diff --git a/jcore-banner-ae-biomedical-english/component.meta b/jcore-banner-ae-biomedical-english/component.meta index 605baa7..b892cc8 100644 --- a/jcore-banner-ae-biomedical-english/component.meta +++ b/jcore-banner-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-banner-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe BANNER AE for Biomedical English" } diff --git a/jcore-banner-ae-biomedical-english/pom.xml b/jcore-banner-ae-biomedical-english/pom.xml index effb056..d471450 100644 --- a/jcore-banner-ae-biomedical-english/pom.xml +++ b/jcore-banner-ae-biomedical-english/pom.xml @@ -9,7 +9,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 @@ -20,7 +20,7 @@ de.julielab jcore-banner-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-banner-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/banner/desc/jcore-banner-ae-biomedical-english.xml b/jcore-banner-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/banner/desc/jcore-banner-ae-biomedical-english.xml index 8d8ebd6..ca67ca2 100644 --- a/jcore-banner-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/banner/desc/jcore-banner-ae-biomedical-english.xml +++ b/jcore-banner-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/banner/desc/jcore-banner-ae-biomedical-english.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,8 +6,8 @@ JCoRe BANNER AE for Biomedical English This component uses the BANNER named entity recognizer with a model trained on the complete (train and test) dataset of the BioCreative II gene mention challenge. - 1.0 - + 2.4.0 + ConfigFile @@ -46,13 +46,13 @@ - - - + + + - - + + @@ -61,7 +61,7 @@ de.julielab.jcore.types.Gene - + @@ -70,5 +70,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-biosem-ae-bionlp-st09/component.meta b/jcore-biosem-ae-bionlp-st09/component.meta index 1e98512..d869666 100644 --- a/jcore-biosem-ae-bionlp-st09/component.meta +++ b/jcore-biosem-ae-bionlp-st09/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-biosem-ae-bionlp-st09", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe BioSem AE, BioNLP SharedTask 2009" } diff --git a/jcore-biosem-ae-bionlp-st09/pom.xml b/jcore-biosem-ae-bionlp-st09/pom.xml index b8f6721..a377304 100644 --- a/jcore-biosem-ae-bionlp-st09/pom.xml +++ b/jcore-biosem-ae-bionlp-st09/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-biosem-ae-bionlp-st09 @@ -17,7 +17,7 @@ de.julielab jcore-biosem-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-biosem-ae-bionlp-st09/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st09.xml b/jcore-biosem-ae-bionlp-st09/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st09.xml index b559317..6f3d9b2 100644 --- a/jcore-biosem-ae-bionlp-st09/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st09.xml +++ b/jcore-biosem-ae-bionlp-st09/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st09.xml @@ -1,21 +1,21 @@ - + org.apache.uima.java true de.julielab.jcore.ae.biosem.BioSemEventAnnotator JCoRe BioSEM Event Annotator - - 2.1.0 - - - + + 2.4.0 + + + - + - - + + @@ -26,7 +26,7 @@ de.julielab.jcore.types.EventMention de.julielab.jcore.types.ArgumentMention - + @@ -47,7 +47,7 @@ TrainedDB - + file:de/julielab/jcore/ae/biosem/conf/biosemannotator-st09.properties @@ -61,4 +61,4 @@ - + \ No newline at end of file diff --git a/jcore-biosem-ae-bionlp-st11/component.meta b/jcore-biosem-ae-bionlp-st11/component.meta index 5fa3c20..1fd0fc6 100644 --- a/jcore-biosem-ae-bionlp-st11/component.meta +++ b/jcore-biosem-ae-bionlp-st11/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-biosem-ae-bionlp-st11", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe BioSem AE, BioNLP SharedTask 2011" } diff --git a/jcore-biosem-ae-bionlp-st11/pom.xml b/jcore-biosem-ae-bionlp-st11/pom.xml index 7bc52aa..0ae069d 100644 --- a/jcore-biosem-ae-bionlp-st11/pom.xml +++ b/jcore-biosem-ae-bionlp-st11/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-biosem-ae-bionlp-st11 @@ -17,7 +17,7 @@ de.julielab jcore-biosem-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-biosem-ae-bionlp-st11/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st11.xml b/jcore-biosem-ae-bionlp-st11/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st11.xml index 59fe344..e3aea3f 100644 --- a/jcore-biosem-ae-bionlp-st11/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st11.xml +++ b/jcore-biosem-ae-bionlp-st11/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st11.xml @@ -1,21 +1,21 @@ - + org.apache.uima.java true de.julielab.jcore.ae.biosem.BioSemEventAnnotator JCoRe BioSEM Event Annotator - - 2.1.0 - - - + + 2.4.0 + + + - + - - + + @@ -26,7 +26,7 @@ de.julielab.jcore.types.EventMention de.julielab.jcore.types.ArgumentMention - + @@ -47,7 +47,7 @@ TrainedDB - + file:de/julielab/jcore/ae/biosem/conf/biosemannotator-st11.properties @@ -61,4 +61,4 @@ - + \ No newline at end of file diff --git a/jcore-biosem-ae-bionlp-st13/component.meta b/jcore-biosem-ae-bionlp-st13/component.meta index 83b6d17..713f6d3 100644 --- a/jcore-biosem-ae-bionlp-st13/component.meta +++ b/jcore-biosem-ae-bionlp-st13/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-biosem-ae-bionlp-st13", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe BioSem AE, BioNLP SharedTask 2013" } diff --git a/jcore-biosem-ae-bionlp-st13/pom.xml b/jcore-biosem-ae-bionlp-st13/pom.xml index 00e0a35..49cd6f9 100644 --- a/jcore-biosem-ae-bionlp-st13/pom.xml +++ b/jcore-biosem-ae-bionlp-st13/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-biosem-ae-bionlp-st13 @@ -21,7 +21,7 @@ de.julielab jcore-biosem-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-biosem-ae-bionlp-st13/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st13.xml b/jcore-biosem-ae-bionlp-st13/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st13.xml index 312282c..d0525b3 100644 --- a/jcore-biosem-ae-bionlp-st13/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st13.xml +++ b/jcore-biosem-ae-bionlp-st13/src/main/resources/de/julielab/jcore/ae/biosem/desc/jcore-biosem-ae-bionlp-st13.xml @@ -1,21 +1,21 @@ - + org.apache.uima.java true de.julielab.jcore.ae.biosem.BioSemEventAnnotator JCoRe BioSEM Event Annotator - - 2.1.0 - - - + + 2.4.0 + + + - + - - + + @@ -26,7 +26,7 @@ de.julielab.jcore.types.EventMention de.julielab.jcore.types.ArgumentMention - + @@ -47,7 +47,7 @@ TrainedDB - + file:de/julielab/jcore/ae/biosem/conf/biosemannotator-st13.properties @@ -61,4 +61,4 @@ - + \ No newline at end of file diff --git a/jcore-jnet-ae-biomedical-english/component.meta b/jcore-jnet-ae-biomedical-english/component.meta index a64f9b5..b8576e7 100644 --- a/jcore-jnet-ae-biomedical-english/component.meta +++ b/jcore-jnet-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-jnet-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe JNET AE, Biomedical English" } diff --git a/jcore-jnet-ae-biomedical-english/pom.xml b/jcore-jnet-ae-biomedical-english/pom.xml index d07eac5..88ad7f8 100644 --- a/jcore-jnet-ae-biomedical-english/pom.xml +++ b/jcore-jnet-ae-biomedical-english/pom.xml @@ -6,14 +6,14 @@ This project employs the jcore-jnet-ae (Named Entity Tagger) with a model trained on the PennBioIE corpus. jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 de.julielab de.julielab jcore-jnet-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-jnet-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jnet/desc/jcore-jnet-ae-biomedical-english.xml b/jcore-jnet-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jnet/desc/jcore-jnet-ae-biomedical-english.xml index ee5ee49..9059bd4 100644 --- a/jcore-jnet-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jnet/desc/jcore-jnet-ae-biomedical-english.xml +++ b/jcore-jnet-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jnet/desc/jcore-jnet-ae-biomedical-english.