical\s+history)\s*\: + +
+ +
+ (\*+\s+(FINAL\s+)?DISCHARGE\s+ORDERS\s+\*+) + +
+ +
+ (()?()?(|)()??(?:\s*\:|\-[^a-z])) + +
+
+ (()?()?(|)()?()?)((\s+vss?)(?:\s*\:|\-[^a-z])) + +
+
+ ((?:\-+|\*+|\_+|())\s*(?:exam(?:ination)?(?:\s+data)?()\s*\:)) + +
+
+ ^(()(?:exam(?:ination)?)(?:\s*\:)) + +
+
+ ^(()?()?(|))(\n) + +
+ +
+ (?:^(()?(\bplans?)(\s*\:[^\d]|\s*\*))) + +
+
+ (?:^(()?(\bplans?))(\s*\n)) + +
+ +
+ (((?:disposition\s*(?:and|\&|\/)\s*plan)|(?:disposition\s*(?:\&|\/)plan))()?\s*\:) + +
+ +
+ (((?:to\s+do\s*\/\s*plans?))\s*\:) + +
+ +
+ (($pch)\s*\:)(\s+) + +
+ +
+ ((preoperative\s+(?:cardiac\s+)?status)\s*\:) + +
+ +
+ ((previous\s+cardiovascular\s+interventions?)\s*\:) + +
+ +
+ (?:pcp\s+name\s*\:) + +
+ +
+ (((?:(?:patient\s+)?problem\s+list)|(?:significant\s+problems)|(?:(?:(?:his|her)\s+)?problems\s+and\s+management\s+are\s+as\s+follows) )?\s*[\:;\*+]) + +
+ +
+ (?:(?:radiology(?:\s+(?:studies|data|results))?)\s*\:) + +
+ +
+ (?:reason\s+(?:for\s+)?consultation\s*\:) + +
+ +
+ ((report\s+status)\s*\:) + +
+ +
+ (?:(review\s+(?:of\s+)?systems|ros)\s*\:) + +
+
+ (?:(REVIEW\s+OF\s+SYSTEMS)(\s+[a-z]+)) + +
+ +
+ (?:service\s*\:) + +
+ +
+ (?:^()\s*\:) + +
+
+ (?:((SOCIAL\s+HISTORY|HABITS))(\s+[a-z]+)) + +
+ +
+ (?:subjective\s*\:?\n) + +
+
+ (?:^s\s*\:\n) + +
+ +
+ (((?:escription\s+document)|batch)\s*\:) + +
+ +
+ (((?:treatment\s+rendered))\s*\:?) + +
+
+ ((((?:other\s+treatments?\s*\/\s*procedures\s+\(\s+not\s+in\s+o\.r\.\s+\)))|(other\s+treatments?\s+and\s+procedures))\s*\:?) + +
+ +
+ (?:unit\s+number\s*\:) + +
+ +
+ ((return\s+to\s+work)\s*\:) + +
+ +
+ (?:\s+Exam\:) + +
+
+ (?:ORIGINAL REPORT) + +
+
+ (?:\s+\*+\s+Final\s+\*+) +
+
+ (?:Indications\:) + +
+ + + Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.04162012.xml ------------------------------------------------------------------------------ svn:mime-type = text/plain Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.06162011.xml URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.06162011.xml?rev=1588552&view=auto ============================================================================== --- ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.06162011.xml (added) +++ ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.06162011.xml Fri Apr 18 19:47:21 2014 @@ -0,0 +1,604 @@ + + + + + + admit + (?:admit(?:ting)?|admission) + + + be + (\s+(?:am|is|are|was|were)) + + + left-time-mods + ((?:(?:pre-)?|current|discharge|follow[\s+\-]?up|home|interim|initial|postpartum|(?:pre|post)op(?:erative)?|transfer)\s+) + + + left-descr-mods + ((?:brief(?:\s+resume\s+of)?|overall|other|additional|pertinent|relevant|(?:list\s+of\s+)?other|plan\s+for|standardized|summary\s+of|doctor(?:\s+\')?s)\s+) + + + include + (\s+(?:include[ds]?)) + + + right-time-mods + (\s+(?:(?:(?:UP)?ON|AS|AT|\@|OF|FOR|(?:PRIOR\s+TO)|(?:DURING))\s+(?:(?:(?:THE|THAT|THIS)\s+)?(?:TIME|DAY)\s+OF\s+)?(?:ADMISSION|ADMIT|DEATH|DISCHARGE|TRANSFER|COMPLICATIONS?