First release

86f87807 · Bertrand Goupil · 86f87807 · 86f87807 · 86f87807 · 86f87807
Commit 86f87807 authored Jun 16, 2017 by Bertrand Goupil
--- a/.classpath
+++ b/.classpath
+<?xml version="1.0" encoding="UTF-8"?>
+<classpath>
+	<classpathentry kind="src" output="target/classes" path="src/main/java">
+		<attributes>
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+	<classpathentry kind="con" path="org.eclipse.m2e.MAVEN2_CLASSPATH_CONTAINER">
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+	<classpathentry kind="src" output="target/test-classes" path="src/test/java">
+		<attributes>
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+	</classpathentry>
+	<classpathentry kind="src" path=".apt_generated">
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+		</attributes>
+	</classpathentry>
+	<classpathentry kind="output" path="target/classes"/>
+</classpath>
--- a/.factorypath
+++ b/.factorypath
+<factorypath>
+    <factorypathentry kind="VARJAR" id="M2_REPO/edu/stanford/nlp/stanford-corenlp/3.7.0/stanford-corenlp-3.7.0.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/apple/AppleJavaExtensions/1.4/AppleJavaExtensions-1.4.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/de/jollyday/jollyday/0.4.9/jollyday-0.4.9.jar" enabled="true" runInBatchMode="false"/>
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+    <factorypathentry kind="VARJAR" id="M2_REPO/org/wipo/analysers/wipo-analysers/0.0.1/wipo-analysers-0.0.1.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/lucene/lucene-analyzers-kuromoji/4.5.1/lucene-analyzers-kuromoji-4.5.1.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/lucene/lucene-analyzers-smartcn/4.5.1/lucene-analyzers-smartcn-4.5.1.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/cybozu/labs/langdetect/1.1-20120112/langdetect-1.1-20120112.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/commons-pool/commons-pool/1.6/commons-pool-1.6.jar" enabled="true" runInBatchMode="false"/>
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+    <factorypathentry kind="VARJAR" id="M2_REPO/xerces/xercesImpl/2.11.0/xercesImpl-2.11.0.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/xml-apis/xml-apis/1.4.01/xml-apis-1.4.01.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/directory-naming/naming-java/0.8/naming-java-0.8.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/directory-naming/naming-core/0.8/naming-core-0.8.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/net/arnx/jsonic/1.3.5/jsonic-1.3.5.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/eugfc/imageio-pnm/1.0/imageio-pnm-1.0.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/pdfbox/pdfbox/1.8.9/pdfbox-1.8.9.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/pdfbox/fontbox/1.8.9/fontbox-1.8.9.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/pdfbox/jempbox/1.8.9/jempbox-1.8.9.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/net/sourceforge/saxon/saxon/9.1.0.8/saxon-9.1.0.8.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/xom/xom/1.2.5/xom-1.2.5.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/xalan/xalan/2.7.0/xalan-2.7.0.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="EXTJAR" id="/Users/bertrand/Documents/eclipse-workspace/afp-asrael/Limsi-SourceExtractor/lib/jar/stanford-french-corenlp-2016-01-14-models.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="EXTJAR" id="/Users/bertrand/Documents/eclipse-workspace/afp-asrael/Limsi-SourceExtractor/lib/jar/wapiti-1.5.0-win.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="EXTJAR" id="/Users/bertrand/Documents/eclipse-workspace/afp-asrael/Limsi-SourceExtractor/lib/jar/hfst-ol.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/commons-io/commons-io/2.5/commons-io-2.5.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/commons-cli/commons-cli/1.3.1/commons-cli-1.3.1.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/commons/commons-collections4/4.1/commons-collections4-4.1.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot-starter-web/1.5.2.RELEASE/spring-boot-starter-web-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot-starter/1.5.2.RELEASE/spring-boot-starter-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot/1.5.2.RELEASE/spring-boot-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot-autoconfigure/1.5.2.RELEASE/spring-boot-autoconfigure-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot-starter-logging/1.5.2.RELEASE/spring-boot-starter-logging-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/ch/qos/logback/logback-classic/1.1.11/logback-classic-1.1.11.