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.jnet.uima.EntityAnnotator JCoRe JNET AE Biomedical English - - 2.1.0 + + 2.4.0 JULIE Lab Jena, Germany @@ -113,11 +113,11 @@ Available modes are: - + - - + + @@ -127,7 +127,7 @@ Available modes are: de.julielab.jcore.types.EntityMention - + @@ -136,5 +136,5 @@ Available modes are: false - - + + \ No newline at end of file diff --git a/jcore-jpos-ae-medical-german/component.meta b/jcore-jpos-ae-medical-german/component.meta index 093bebb..f0ce80e 100644 --- a/jcore-jpos-ae-medical-german/component.meta +++ b/jcore-jpos-ae-medical-german/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-jpos-ae-medical-german", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe JPOS AE, Medical German" } diff --git a/jcore-jpos-ae-medical-german/pom.xml b/jcore-jpos-ae-medical-german/pom.xml index 7822059..14d1092 100644 --- a/jcore-jpos-ae-medical-german/pom.xml +++ b/jcore-jpos-ae-medical-german/pom.xml @@ -3,7 +3,7 @@ xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"> jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 de.julielab 4.0.0 @@ -12,7 +12,7 @@ de.julielab jcore-jpos-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-jpos-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jpos/desc/jcore-jpos-ae-medical-german.xml b/jcore-jpos-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jpos/desc/jcore-jpos-ae-medical-german.xml index b5aeed2..053062f 100644 --- a/jcore-jpos-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jpos/desc/jcore-jpos-ae-medical-german.xml +++ b/jcore-jpos-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jpos/desc/jcore-jpos-ae-medical-german.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.jpos.postagger.POSAnnotator JCoRe JPOS AE Medical German - - 2.1.0 + + 2.4.0 JULIE Lab @@ -38,11 +38,11 @@ - + - - + + @@ -52,7 +52,7 @@ de.julielab.jcore.types.Token - + @@ -61,5 +61,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-jsbd-ae-biomedical-english/component.meta b/jcore-jsbd-ae-biomedical-english/component.meta index 5d9f79e..95a3d09 100644 --- a/jcore-jsbd-ae-biomedical-english/component.meta +++ b/jcore-jsbd-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-jsbd-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Sentence Annotator, Biomedical English" } diff --git a/jcore-jsbd-ae-biomedical-english/pom.xml b/jcore-jsbd-ae-biomedical-english/pom.xml index a6df8a1..18ff15c 100644 --- a/jcore-jsbd-ae-biomedical-english/pom.xml +++ b/jcore-jsbd-ae-biomedical-english/pom.xml @@ -10,7 +10,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 @@ -78,7 +78,7 @@ de.julielab jcore-jsbd-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback @@ -88,7 +88,7 @@ de.julielab jcore-pmc-reader - 2.4.0-SNAPSHOT + 2.4.0 test diff --git a/jcore-jsbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-biomedical-english.xml b/jcore-jsbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-biomedical-english.xml index 7c668a0..a21f48c 100644 --- a/jcore-jsbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-biomedical-english.xml +++ b/jcore-jsbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-biomedical-english.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,7 +6,7 @@ JCoRe Sentence Annotator This is the UIMA Wrapper for the JULIE Sentence Boundary Detector. - 2.0.0 + 2.4.0 JULIE Lab Jena, Germany @@ -78,19 +78,19 @@ - + - - + + - + de.julielab.jcore.types.Sentence - + @@ -99,6 +99,5 @@ false - - - + + \ No newline at end of file diff --git a/jcore-jsbd-ae-medical-german/component.meta b/jcore-jsbd-ae-medical-german/component.meta index 730024d..708b3d4 100644 --- a/jcore-jsbd-ae-medical-german/component.meta +++ b/jcore-jsbd-ae-medical-german/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-jsbd-ae-medical-german", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Sentence Annotator, Medical German" } diff --git a/jcore-jsbd-ae-medical-german/pom.xml b/jcore-jsbd-ae-medical-german/pom.xml index 8f6f281..a15967d 100644 --- a/jcore-jsbd-ae-medical-german/pom.xml +++ b/jcore-jsbd-ae-medical-german/pom.xml @@ -10,7 +10,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 @@ -78,7 +78,7 @@ de.julielab jcore-jsbd-ae - 2.4.0-SNAPSHOT + 2.4.0 https://github.com/JULIELab/jcore-projects/tree/master/jcore-jsbd-ae-medical-german diff --git a/jcore-jsbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-medical-german.xml b/jcore-jsbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-medical-german.xml index 9f0e718..cdc76f4 100644 --- a/jcore-jsbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-medical-german.xml +++ b/jcore-jsbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jsbd/desc/jcore-jsbd-ae-medical-german.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,7 +6,7 @@ JCoRe Sentence Annotator This is the UIMA Wrapper for the JULIE Sentence Boundary Detector. - 2.1.0 + 2.4.0 JULIE Lab Jena, Germany @@ -78,18 +78,18 @@ - + - - + + - + de.julielab.jcore.types.Sentence - + @@ -98,5 +98,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-jtbd-ae-biomedical-english/component.meta b/jcore-jtbd-ae-biomedical-english/component.meta index ce86dab..c2e2054 100644 --- a/jcore-jtbd-ae-biomedical-english/component.meta +++ b/jcore-jtbd-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-jtbd-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Token Annotator, Biomedical English" } diff --git a/jcore-jtbd-ae-biomedical-english/pom.xml b/jcore-jtbd-ae-biomedical-english/pom.xml index ee641fc..bd5a565 100644 --- a/jcore-jtbd-ae-biomedical-english/pom.xml +++ b/jcore-jtbd-ae-biomedical-english/pom.xml @@ -9,7 +9,7 @@ de.julielab - 2.4.0-SNAPSHOT + 2.4.0 jcore-projects @@ -79,7 +79,7 @@ de.julielab jcore-jtbd-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-jtbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-biomedical-english.xml b/jcore-jtbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-biomedical-english.xml index 8dea947..5f617af 100644 --- a/jcore-jtbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-biomedical-english.xml +++ b/jcore-jtbd-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-biomedical-english.