|HOME|HOSPITALIZATION|OUTPATIENT))) + + + right-descr-mods + (\s+(?:(?:by\s+(?:problems?|(?:organ\s+)?systems?|issues?|report))|(?:\s+of\s+note))) + + + right-location-mods + (\s+in\s+the\s+emergency\s+department) + + + + + allergies1 + (?:allergies|allergy|adverse\s+drug\s+reactions?) + + + allergies2 + (allergy(\s*\/\s*reaction)?\s+profile) + + + famhistory + (?:family\s+(?:(?:medical|social)\s+)?history|fhx?|fam\s+hx) + + + sochistory + (social\s+history|social\s+hx|\bshx?|soc\s*hx|habits) + + + + medication1 + (medications?|medication\s*\(\s*s\s*\)|regimen|treatment\s+cycle) + + + medication2 + (meds?) + + + + physicalexam1 + ((physical|surgical)(\s+exam(ination)?|\s+findings)?|\bpe|\*pe|on\s+exam(ination)?|examination\s+data) + + + physicalexam2 + ((daily|patient)\s+status) + + + + + + + + + + +
+ ((addendum)\s*\:) + +
+ +
+ (?:(?:(?:admission\s+date)|(date\s+of\s+admission))\s*\:) + +
+ +
+ age\s*\: + +
+ +
+ (?:(?:|)\s*\:) + +
+ +
+ ((()|())?(appointments?(?:\(?:\s+s\s+\))?)\s*(?:\(\s+s\s+\))?\s*\:) + +
+ +
+ ((|)?(assessment)()?\s*\:) + +
+ +
+ ((()|)?((?:assessment\s*(?:and|\&|\/)\s*plan)|(?:a\s*(?:\&|\/)\s*p))()?\s*\:) + +
+ +
+ (?:attend(?:ing)?(?:\s+physician)?\s*\:) + +
+
+ ([A-Z]{2,2}\d{3,3}\/\d{4,4}\s+[A-Z]+\s+([A-Z]\.\s+)?[A-Z]+\s+\,(?:\s+(?:jr|iii)\s*\,\s*)?\s+M\.D\.)\s*\: + +
+ +
+ (?:(?:chief\s+complaint)|(?:patient\s+states\s+complaint)\s*\:) + +
+ +
+ ((clinical\s+findings?)\s*\:) + +
+ +
+ (?:((code(?:\s+status)?)\s*\:)) + +
+ +
+ (((?:additional\s+)comments)\s*\:) + +
+ +
+ (?:((complications?)\s*\:)) + +
+ +
+ (()?(condition)()?\s*\:) + +
+ +
+ ((consultants?)\s*\:) + +
+ +
+ ((consults)\s*\:) + +
+ +
+ date\s+of\s+birth\s*\: + +
+ +
+ date\s+of\s+expiration\s*\: + +
+ +
+ (((?:principal\s+discharge\s+diagnosis\s*;\s*responsible\s+after\s+study\s+for\s+causing\s+admission\s*\)\s?))\s?) + +
+
+ ((?:other\s+diagnosis\s*;\s*conditions\s*\,\s*infections\s*,\s*complications\s*,\s*affecting\s+treatment\s*\/?\s*stay)\s?) + +
+
+ (((?:cause\s+of\s+death\s+and\s+)?((?:final|principal|principle|primary|associated|secondary|additional|other)\s+)?(((?:pre-)?admission|admit(?:ting)?|discharge|(?:pre)?operative)\s+)?(?:problems\s+and\s+)?diagnos[ei]s(?:\s*\(\s*es\s*\))?)()?\s*\:) + +
+ +
+ ((?:(?:(?:entered|dictated)\s+by\b)|dictator)\s*\:) + +
+
+ ((?:(?:[A-Z]+\.?)\s+)*[A-Z]+\s*\,\s+M\.D\.\s+DICTATING\s+FOR\s*\:) + +
+
+ (This\s+report\s+was\s+created\s+by\s+[A-Z]) + +
+ +
+ (()?(diet)\s*\:) + +
+ +
+ (((?:discharge\s+)?activity)\s*\:) + +
+
+ (^((?:discharge\s+)?activity)\s*)(\n) + +
+ +
+ ((discharge\s+date)|(date\s+of\s+discharge))\s*\: + +
+ +
+ ((discharge\s+patient\s+on)\s*\:) + +
+ +
+ (((?:doctor\'?s\s+)?discharge\s+orders)\s*\:) + +
+ +
+ (ed\s+discharge\s+notification\s*\/\s*summary)(\s+) + +
+ +
+ (()?(disposition)()?\s*\:) + +
+ +
+ (()?((?:ed\s+course)|(?:emergency\s+department\s+course)|(?:in\s+(?:the\s+)?ed|\bed))?(\s*\:|\*+)) + +
+ +
+ evaluation\s+date\s*\: + +