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/ch/qos/logback/logback-core/1.1.11/logback-core-1.1.11.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/slf4j/jcl-over-slf4j/1.7.24/jcl-over-slf4j-1.7.24.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/slf4j/jul-to-slf4j/1.7.24/jul-to-slf4j-1.7.24.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/slf4j/log4j-over-slf4j/1.7.24/log4j-over-slf4j-1.7.24.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-core/4.3.7.RELEASE/spring-core-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/yaml/snakeyaml/1.17/snakeyaml-1.17.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/hibernate/hibernate-validator/5.3.4.Final/hibernate-validator-5.3.4.Final.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/javax/validation/validation-api/1.1.0.Final/validation-api-1.1.0.Final.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/jboss/logging/jboss-logging/3.3.0.Final/jboss-logging-3.3.0.Final.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/fasterxml/classmate/1.3.3/classmate-1.3.3.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/fasterxml/jackson/core/jackson-databind/2.8.7/jackson-databind-2.8.7.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/fasterxml/jackson/core/jackson-annotations/2.8.0/jackson-annotations-2.8.0.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/fasterxml/jackson/core/jackson-core/2.8.7/jackson-core-2.8.7.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-web/4.3.7.RELEASE/spring-web-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-aop/4.3.7.RELEASE/spring-aop-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-beans/4.3.7.RELEASE/spring-beans-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-context/4.3.7.RELEASE/spring-context-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-webmvc/4.3.7.RELEASE/spring-webmvc-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/spring-expression/4.3.7.RELEASE/spring-expression-4.3.7.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot-configuration-processor/1.5.2.RELEASE/spring-boot-configuration-processor-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/com/vaadin/external/google/android-json/0.0.20131108.vaadin1/android-json-0.0.20131108.vaadin1.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/springframework/boot/spring-boot-starter-tomcat/1.5.2.RELEASE/spring-boot-starter-tomcat-1.5.2.RELEASE.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/tomcat/embed/tomcat-embed-core/8.5.11/tomcat-embed-core-8.5.11.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/tomcat/embed/tomcat-embed-el/8.5.11/tomcat-embed-el-8.5.11.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="VARJAR" id="M2_REPO/org/apache/tomcat/embed/tomcat-embed-websocket/8.5.11/tomcat-embed-websocket-8.5.11.jar" enabled="true" runInBatchMode="false"/>
+    <factorypathentry kind="PLUGIN" id="org.eclipse.jst.ws.annotations.core" enabled="true" runInBatchMode="false"/>
+</factorypath>
--- a/.gitignore
+++ b/.gitignore
+/.apt_generated/
+/target/
--- a/.project
+++ b/.project
+<?xml version="1.0" encoding="UTF-8"?>
+<projectDescription>
+	<name>Limsi-SourceExtractor</name>
+	<comment></comment>
+	<projects>
+	</projects>
+	<buildSpec>
+		<buildCommand>
+			<name>org.eclipse.wst.common.project.facet.core.builder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+		<buildCommand>
+			<name>org.eclipse.jdt.core.javabuilder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+		<buildCommand>
+			<name>org.springframework.ide.eclipse.core.springbuilder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+		<buildCommand>
+			<name>org.eclipse.wst.validation.validationbuilder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+		<buildCommand>
+			<name>org.eclipse.m2e.core.maven2Builder</name>
+			<arguments>
+			</arguments>
+		</buildCommand>
+	</buildSpec>
+	<natures>
+		<nature>org.eclipse.jem.workbench.JavaEMFNature</nature>
+		<nature>org.eclipse.wst.common.modulecore.ModuleCoreNature</nature>