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,7 +6,7 @@ JCoRe Token Annotator for English in the Biomedical Domain - 2.1.0 + 2.4.0 JULIE Lab Jena, Germany @@ -34,7 +34,7 @@ - + @@ -45,7 +45,7 @@ de.julielab.jcore.types.Token - + @@ -54,4 +54,4 @@ false - + \ No newline at end of file diff --git a/jcore-jtbd-ae-medical-german/component.meta b/jcore-jtbd-ae-medical-german/component.meta index a3658aa..c859a80 100644 --- a/jcore-jtbd-ae-medical-german/component.meta +++ b/jcore-jtbd-ae-medical-german/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-jtbd-ae-medical-german", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Token Annotator, Medical German" } diff --git a/jcore-jtbd-ae-medical-german/pom.xml b/jcore-jtbd-ae-medical-german/pom.xml index a34e2ff..882d109 100644 --- a/jcore-jtbd-ae-medical-german/pom.xml +++ b/jcore-jtbd-ae-medical-german/pom.xml @@ -9,7 +9,7 @@ de.julielab - 2.4.0-SNAPSHOT + 2.4.0 jcore-projects @@ -79,7 +79,7 @@ de.julielab jcore-jtbd-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-jtbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-medical-german.xml b/jcore-jtbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-medical-german.xml index e01e269..7554c5d 100644 --- a/jcore-jtbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-medical-german.xml +++ b/jcore-jtbd-ae-medical-german/src/main/resources/de/julielab/jcore/ae/jtbd/desc/jcore-jtbd-ae-medical-german.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,7 +6,7 @@ JCoRe Token Annotator for German in the Medical Domain - 2.1.0 + 2.4.0 JULIE Lab Jena, Germany @@ -34,7 +34,7 @@ - + @@ -45,7 +45,7 @@ de.julielab.jcore.types.Token - + @@ -54,4 +54,4 @@ false - + \ No newline at end of file diff --git a/jcore-lingpipegazetteer-ae-dummy-implementation/component.meta b/jcore-lingpipegazetteer-ae-dummy-implementation/component.meta index a6ee964..5c584ad 100644 --- a/jcore-lingpipegazetteer-ae-dummy-implementation/component.meta +++ b/jcore-lingpipegazetteer-ae-dummy-implementation/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-lingpipegazetteer-ae-dummy-implementation", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Lingpipe Gazetteer Dummy Implementation" } diff --git a/jcore-lingpipegazetteer-ae-dummy-implementation/pom.xml b/jcore-lingpipegazetteer-ae-dummy-implementation/pom.xml index fbac762..4bb990a 100644 --- a/jcore-lingpipegazetteer-ae-dummy-implementation/pom.xml +++ b/jcore-lingpipegazetteer-ae-dummy-implementation/pom.xml @@ -4,7 +4,7 @@ jcore-lingpipegazetteer-ae-dummy-implementation jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 de.julielab @@ -15,7 +15,7 @@ de.julielab jcore-lingpipe-gazetteer-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-lingpipegazetteer-ae-dummy-implementation/src/main/resources/de/julielab/jcore/ae/lingpipegazetteer/dummy/desc/ApproxGazetteerAnnotatorTest.xml b/jcore-lingpipegazetteer-ae-dummy-implementation/src/main/resources/de/julielab/jcore/ae/lingpipegazetteer/dummy/desc/ApproxGazetteerAnnotatorTest.xml index f6542ce..6a01c22 100644 --- a/jcore-lingpipegazetteer-ae-dummy-implementation/src/main/resources/de/julielab/jcore/ae/lingpipegazetteer/dummy/desc/ApproxGazetteerAnnotatorTest.xml +++ b/jcore-lingpipegazetteer-ae-dummy-implementation/src/main/resources/de/julielab/jcore/ae/lingpipegazetteer/dummy/desc/ApproxGazetteerAnnotatorTest.xml @@ -1,11 +1,12 @@ - + + org.apache.uima.java true de.julielab.jcore.ae.lingpipegazetteer.uima.GazetteerAnnotator JCoRe Lingpipe Gazetteer AE Dummy - - 2.1.0 + + 2.4.0 JULIE Lab Jena, Germany @@ -63,13 +64,13 @@ - - + + - - - + + + true true @@ -94,4 +95,4 @@ - + \ No newline at end of file diff --git a/jcore-lingscope-negation-ae/component.meta b/jcore-lingscope-negation-ae/component.meta index caf68dd..8ada00e 100644 --- a/jcore-lingscope-negation-ae/component.meta +++ b/jcore-lingscope-negation-ae/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-lingscope-negation-ae", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Lingscope Negation AE" } diff --git a/jcore-lingscope-negation-ae/pom.xml b/jcore-lingscope-negation-ae/pom.xml index 4278a4a..f407015 100644 --- a/jcore-lingscope-negation-ae/pom.xml +++ b/jcore-lingscope-negation-ae/pom.xml @@ -9,14 +9,14 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 de.julielab jcore-lingscope-ae - ${jcore-version} + 2.4.0 ch.qos.logback @@ -44,7 +44,7 @@ de.julielab jcore-types - ${jcore-version} + ${jcore-types-version} junit diff --git a/jcore-lingscope-negation-ae/src/main/resources/de/julielab/jcore/ae/lingscope/desc/jcore-lingscope-negation-ae.xml b/jcore-lingscope-negation-ae/src/main/resources/de/julielab/jcore/ae/lingscope/desc/jcore-lingscope-negation-ae.xml index e155d5c..9cfc656 100644 --- a/jcore-lingscope-negation-ae/src/main/resources/de/julielab/jcore/ae/lingscope/desc/jcore-lingscope-negation-ae.xml +++ b/jcore-lingscope-negation-ae/src/main/resources/de/julielab/jcore/ae/lingscope/desc/jcore-lingscope-negation-ae.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -58,11 +58,11 @@ - - + + - + @@ -73,7 +73,7 @@ de.julielab.jcore.types.LikelihoodIndicator de.julielab.jcore.types.Scope - + @@ -81,5 +81,5 @@ true false - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-linnaeus-species-ae-genera-species-proxies-dicts/component.meta b/jcore-linnaeus-species-ae-genera-species-proxies-dicts/component.meta index bfe2c22..b052059 100644 --- a/jcore-linnaeus-species-ae-genera-species-proxies-dicts/component.meta +++ b/jcore-linnaeus-species-ae-genera-species-proxies-dicts/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-linnaeus-species-ae-genera-species-proxies-dicts", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Linnaeus Species AE Genera and Species Proxies Dictionaries" } diff --git a/jcore-linnaeus-species-ae-genera-species-proxies-dicts/pom.xml b/jcore-linnaeus-species-ae-genera-species-proxies-dicts/pom.xml index ed7ed61..781a8c8 100644 --- a/jcore-linnaeus-species-ae-genera-species-proxies-dicts/pom.xml +++ b/jcore-linnaeus-species-ae-genera-species-proxies-dicts/pom.xml @@ -7,7 +7,7 @@ de.julielab jcore-linnaeus-species-ae-proxies-dict - 2.4.0-SNAPSHOT + 2.4.0 junit @@ -16,6 +16,6 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 \ No newline at end of file diff --git a/jcore-linnaeus-species-ae-genera-species-proxies-dicts/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-genera-species-proxies-dicts.xml b/jcore-linnaeus-species-ae-genera-species-proxies-dicts/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-genera-species-proxies-dicts.xml index cf8fd15..5873158 100644 --- a/jcore-linnaeus-species-ae-genera-species-proxies-dicts/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-genera-species-proxies-dicts.xml +++ b/jcore-linnaeus-species-ae-genera-species-proxies-dicts/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-genera-species-proxies-dicts.xml @@ -1,13 +1,13 @@ - + org.apache.uima.java true de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator JCoRe LINNEAUS Species AE with Genera and Proxies - - 1.0 - + + 2.4.0 + ConfigFile @@ -27,19 +27,19 @@ - + - - + + - + de.julielab.jcore.types.Organism de.julielab.jcore.types.ResourceEntry - + @@ -48,5 +48,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-linnaeus-species-ae-proxies-dict/component.meta b/jcore-linnaeus-species-ae-proxies-dict/component.meta index 91f7a72..9cf1727 100644 --- a/jcore-linnaeus-species-ae-proxies-dict/component.meta +++ b/jcore-linnaeus-species-ae-proxies-dict/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-linnaeus-species-ae-proxies-dict", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Linnaeus Species AE Proxies Dictionary" } diff --git a/jcore-linnaeus-species-ae-proxies-dict/pom.xml b/jcore-linnaeus-species-ae-proxies-dict/pom.xml index 97b44e7..71cbe4f 100644 --- a/jcore-linnaeus-species-ae-proxies-dict/pom.xml +++ b/jcore-linnaeus-species-ae-proxies-dict/pom.xml @@ -4,7 +4,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-linnaeus-species-ae-proxies-dict This project is a resource for the JULES Linnaeus Annotator. The dictionary contained herein is used @@ -18,7 +18,7 @@ de.julielab jcore-linnaeus-species-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-linnaeus-species-ae-proxies-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-proxies-dict.xml b/jcore-linnaeus-species-ae-proxies-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-proxies-dict.xml index 4e958bf..311baba 100644 --- a/jcore-linnaeus-species-ae-proxies-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-proxies-dict.xml +++ b/jcore-linnaeus-species-ae-proxies-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-proxies-dict.xml @@ -1,13 +1,13 @@ - + org.apache.uima.java true de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator jules-linnaeus-species-ae - - 1.0 - + + 2.4.0 + ConfigFile @@ -27,19 +27,19 @@ - + - - + + - + de.julielab.jcore.types.Organism de.julielab.jcore.types.ResourceEntry - + @@ -48,5 +48,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-linnaeus-species-ae-species-dict/component.meta b/jcore-linnaeus-species-ae-species-dict/component.meta index 9a9b3ab..3b0d170 100644 --- a/jcore-linnaeus-species-ae-species-dict/component.meta +++ b/jcore-linnaeus-species-ae-species-dict/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-linnaeus-species-ae-species-dict", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Linnaeus Species AE with Species Dictionary" } diff --git a/jcore-linnaeus-species-ae-species-dict/pom.xml b/jcore-linnaeus-species-ae-species-dict/pom.xml index e4ceb4f..c1f9cec 100644 --- a/jcore-linnaeus-species-ae-species-dict/pom.xml +++ b/jcore-linnaeus-species-ae-species-dict/pom.xml @@ -3,7 +3,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-linnaeus-species-ae-species-dict JCoRe Linnaeus Species AE with Species Dictionary @@ -12,7 +12,7 @@ de.julielab jcore-linnaeus-species-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-linnaeus-species-ae-species-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-species-dict.xml b/jcore-linnaeus-species-ae-species-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-species-dict.xml index af5f569..38bd82b 100644 --- a/jcore-linnaeus-species-ae-species-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-species-dict.xml +++ b/jcore-linnaeus-species-ae-species-dict/src/main/resources/de/julielab/jcore/ae/linnaeus/desc/jcore-linnaeus-species-ae-species-dict.xml @@ -1,13 +1,13 @@ - + org.apache.uima.java true de.julielab.jcore.ae.linnaeus.LinnaeusSpeciesAnnotator jules-linnaeus-species-ae - - 1.0 - + + 2.4.0 + ConfigFile @@ -27,19 +27,19 @@ - + - - + + - + de.julielab.jcore.types.Organism de.julielab.jcore.types.ResourceEntry - + @@ -48,5 +48,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-medline-db-reader/component.meta b/jcore-medline-db-reader/component.meta index 32f2739..20a7800 100644 --- a/jcore-medline-db-reader/component.meta +++ b/jcore-medline-db-reader/component.meta @@ -23,7 +23,7 @@ "maven-artifact": { "artifactId": "jcore-medline-db-reader", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe MEDLINE DB Reader" } diff --git a/jcore-medline-db-reader/pom.xml b/jcore-medline-db-reader/pom.xml index 01ee7d2..c74cf1b 100644 --- a/jcore-medline-db-reader/pom.xml +++ b/jcore-medline-db-reader/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-medline-db-reader JCoRe MEDLINE DB Reader @@ -20,7 +20,7 @@ de.julielab jcore-xml-db-reader - 2.4.0-SNAPSHOT + 2.4.0 de.julielab diff --git a/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier-reader.xml b/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier-reader.xml index 7cfb888..4b7d29b 100644 --- a/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier-reader.xml +++ b/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier-reader.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java de.julielab.jcore.reader.db.DBMultiplierReader @@ -75,7 +75,7 @@ BatchSize - + Integer false true @@ -127,7 +127,7 @@ Limit - + Integer false false @@ -168,23 +168,23 @@ SelectionOrder - + - - - + + + - - + + true false true - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier.xml b/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier.xml index 1fa8a95..dbadd32 100644 --- a/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier.xml +++ b/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-multiplier.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -48,18 +48,18 @@ - - - - + + + + - - + + true true true - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-reader.xml b/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-reader.xml index 8a873fb..9df6598 100644 --- a/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-reader.xml +++ b/jcore-medline-db-reader/src/main/resources/de/julielab/jcore/reader/medline-db/desc/jcore-medline-db-reader.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java de.julielab.jcore.reader.xml.XMLDBReader @@ -102,7 +102,7 @@ BatchSize - + Integer false true @@ -154,7 +154,7 @@ Limit - + Integer false false @@ -201,23 +201,23 @@ SelectionOrder - + - - - + + + - - + + true false true - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-medline-reader/component.meta b/jcore-medline-reader/component.meta index cbf8971..4c26eab 100644 --- a/jcore-medline-reader/component.meta +++ b/jcore-medline-reader/component.meta @@ -23,7 +23,7 @@ "maven-artifact": { "artifactId": "jcore-medline-reader", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe Medline Reader" } diff --git a/jcore-medline-reader/pom.xml b/jcore-medline-reader/pom.xml index 0a0fd1c..0c06031 100644 --- a/jcore-medline-reader/pom.xml +++ b/jcore-medline-reader/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-medline-reader JCoRe Medline Reader @@ -23,7 +23,7 @@ de.julielab jcore-xml-reader - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-medline-reader/src/main/resources/de/julielab/jcore/multiplier/xml/desc/jcore-medline-citationset-multiplier.xml b/jcore-medline-reader/src/main/resources/de/julielab/jcore/multiplier/xml/desc/jcore-medline-citationset-multiplier.xml index 7562c2c..32be549 100644 --- a/jcore-medline-reader/src/main/resources/de/julielab/jcore/multiplier/xml/desc/jcore-medline-citationset-multiplier.xml +++ b/jcore-medline-reader/src/main/resources/de/julielab/jcore/multiplier/xml/desc/jcore-medline-citationset-multiplier.