+ +
+ ((events)\s*\:) + +
+ +
+ (?:(?:)\s*\:) + +
+
+ (?:(?:FAMILY\s+HISTORY\s+[a-z]+)) + +
+ +
+ ((discharged?\s+wound\s+care)\s*\:) + +
+
+ (((?:discharged?\s+follow[\s\-]?up(?:\s+care)?)|((?:standardized\s+)?discharge\s+orders\s+\(\s+medications\s+instructions\s+to\s+patient\s+\,\s+follow-up\s+care\s+\))|(disposition\s*\,\s+follow[\s+\-]up\s+and\s+instructions\s+to\s+patient)|(?:follow[\s\-]?up))\s*\:) + +
+
+ ((((?:discharged?\s+follow[\s\-]?up(?:\s+care)?))|((?:standardized\s+)?discharge\s+orders\s+\(\s+medications\s+instructions\s+to\s+patient\s+\,\s+follow-up\s+care\s+\))|(disposition\s*\,\s+follow[\s+\-]up\s+and\s+instructions\s+to\s+patient)|(?:follow[\s\-]?up))\s*)(\n) + +
+ +
+ sex\s*\: + +
+ +
+ ^(health\s+status)\s*(\n) + +
+ +
+ (()?(?:history\s+(?:of\s+(?:the\s+)?)?(?:present|physical)\s+illness|hpi)\s+and\s+(?:(?:history\s+and\s+)?reasons?\s+(?:for\s+)?(?:hospitalization|admission|admit))\s*\:) + +
+
+ ((?:(?:history\s+and\s+)?reasons?\s+(?:for\s+)?(?:hospitalization|admission|admit))\s*\:) + +
+
+ (()?(((history\s+(of\s+(the\s+)?)?)?(present|physical)\s+illness)|hpi)\s*\:) + +
+
+ (((?:history\s+(?:of\s+(?:the\s+)?)?(?:present|physical)\s+illness)|hpi)\s*)\n + +
+
+ (^()?((?:clinical\s+)?history)\s*\:) + +
+ +
+ (()?(?:hosp(?:ital)?\s+course(?:\s+and\s+treatment)?)|(?:summary\s+of\s+hospitalization)?(\s*\:|\*+|\-+)) + +
+
+ (()?(?:hosp(?:ital)?\s+course(?:\s+and\s+treatment)?)|(?:summary\s+of\s+hospitalization)?)(\s*\n) + +
+
+ (\*+(hosp(?:ital)?\s+course(?:\s+and\s+treatment)?)|(?:summary\s+of\s+hospitalization)) + +
+
+ ((hosp(?:ital)?\s+course(\s+and\s+treatment)?)|(summary\s+of\s+hospitalization)\s+([a-z]+|\()) + +
+ +
+ ((impressions?|imp)()?\s*\:) + +
+ +
+ ((?:impression\s+and\s+plan)\s*\:) + +
+ +
+ ((?:impression\s+and\s+plan)\s*)(\n) + +
+ +
+ ((()|())+(instructions?)()?\s*\:) + +
+
+ (^(instructions?)()?\s*)(\n) + +
+ +
+ ((?:()|())?((?:summary\s+of\s+)?(?:(?:diagnostic\s+)?(?:laboratory|labs?|laboratories|diagnostic|radiologic)(?:(?:\s+and\s+)|(?:\/))?\s*(?:radiologic\s+)?(?:studies|data|results|exams?(?:inations?)?|evaluation|values|findings|tests?|x\-rays?)?)|(?:tests\/procedures|(?:studies\/(?:procedures|tests))|(?:proc(?:edures)?\/tests)|tests))()?\s*\:) + +
+
+ (((?:new|discrete|(?:today\s+\'s))\s+results(?:\s+only)?)\s*\:) + +
+
+ (((?:new|discrete|(?:today\s+\'s))\s+results(?:\s+only)?)\s*)\n + +
+
+ (()\s*data()?\s*\:) + +
+
+ ((?:\-+|\*+|\_+)\s*)(data()?\s*\:) + +
+ +
+ ()?()()?(|)?\s*\: + +
+
+ ^()?()()?(|)?\s*\n + +
+
+ ()()()?(|?\s*\:) + +
+
+ ^()()?(|?\s*\:) + +
+
+ (()?()\s+on\s+transfer\s+from(\s+[A-Z]+)+(|)?\s*\:) + +
+
+ (MEDICATIONS()?)(\s+[a-z]+) + +
+ +
+ (((?:(?:past\s+)?ob\-gyn\s+history))\s*\:) + +
+
+ (((?:past\s+obstetric\s+history))\s*\:) + +
+
+ ^(((?:past\s+gyn(?:ocologic(?:al)?)?\s+history))\s*\:) + +
+ +
+ (?:objective\s*\:?\n) + +
+
+ (?:^o\s*\:\n) + +
+ +