+		<nature>org.springframework.ide.eclipse.core.springnature</nature>
+		<nature>org.eclipse.m2e.core.maven2Nature</nature>
+		<nature>org.eclipse.jdt.core.javanature</nature>
+		<nature>org.eclipse.wst.common.project.facet.core.nature</nature>
+		<nature>org.eclipse.wst.jsdt.core.jsNature</nature>
+	</natures>
+</projectDescription>
--- a/.settings/.jsdtscope
+++ b/.settings/.jsdtscope
+<?xml version="1.0" encoding="UTF-8"?>
+<classpath>
+	<classpathentry excluding="**/bower_components/*|**/node_modules/*|**/*.min.js" kind="src" path="src/main/webapp"/>
+	<classpathentry kind="con" path="org.eclipse.wst.jsdt.launching.JRE_CONTAINER"/>
+	<classpathentry kind="con" path="org.eclipse.wst.jsdt.launching.WebProject">
+		<attributes>
+			<attribute name="hide" value="true"/>
+		</attributes>
+	</classpathentry>
+	<classpathentry kind="con" path="org.eclipse.wst.jsdt.launching.baseBrowserLibrary"/>
+	<classpathentry kind="output" path=""/>
+</classpath>
--- a/.settings/org.eclipse.core.resources.prefs
+++ b/.settings/org.eclipse.core.resources.prefs
+eclipse.preferences.version=1
+encoding//src/main/java=UTF-8
+encoding//src/main/resources=UTF-8
+encoding//src/test/java=UTF-8
+encoding/<project>=UTF-8
--- a/.settings/org.eclipse.jdt.apt.core.prefs
+++ b/.settings/org.eclipse.jdt.apt.core.prefs
+eclipse.preferences.version=1
+org.eclipse.jdt.apt.aptEnabled=true
--- a/.settings/org.eclipse.jdt.core.prefs
+++ b/.settings/org.eclipse.jdt.core.prefs
+eclipse.preferences.version=1
+org.eclipse.jdt.core.compiler.codegen.inlineJsrBytecode=enabled
+org.eclipse.jdt.core.compiler.codegen.targetPlatform=1.8
+org.eclipse.jdt.core.compiler.codegen.unusedLocal=preserve
+org.eclipse.jdt.core.compiler.compliance=1.8
+org.eclipse.jdt.core.compiler.debug.lineNumber=generate
+org.eclipse.jdt.core.compiler.debug.localVariable=generate
+org.eclipse.jdt.core.compiler.debug.sourceFile=generate
+org.eclipse.jdt.core.compiler.problem.assertIdentifier=error
+org.eclipse.jdt.core.compiler.problem.enumIdentifier=error
+org.eclipse.jdt.core.compiler.problem.forbiddenReference=warning
+org.eclipse.jdt.core.compiler.processAnnotations=enabled
+org.eclipse.jdt.core.compiler.source=1.8
--- a/.settings/org.eclipse.m2e.core.prefs
+++ b/.settings/org.eclipse.m2e.core.prefs
+activeProfiles=
+eclipse.preferences.version=1
+resolveWorkspaceProjects=true
+version=1
--- a/.settings/org.eclipse.wst.common.component
+++ b/.settings/org.eclipse.wst.common.component
+<?xml version="1.0" encoding="UTF-8"?><project-modules id="moduleCoreId" project-version="1.5.0">
+    <wb-module deploy-name="limsiSourceExtractor">
+        <wb-resource deploy-path="/" source-path="/target/m2e-wtp/web-resources"/>
+        <wb-resource deploy-path="/" source-path="/src/main/webapp" tag="defaultRootSource"/>
+        <wb-resource deploy-path="/WEB-INF/classes" source-path="/src/main/java"/>
+        <wb-resource deploy-path="/WEB-INF/classes" source-path="/src/main/resources"/>
+        <wb-resource deploy-path="/WEB-INF/classes" source-path="/.apt_generated"/>
+        <property name="java-output-path" value="/Limsi-SourceExtractor/target/classes"/>
+        <property name="context-root" value="limsiSourceExtractor"/>
+    </wb-module>
+</project-modules>
--- a/.settings/org.eclipse.wst.common.project.facet.core.xml
+++ b/.settings/org.eclipse.wst.common.project.facet.core.xml
+<?xml version="1.0" encoding="UTF-8"?>
+<faceted-project>
+  <fixed facet="wst.jsdt.web"/>
+  <installed facet="java" version="1.8"/>
+  <installed facet="jst.web" version="3.1"/>
+  <installed facet="wst.jsdt.web" version="1.0"/>
+</faceted-project>
--- a/.settings/org.eclipse.wst.jsdt.ui.superType.container
+++ b/.settings/org.eclipse.wst.jsdt.ui.superType.container
+org.eclipse.wst.jsdt.launching.baseBrowserLibrary
\ No newline at end of file
--- a/.settings/org.eclipse.wst.jsdt.ui.superType.name
+++ b/.settings/org.eclipse.wst.jsdt.ui.superType.name
+Window
\ No newline at end of file
--- a/.settings/org.eclipse.wst.validation.prefs
+++ b/.settings/org.eclipse.wst.validation.prefs
+disabled=06target
+eclipse.preferences.version=1
--- a/Readme.md
+++ b/Readme.md
+# Limsi-SourceExtractor
+
+## Abstract
+
+This is a code refactoring of Limsi's source extractor program in order to expose source extraction as a web service.