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -8,7 +8,7 @@ This reader assumes that the input XML format has a MedlineCitationSet element as its root. This format was used for the MEDLINE FTP download until 2016. Since then, the XML format has been changed to a PubmedArticleSet. Use the jcore-pubmed-reader for such files. - 1.0 + 2.4.0 JULIE Lab, Germany @@ -55,13 +55,13 @@ - - - + + + - - + + @@ -72,7 +72,7 @@ de.julielab.jcore.types.MeshHeading de.julielab.jcore.types.Title - + @@ -81,5 +81,5 @@ true - - + + \ No newline at end of file diff --git a/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-multiplier-reader.xml b/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-multiplier-reader.xml index 49b9601..66a8c82 100644 --- a/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-multiplier-reader.xml +++ b/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-multiplier-reader.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java de.julielab.jcore.reader.xml.XMLMultiplierReader @@ -6,36 +6,36 @@ JCoRe Medline XML Multiplier Reader Used for MEDLINE XML FTP downloads until 2016. Starting with 2017, the format was changed to PubmedArticleSet. Use the jcore-pubmed-reader for such data. - unknown + 2.4.0 de.julielab.jcore.reader.xml InputDirectory - + String false false InputFile - + String false false - + - + - - + + true false true - + \ No newline at end of file diff --git a/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-reader.xml b/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-reader.xml index bfa75c8..6304933 100644 --- a/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-reader.xml +++ b/jcore-medline-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-medline-reader.xml @@ -1,11 +1,11 @@ - + org.apache.uima.java de.julielab.jcore.reader.xml.XMLReader JCoRe Medline Reader Leveraging the JCoRe XML Reader, this project employs a Medline-enabled mapping file to map Medline XML documents to CAS instances. The input is a directory of single XML files, each containing exactly one XML MedlineCitation. The XML format is the one used by NCBI when downloading Medline documents in large batches from the NCBI FTP server. However, the component currently expects single documents instead of whole MedlineCitationSets containing sets of MedlineCitations. - 2.1.0 + 2.4.0 JULIE Lab, Germany @@ -39,15 +39,15 @@ - - + + - - + + - + de.julielab.jcore.types.pubmed.OtherID de.julielab.jcore.types.AbstractText @@ -62,7 +62,7 @@ de.julielab.jcore.types.DBInfo de.julielab.jcore.types.MeshHeading - + @@ -71,5 +71,5 @@ true - - + + \ No newline at end of file diff --git a/jcore-mstparser-ae-biomedical-english/component.meta b/jcore-mstparser-ae-biomedical-english/component.meta index 7ea6944..8d6cc3a 100644 --- a/jcore-mstparser-ae-biomedical-english/component.meta +++ b/jcore-mstparser-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-mstparser-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe MST Parser AE, Biomedical English" } diff --git a/jcore-mstparser-ae-biomedical-english/pom.xml b/jcore-mstparser-ae-biomedical-english/pom.xml index 6233a86..46dcf9d 100644 --- a/jcore-mstparser-ae-biomedical-english/pom.xml +++ b/jcore-mstparser-ae-biomedical-english/pom.xml @@ -10,7 +10,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 JULIE Lab Jena, Germany @@ -20,7 +20,7 @@ de.julielab jcore-mstparser-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-mstparser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/mstparser/desc/jcore-mstparser-ae-biomedical-english.xml b/jcore-mstparser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/mstparser/desc/jcore-mstparser-ae-biomedical-english.xml index bf744ed..104749b 100644 --- a/jcore-mstparser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/mstparser/desc/jcore-mstparser-ae-biomedical-english.xml +++ b/jcore-mstparser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/mstparser/desc/jcore-mstparser-ae-biomedical-english.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,7 +6,7 @@ JCoRe MST Parser Annotator specialized package with a model trained on the GENIA conll corpus - 2.1.0 + 2.4.0 JULIE Lab Jena, Germany @@ -17,15 +17,15 @@ false - + - - + + - - + + @@ -34,7 +34,7 @@ de.julielab.jcore.types.Token - + @@ -69,4 +69,4 @@ - + \ No newline at end of file diff --git a/jcore-opennlp-chunk-ae-biomedical-english/component.meta b/jcore-opennlp-chunk-ae-biomedical-english/component.meta index 26db878..99af0c2 100644 --- a/jcore-opennlp-chunk-ae-biomedical-english/component.meta +++ b/jcore-opennlp-chunk-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-chunk-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP Chunker, Biomedical English" } diff --git a/jcore-opennlp-chunk-ae-biomedical-english/pom.xml b/jcore-opennlp-chunk-ae-biomedical-english/pom.xml index c8b69b8..fbdbecc 100644 --- a/jcore-opennlp-chunk-ae-biomedical-english/pom.xml +++ b/jcore-opennlp-chunk-ae-biomedical-english/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 JCoRe OpenNLP Chunker, Biomedical English This project employs the OpenNLP wrapper (jcore-opennlp-chunker-ae) with a model trained on the Genia corpus. @@ -22,7 +22,7 @@ de.julielab jcore-opennlp-chunk-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-opennlp-chunk-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/chunk/desc/jcore-opennlp-chunk-ae-biomedical-english.xml b/jcore-opennlp-chunk-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/chunk/desc/jcore-opennlp-chunk-ae-biomedical-english.xml index 98defae..6157402 100644 --- a/jcore-opennlp-chunk-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/chunk/desc/jcore-opennlp-chunk-ae-biomedical-english.xml +++ b/jcore-opennlp-chunk-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/chunk/desc/jcore-opennlp-chunk-ae-biomedical-english.