+ (((?:((?:principal|principle|primary|special)\s+)?(?:operations?\s+(?:and|or)\s+)?procedures?(\s+(?:and|or)\s+operations?)?(?:\s+performed)?)|(operations\s*\/\s*procedures)|(?:operations?))\s*\:) + +
+
+ ((((?:associated|secondary|additional|other)\s+)(?:operations?\s+(?:and|or)\s+)?procedures?(\s+(?:and|or)\s+operations?)?)\s*\:) + +
+
+ ((procedure\s+note)\s*\:) + +
+
+ ((postpartum\s+diagnostic\s+procedures)\s*\:) + +
+
+ ((postpartum\s+therapeutic\s+procedures)\s*\:) + +
+
+ ((other\s+postpartum\s+therapies)\s*\:) + +
+ +
+ ((past\s+cardiac\s+history)\s*\:) + +
+ +
+ (past\s+(medical\s+)?history|medical\s+history|pmhx?|pmedhx)\s*\: + +
+
+ ((past\s+(?:medical\s+)?history|medical\s+history|pmhx?|pmedhx)\/()\s*\:) + +
+ +
+ (past\s+surgical\s+history)\s*\: + +
+ +
+ (\*+\s+(FINAL\s+)?DISCHARGE\s+ORDERS\s+\*+) + +
+ +
+ (()?()?(|)()??(?:\s*\:|\-[^a-z])) + +
+
+ (()?()?(|)()?()?)((\s+vss?)(?:\s*\:|\-[^a-z])) + +
+
+ ((?:\-+|\*+|\_+|())\s*(?:exam(?:ination)?(?:\s+data)?()\s*\:)) + +
+
+ ^(()(?:exam(?:ination)?)(?:\s*\:)) + +
+
+ ^(()?()?(|))(\n) + +
+ +
+ (?:^(()?(\bplans?)(\s*\:[^\d]|\s*\*))) + +
+
+ (?:^(()?(\bplans?))(\s*\n)) + +
+ +
+ (((?:disposition\s*(?:and|\&|\/)\s*plan)|(?:disposition\s*(?:\&|\/)plan))()?\s*\:) + +
+ +
+ (((?:to\s+do\s*\/\s*plans?))\s*\:) + +
+ +
+ (($pch)\s*\:)(\s+) + +
+ +
+ ((preoperative\s+(?:cardiac\s+)?status)\s*\:) + +
+ +
+ ((previous\s+cardiovascular\s+interventions?)\s*\:) + +
+ +
+ (?:pcp\s+name\s*\:) + +
+ +
+ (((?:(?:patient\s+)?problem\s+list)|(?:significant\s+problems)|(?:(?:(?:his|her)\s+)?problems\s+and\s+management\s+are\s+as\s+follows) )?\s*[\:;\*+]) + +
+ +
+ (?:(?:radiology(?:\s+(?:studies|data|results))?)\s*\:) + +
+ +
+ (?:reason\s+(?:for\s+)?consultation\s*\:) + +
+ +
+ ((report\s+status)\s*\:) + +
+ +
+ (?:(review\s+(?:of\s+)?systems|ros)\s*\:) + +
+
+ (?:(REVIEW\s+OF\s+SYSTEMS)(\s+[a-z]+)) + +
+ +
+ (?:service\s*\:) + +
+ +
+ (?:^()\s*\:) + +
+
+ (?:((SOCIAL\s+HISTORY|HABITS))(\s+[a-z]+)) + +
+ +
+ (?:subjective\s*\:?\n) + +
+
+ (?:^s\s*\:\n) + +
+ +
+ (((?:escription\s+document)|batch)\s*\:) + +
+ +
+ (((?:treatment\s+rendered))\s*\:?) + +
+
+ ((((?:other\s+treatments?\s*\/\s*procedures\s+\(\s+not\s+in\s+o\.r\.\s+\)))|(other\s+treatments?\s+and\s+procedures))\s*\:?) + +
+ +
+ (?:unit\s+number\s*\:) + +
+ +
+ ((return\s+to\s+work)\s*\:) + +
+ + + Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.06162011.xml ------------------------------------------------------------------------------ svn:mime-type = text/plain Added: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.out.xml URL: http://svn.apache.org/viewvc/ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.out.xml?rev=1588552&view=auto ============================================================================== (empty) Propchange: ctakes/sandbox/ctakes-web-client/src/main/resources/org/mitre/medfacts/uima/section_regex.out.xml ------------------------------------------------------------------------------ svn:mime-type = text/plain