Add evaluation experiment pipelines and scripts.

gepi/README.md

@@ -66,10 +66,11 @@ gepi.neo4j.bolt.url=bolt://<host>:<port>
 
 ### Running the Docker image in Production
 
-A production environment has a few requirements that are of lesser importance during development. This section explains requirements and solutions that may come up during GePI deployment with the Docker container. While detailed explanations come below, the complete Docker `run` command we use for deployment looks like the following:
+A production environment has a few requirements that are of lesser importance during development. This section explains requirements and solutions that may come up during GePI deployment with the Docker container. While detailed explanations come below, the full Docker `run` command we use for deployment looks like the following:
 ```
 docker run -dp 80:8080 -p 443:8443 -v /host/path/to/certificate.p12:/var/lib/jetty/etc/keystore.p12 -v /host/path/to/configuration.properties:/gepi-webapp-configuration.properties --add-host=host.docker.internal:host-gateway --name gepi -e GEPI_CONFIGURATION=/gepi-webapp-configuration.properties gepi:0.11.0 jetty.sslContext.keyStorePassword=<changeit>
 ```
+Alternatively, the `docker-compose-webapp.yml` file can be used with a few additions.
 
 #### Activating HTTPS
 

gepi/gepi-indexing/gepi-indexing-testdata/descAll/JCoRe AcronymAnnotator.xml

@@ -0,0 +1,156 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<analysisEngineDescription xmlns="http://uima.apache.org/resourceSpecifier">
+
+    <frameworkImplementation>org.apache.uima.java</frameworkImplementation>
+
+    <primitive>true</primitive>
+
+    <annotatorImplementationName>de.julielab.jcore.ae.acronymtagger.main.AcronymAnnotator</annotatorImplementationName>
+
+    <analysisEngineMetaData>
+
+        <name>JCoRe AcronymAnnotator</name>
+
+        <description/>
+
+        <version>2.6.0</version>
+
+        <vendor>JULIE Lab Jena, Germany</vendor>
+
+        <configurationParameters>
+
+            <configurationParameter>
+
+                <name>ConsistencyAnno</name>
+
+                <description>set true if AcronymAnnotator should annotate every occurence of shortforms in the text</description>
+
+                <type>Boolean</type>
+
+                <multiValued>false</multiValued>
+
+                <mandatory>true</mandatory>
+
+            </configurationParameter>
+
+            <configurationParameter>
+
+                <name>MaxLength</name>
+
+                <description>Define how far (how many words, ignoring stopwords) the AE is supposed too look for the beginning of the fullform.</description>
+
+                <type>Integer</type>
+
+                <multiValued>false</multiValued>
+
+                <mandatory>true</mandatory>
+
+            </configurationParameter>
+
+            <configurationParameter>
+
+                <name>Postprocessing</name>
+
+                <description>Activates a post processing that unifies overlapping abbreviations and fullforms.</description>
+
+                <type>Boolean</type>
+
+                <multiValued>false</multiValued>
+
+                <mandatory>false</mandatory>
+
+            </configurationParameter>
+
+        </configurationParameters>
+
+        <configurationParameterSettings>
+
+            <nameValuePair>
+
+                <name>ConsistencyAnno</name>
+
+                <value>
+
+                    <boolean>true</boolean>
+
+                </value>
+
+            </nameValuePair>
+
+            <nameValuePair>
+
+                <name>MaxLength</name>
+
+                <value>
+
+                    <integer>5</integer>
+
+                </value>
+
+            </nameValuePair>
+
+            <nameValuePair>
+
+                <name>Postprocessing</name>
+
+                <value>
+
+                    <boolean>true</boolean>
+
+                </value>
+
+            </nameValuePair>
+
+        </configurationParameterSettings>
+
+        <typeSystemDescription>
+
+            <imports>
+
+                <import name="de.julielab.jcore.types.jcore-morpho-syntax-types"/>
+
+            </imports>
+
+        </typeSystemDescription>
+
+        <typePriorities/>
+
+        <fsIndexCollection/>
+
+        <capabilities>
+
+            <capability>
+
+                <inputs>
+
+                    <type allAnnotatorFeatures="true">de.julielab.jcore.types.Sentence</type>
+
+                </inputs>
+
+                <outputs>
+
+                    <type allAnnotatorFeatures="true">de.julielab.jcore.types.Abbreviation</type>
+
+                </outputs>
+
+                <languagesSupported/>
+
+            </capability>
+
+        </capabilities>
+
+        <operationalProperties>
+
+            <modifiesCas>true</modifiesCas>
+
+            <multipleDeploymentAllowed>true</multipleDeploymentAllowed>
+
+            <outputsNewCASes>false</outputsNewCASes>
+
+        </operationalProperties>
+
+    </analysisEngineMetaData>
+
+    <resourceManagerConfiguration/>
+
+</analysisEngineDescription>