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -8,7 +8,7 @@ JCoRe OpenNLP Chunk AE Biomed English Descriptor for OpenNLP Sentence Splitter using a model trained on Genia Treebank v1 - 2.1.0 + 2.4.0 JULIE Lab Jena, Germany @@ -92,4 +92,4 @@ - + \ No newline at end of file diff --git a/jcore-opennlp-parser-ae-biomedical-english/component.meta b/jcore-opennlp-parser-ae-biomedical-english/component.meta index 551099b..3345717 100644 --- a/jcore-opennlp-parser-ae-biomedical-english/component.meta +++ b/jcore-opennlp-parser-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-parser-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP Parser, Biomedical English" } diff --git a/jcore-opennlp-parser-ae-biomedical-english/pom.xml b/jcore-opennlp-parser-ae-biomedical-english/pom.xml index c767a80..303360c 100644 --- a/jcore-opennlp-parser-ae-biomedical-english/pom.xml +++ b/jcore-opennlp-parser-ae-biomedical-english/pom.xml @@ -4,7 +4,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-opennlp-parser-ae-biomedical-english JCoRe OpenNLP Parser, Biomedical English @@ -12,7 +12,7 @@ de.julielab jcore-opennlp-parser-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-opennlp-parser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/parser/desc/jcore-opennlp-parser-ae-biomedical-english.xml b/jcore-opennlp-parser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/parser/desc/jcore-opennlp-parser-ae-biomedical-english.xml index 995dbd8..7b62a96 100644 --- a/jcore-opennlp-parser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/parser/desc/jcore-opennlp-parser-ae-biomedical-english.xml +++ b/jcore-opennlp-parser-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/parser/desc/jcore-opennlp-parser-ae-biomedical-english.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.opennlpparser.main.ParseAnnotator JCoRe OpenNLP Constituency Parser, Genia 2009 - -2.1.0 + +2.4.0 JULIE Lab Jena, Germany @@ -126,11 +126,11 @@ - + - - + + @@ -140,7 +140,7 @@ de.julielab.jcore.types.Constituent - + @@ -149,5 +149,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-opennlp-postag-ae-biomedical-english/component.meta b/jcore-opennlp-postag-ae-biomedical-english/component.meta index 15d40bc..8e60a8e 100644 --- a/jcore-opennlp-postag-ae-biomedical-english/component.meta +++ b/jcore-opennlp-postag-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-postag-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP POS Tagger, Biomedical English" } diff --git a/jcore-opennlp-postag-ae-biomedical-english/pom.xml b/jcore-opennlp-postag-ae-biomedical-english/pom.xml index b1a709d..a65691a 100644 --- a/jcore-opennlp-postag-ae-biomedical-english/pom.xml +++ b/jcore-opennlp-postag-ae-biomedical-english/pom.xml @@ -8,7 +8,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 @@ -50,7 +50,7 @@ de.julielab jcore-opennlp-postag-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-opennlp-postag-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-biomedical-english.xml b/jcore-opennlp-postag-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-biomedical-english.xml index 7b1f355..514bd10 100644 --- a/jcore-opennlp-postag-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-biomedical-english.xml +++ b/jcore-opennlp-postag-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-biomedical-english.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.opennlp.postag.PosTagAnnotator JCoRe OpenNLP POS Tagger - - 2.1.0 + + 2.4.0 JULIE Lab Jena, Germany @@ -40,11 +40,11 @@ - + - - + + @@ -54,7 +54,7 @@ de.julielab.jcore.types.POSTag - + @@ -63,5 +63,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-opennlp-postag-ae-medical-german/component.meta b/jcore-opennlp-postag-ae-medical-german/component.meta index 5008406..22cb1e3 100644 --- a/jcore-opennlp-postag-ae-medical-german/component.meta +++ b/jcore-opennlp-postag-ae-medical-german/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-postag-ae-medical-german", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP POS Tagger, Medical German" } diff --git a/jcore-opennlp-postag-ae-medical-german/pom.xml b/jcore-opennlp-postag-ae-medical-german/pom.xml index b0312d2..13fdb2b 100644 --- a/jcore-opennlp-postag-ae-medical-german/pom.xml +++ b/jcore-opennlp-postag-ae-medical-german/pom.xml @@ -4,7 +4,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-opennlp-postag-ae-medical-german JCoRe OpenNLP POS Tagger, Medical German @@ -12,7 +12,7 @@ de.julielab jcore-opennlp-postag-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-opennlp-postag-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-medical-german.xml b/jcore-opennlp-postag-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-medical-german.xml index 3e08d38..065fde4 100644 --- a/jcore-opennlp-postag-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-medical-german.xml +++ b/jcore-opennlp-postag-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/postag/desc/jcore-opennlp-postag-ae-medical-german.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.opennlp.postag.PosTagAnnotator JCoRe OpenNLP POS Tagger - - 2.1.0 + + 2.4.0 JULIE Lab Jena, Germany @@ -40,11 +40,11 @@ - + - - + + @@ -54,7 +54,7 @@ de.julielab.jcore.types.POSTag - + @@ -63,5 +63,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-opennlp-sentence-ae-biomedical-english/component.meta b/jcore-opennlp-sentence-ae-biomedical-english/component.meta index 832bb6c..b597e1d 100644 --- a/jcore-opennlp-sentence-ae-biomedical-english/component.meta +++ b/jcore-opennlp-sentence-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-sentence-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP Sentence Splitter, Biomedical English" } diff --git a/jcore-opennlp-sentence-ae-biomedical-english/pom.xml b/jcore-opennlp-sentence-ae-biomedical-english/pom.xml index 25d368f..98f4dee 100644 --- a/jcore-opennlp-sentence-ae-biomedical-english/pom.xml +++ b/jcore-opennlp-sentence-ae-biomedical-english/pom.xml @@ -36,7 +36,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 JCoRe OpenNLP Sentence Splitter, Biomedical English This project employs the UIMA wrapper (jcore-opennlp-sentence-ae) with a model trained on the PennBioIE and Genia corpora. @@ -56,7 +56,7 @@ de.julielab jcore-opennlp-sentence-ae - 2.4.0-SNAPSHOT + 2.4.0 https://github.com/JULIELab/jcore-projects/tree/master/jcore-opennlp-sentence-ae-biomedical-english diff --git a/jcore-opennlp-sentence-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-biomedical-english.xml b/jcore-opennlp-sentence-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-biomedical-english.xml index b7a54a8..e9b40bd 100644 --- a/jcore-opennlp-sentence-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-biomedical-english.xml +++ b/jcore-opennlp-sentence-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-biomedical-english.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -6,7 +6,7 @@ JCoRe OpenNLP Sentence Splitter AE Biomed English Descriptor for OpenNLP Sentence Splitter using a model trained on Genia and PennBio -2.1.0 +2.4.0 JULIE Lab Jena, Germany @@ -26,18 +26,18 @@ - + - - + + - + de.julielab.jcore.types.Sentence - + @@ -46,5 +46,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-opennlp-sentence-ae-medical-german/component.meta b/jcore-opennlp-sentence-ae-medical-german/component.meta index aee302f..0348394 100644 --- a/jcore-opennlp-sentence-ae-medical-german/component.meta +++ b/jcore-opennlp-sentence-ae-medical-german/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-sentence-ae-medical-german", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP Sentence Segmenter, Medical German" } diff --git a/jcore-opennlp-sentence-ae-medical-german/pom.xml b/jcore-opennlp-sentence-ae-medical-german/pom.xml index 03fdc04..0c75cfb 100644 --- a/jcore-opennlp-sentence-ae-medical-german/pom.xml +++ b/jcore-opennlp-sentence-ae-medical-german/pom.xml @@ -4,7 +4,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-opennlp-sentence-ae-medical-german JCoRe OpenNLP Sentence Segmenter, Medical German @@ -21,7 +21,7 @@ de.julielab jcore-opennlp-sentence-ae - 2.4.0-SNAPSHOT + 2.4.0 This Model was trained on the confidential FraMed corpus. diff --git a/jcore-opennlp-sentence-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-medical-german.xml b/jcore-opennlp-sentence-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-medical-german.xml index 842e7ff..409cb53 100644 --- a/jcore-opennlp-sentence-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-medical-german.xml +++ b/jcore-opennlp-sentence-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/sentence/desc/jcore-opennlp-sentence-ae-medical-german.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.opennlp.sentence.SentenceAnnotator JCoRe OpenNLP Sentence Segmenter - - 2.2.0-SNAPSHOT + + 2.4.0 JULIE Lab Jena, Germany @@ -26,18 +26,18 @@ - + - - + + - + de.julielab.jcore.types.Sentence - + @@ -46,5 +46,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-opennlp-token-ae-biomedical-english/component.meta b/jcore-opennlp-token-ae-biomedical-english/component.meta index 9a713a3..40eff06 100644 --- a/jcore-opennlp-token-ae-biomedical-english/component.meta +++ b/jcore-opennlp-token-ae-biomedical-english/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-token-ae-biomedical-english", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP Token AE, Biomedical English" } diff --git a/jcore-opennlp-token-ae-biomedical-english/pom.xml b/jcore-opennlp-token-ae-biomedical-english/pom.xml index 02383b7..61a70b4 100644 --- a/jcore-opennlp-token-ae-biomedical-english/pom.xml +++ b/jcore-opennlp-token-ae-biomedical-english/pom.xml @@ -4,7 +4,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-opennlp-token-ae-biomedical-english JCoRe OpenNLP Token AE, Biomedical English @@ -17,7 +17,7 @@ de.julielab jcore-opennlp-token-ae - 2.4.0-SNAPSHOT + 2.4.0 junit diff --git a/jcore-opennlp-token-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-biomedical-english.xml b/jcore-opennlp-token-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-biomedical-english.xml index 1be38e7..2bca5f9 100644 --- a/jcore-opennlp-token-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-biomedical-english.xml +++ b/jcore-opennlp-token-ae-biomedical-english/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-biomedical-english.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.opennlp.token.TokenAnnotator jcore-opennlp-token-ae-biomed-english - - 2.1.0 - + + 2.4.0 + ModelFile @@ -26,11 +26,11 @@ - + - - + + @@ -50,5 +50,5 @@ false - - + + \ No newline at end of file diff --git a/jcore-opennlp-token-ae-medical-german/component.meta b/jcore-opennlp-token-ae-medical-german/component.meta index 76a3d85..6acb84b 100644 --- a/jcore-opennlp-token-ae-medical-german/component.meta +++ b/jcore-opennlp-token-ae-medical-german/component.meta @@ -14,7 +14,7 @@ "maven-artifact": { "artifactId": "jcore-opennlp-token-ae-medical-german", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe OpenNLP Tokenizer, Medical German" } diff --git a/jcore-opennlp-token-ae-medical-german/pom.xml b/jcore-opennlp-token-ae-medical-german/pom.xml index a1c6581..f8c7e48 100644 --- a/jcore-opennlp-token-ae-medical-german/pom.xml +++ b/jcore-opennlp-token-ae-medical-german/pom.xml @@ -4,7 +4,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-opennlp-token-ae-medical-german JCoRe OpenNLP Tokenizer, Medical German @@ -12,7 +12,7 @@ de.julielab jcore-opennlp-token-ae - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-opennlp-token-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-medical-german.xml b/jcore-opennlp-token-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-medical-german.xml index a5eb888..709ca3e 100644 --- a/jcore-opennlp-token-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-medical-german.xml +++ b/jcore-opennlp-token-ae-medical-german/src/main/resources/de/julielab/jcore/ae/opennlp/token/desc/jcore-opennlp-token-ae-medical-german.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.ae.opennlp.token.TokenAnnotator jcore-opennlp-token-ae-medical-german - - 2.2.0-SNAPSHOT - + + 2.4.0 + ModelFile @@ -26,11 +26,11 @@ - + - - + + @@ -50,5 +50,5 @@ false - + \ No newline at end of file diff --git a/jcore-pubmed-db-reader/component.meta b/jcore-pubmed-db-reader/component.meta index dbf2c0c..c4d2671 100644 --- a/jcore-pubmed-db-reader/component.meta +++ b/jcore-pubmed-db-reader/component.meta @@ -24,7 +24,7 @@ "maven-artifact": { "artifactId": "jcore-pubmed-db-reader", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe PubMed DB Reader" } diff --git a/jcore-pubmed-db-reader/pom.xml b/jcore-pubmed-db-reader/pom.xml index 5739194..707e9bb 100644 --- a/jcore-pubmed-db-reader/pom.xml +++ b/jcore-pubmed-db-reader/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-pubmed-db-reader JCoRe PubMed DB Reader @@ -20,7 +20,7 @@ de.julielab jcore-xml-db-reader - 2.4.0-SNAPSHOT + 2.4.0 de.julielab diff --git a/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier-reader.xml b/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier-reader.xml index f1cf029..2b743af 100644 --- a/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier-reader.xml +++ b/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier-reader.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java de.julielab.jcore.reader.db.DBMultiplierReader @@ -75,7 +75,7 @@ BatchSize - + Integer false true @@ -127,7 +127,7 @@ Limit - + Integer false false @@ -168,23 +168,23 @@ SelectionOrder - + - - - + + + - - + + true false true - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier.xml b/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier.xml index 4b09de3..3f456de 100644 --- a/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier.xml +++ b/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-multiplier.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java true @@ -48,18 +48,18 @@ - - - - + + + + - - + + true true true - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-reader.xml b/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-reader.xml index ac092e6..17e077a 100644 --- a/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-reader.xml +++ b/jcore-pubmed-db-reader/src/main/resources/de/julielab/jcore/reader/pubmed-db/desc/jcore-pubmed-db-reader.xml @@ -1,4 +1,4 @@ - + org.apache.uima.java de.julielab.jcore.reader.xml.XMLDBReader @@ -102,7 +102,7 @@ BatchSize - + Integer false true @@ -154,7 +154,7 @@ Limit - + Integer false false @@ -201,23 +201,23 @@ SelectionOrder - + - - - + + + - - + + true false true - - + 2.4.0 + \ No newline at end of file diff --git a/jcore-pubmed-reader/component.meta b/jcore-pubmed-reader/component.meta index e5335e0..9eac6e1 100644 --- a/jcore-pubmed-reader/component.meta +++ b/jcore-pubmed-reader/component.meta @@ -23,7 +23,7 @@ "maven-artifact": { "artifactId": "jcore-pubmed-reader", "groupId": "de.julielab", - "version": "2.4.0-SNAPSHOT" + "version": "2.4.0" }, "name": "JCoRe PubMed Reader" } diff --git a/jcore-pubmed-reader/pom.xml b/jcore-pubmed-reader/pom.xml index 2565ff6..6f3aa30 100644 --- a/jcore-pubmed-reader/pom.xml +++ b/jcore-pubmed-reader/pom.xml @@ -5,7 +5,7 @@ de.julielab jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 jcore-pubmed-reader JCoRe PubMed Reader @@ -17,7 +17,7 @@ de.julielab jcore-xml-reader - 2.4.0-SNAPSHOT + 2.4.0 ch.qos.logback diff --git a/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-articleset-multiplier.xml b/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-articleset-multiplier.xml index bfa5f93..d2667ac 100644 --- a/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-articleset-multiplier.xml +++ b/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-articleset-multiplier.xml @@ -1,12 +1,12 @@ - + org.apache.uima.java true de.julielab.jcore.multiplier.xml.XMLMultiplier JCoRe PubMed ArticleSet Multiplier - - 1.0 + + 2.4.0 JULIE Lab, Germany @@ -53,13 +53,13 @@ - - - + + + - - + + @@ -70,7 +70,7 @@ de.julielab.jcore.types.MeshHeading de.julielab.jcore.types.Title - + @@ -79,5 +79,5 @@ true - - + + \ No newline at end of file diff --git a/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-multiplier-reader.xml b/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-multiplier-reader.xml index 922427d..e756511 100644 --- a/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-multiplier-reader.xml +++ b/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-multiplier-reader.xml @@ -1,23 +1,23 @@ - + org.apache.uima.java de.julielab.jcore.reader.xml.XMLMultiplierReader JCoRe PubMed Reader for ArticleSet Multiplier - - 1.0 - + + 2.4.0 + InputDirectory - + String false false InputFile - + String false false @@ -56,16 +56,16 @@ - - + + - + - - - + + + @@ -74,5 +74,5 @@ true - - + + \ No newline at end of file diff --git a/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-reader.xml b/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-reader.xml index c18fb93..95375a1 100644 --- a/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-reader.xml +++ b/jcore-pubmed-reader/src/main/resources/de/julielab/jcore/reader/xml/desc/jcore-pubmed-reader.xml @@ -1,11 +1,11 @@ - + org.apache.uima.java de.julielab.jcore.reader.xml.XMLReader JCoRe PubMed Reader, single article XML Leveraging the JCoRe XML Reader, this project employs a PubMed-enabled mapping file to map PubMed XML documents to CAS instances. The input is a directory of single XML files, each containing exactly one XML PubmedArticle. The XML format is the one used by NCBI when displaying results in PubMed as XML. - 2.1.0 + 2.4.0 JULIE Lab, Germany @@ -39,15 +39,15 @@ - - + + - - + + - + de.julielab.jcore.types.AbstractText de.julielab.jcore.types.Title @@ -61,7 +61,7 @@ de.julielab.jcore.types.DBInfo de.julielab.jcore.types.MeshHeading - + @@ -70,5 +70,5 @@ true - - + + \ No newline at end of file diff --git a/pom.xml b/pom.xml index 3d8657f..3f6ed3d 100644 --- a/pom.xml +++ b/pom.xml @@ -4,10 +4,10 @@ de.julielab jcore-base - 2.4.0-SNAPSHOT + 2.4.0 jcore-projects - 2.4.0-SNAPSHOT + 2.4.0 pom JCoRe Projects The POM for the JCoRe Projects. diff --git a/scripts/setProjectVersion.sh b/scripts/setProjectVersion.sh index 27abd24..3e85783 100644 --- a/scripts/setProjectVersion.sh +++ b/scripts/setProjectVersion.sh @@ -15,3 +15,5 @@ if [ ! -f jcore-version-normalizer.jar ]; then fi java -jar jcore-version-normalizer.jar pom.xml $1 $2 +python scripts/updateUIMAVersions.py $1 . +scripts/updateMetaDescriptors.sh diff --git a/scripts/updateUIMAVersions.py b/scripts/updateUIMAVersions.py new file mode 100644 index 0000000..2f81729 --- /dev/null +++ b/scripts/updateUIMAVersions.py @@ -0,0 +1,94 @@ + +import os +import sys + +import xml.etree.ElementTree as ET + +new_version = sys.argv[1] + +print("Trying to update to version", new_version) + +path = sys.argv[2] + +print('Searching in', path) + + +def get_xmlns(tag_name): + parts = tag_name.split('}') + if len(parts) > 1: + return parts[0][1:] + else: + return '' + + +def uima_file_type(tag_name): + uima_files = { + "{http://uima.apache.org/resourceSpecifier}collectionReaderDescription": 1, + "{http://uima.apache.org/resourceSpecifier}analysisEngineDescription": 2, + "{http://uima.apache.org/resourceSpecifier}casConsumerDescription": 3, + "{http://uima.apache.org/resourceSpecifier}typeSystemDescription": 4, + "{http://uima.apache.org/resourceSpecifier}typePriorities": 5, + } + return uima_files.get(tag_name, None) + +def get_uima_version_parent(root): + type = uima_file_type(root.tag) + if type == 4 or type == 5: + return root + else: + element_names = { + 1: "{http://uima.apache.org/resourceSpecifier}processingResourceMetaData", + 2: "{http://uima.apache.org/resourceSpecifier}analysisEngineMetaData", + 3: "{http://uima.apache.org/resourceSpecifier}processingResourceMetaData", + } + name = element_names.get(type) + return root.find(name) + + +def process_directory(dirname): + for entry in os.scandir(dirname): + if entry.is_dir(): + process_directory(entry.path) + elif os.path.splitext(entry.name)[1] == ".xml": + # print(entry.path) + try: + tree = ET.parse(entry.path) + root = tree.getroot() + # print(root.tag) + xmlns = get_xmlns(root.tag) + # print(xmlns) + if xmlns: + ET.register_namespace("", xmlns) + else: + ET.register_namespace("", "") + + modified = False + + version_tag_name = "{http://uima.apache.org/resourceSpecifier}version" + + if uima_file_type(root.tag): + parent = get_uima_version_parent(root) + if parent: + elem = parent.find(version_tag_name) + if elem is not None: + old_version = elem.text + elem.text = new_version + print("changed version", old_version, "to", new_version, "in", entry.path) + else: + elem = ET.SubElement(parent, version_tag_name) + elem.text = new_version + print("added version", new_version, "in", entry.path) + modified = True + else: + print("Error: don't understand structure of", entry.path) + + if modified: + tree.write(entry.path, xml_declaration=True, encoding="UTF-8") + + except Exception as e: + print(e) + print("orrured in: ", entry.path) + + +process_directory(path) +