+This is a Spring Boot application deployed in a Docker image. 
+
+## Project requirement
+This is a Java/Spring boot project. All dependencies are setup in a Maven pom.
+On Macos X or Windows workstation, Docker should be install [https://www.docker.com/docker-toolbox](https://www.docker.com/docker-toolbox)
+
+ Java Oracle JDK8 [http://www.oracle.com/technetwork/java/javase/downloads/index.html](http://www.oracle.com/technetwork/java/javase/downloads/index.html)
+ Apache Maven [https://maven.apache.org/download.cgi](https://maven.apache.org/download.cgi)
+ Docker [https://www.docker.com/docker-toolbox](https://www.docker.com/docker-toolbox)
+
+
+
+## Run and Build project
+### Run localy
+ Change `application.yml` in `PROJECT_HOME/Limsi-SourceExtractor/src/test/configuration` with local lib and resources path (change PROJECT_HOME). Required absolute path.
+
+    resource: 
+     #Directory containing the librairies and models
+     lib: PROJECT_HOME/Limsi-SourceExtractor/lib
+     #Directory containing the language-dependent resources
+     resources: PROJECT_HOME/Limsi-SourceExtractor/resources
+
+ `mvn clean install`
+ Goto to `target` directory
+ Run in a terminal `java -Dspring.config.location=../src/test/configuration/ -jar limsiSourceExtractor.jar` 
+
+If running from IDE (eclipse), VM argument `java -Dspring.config.location=src/test/configuration/` must be added in the "Run configuration".
+
+#### Troubleshooting
+ Application do not find `lib` and `resources` path at startup:
+ 
+	=> check that application.yml set the correct path for lib and resources
+	=> -Dspring.configuration path should end with /
+	
+#### Bug
+ Service stop on MacosX during extraction with wapiti's message `error: invalid model format` (This is not happening running inside eclipse ...)
+
+### Run with Docker
+####Use default resources
+Models and resources are embedded by default in the docker image.
+ Build docker image `mvn clean package docker:build`
+ Start default image `docker run -p 8080:8080 -t limsi-source-extractor`
+
+####Custom resources/lib
+Build image can be used with new traing set. In this case it is possible to overwrite default model configuration.
+
+In the docker image volumes have been setup to mount new resources.
+ `lib` folder should be mount to `/configuration/lib`
+ `resources` folder should be mount to `/configuration/resources`
+ Configuration file from PROJECT_HOME/Limsi-SourceExtractor/configuration/ that define `application.yml`  whith docker Volumes must be use.
+
+ Run docker image with mount resources:
+
+    docker run -p 8080:8080 -v /PROJECT_HOME/Limsi-SourceExtractor/configuration:/configuration -v /PROJECT_HOME/Limsi-SourceExtractor/lib:/configuration/lib -v /PROJECT_HOME/Limsi-SourceExtractor/resources:/configuration/resources -t limsi-source-extractor
+
+#### Docker cheat sheet
+
+ List images `docker images`
+ List containers `docker ps -a`
+ Stop container `docker stop <container_name>`
+ Start container `docker start <container_name>`
+ Remove stop containers `docker rm $(docker ps -a -q)`
+ Remove image `docker rmi <image_name>`
+ Load image from file `docker load < image_file.tar`
+ Export image `docker export > image_file.tar`
+
+## Test
+HTTP GET http://localhost:8080/sourceExtractor/
+
+    =>HTTP 200 "Greetings from Spring Boot!"
+    
+HTTP POST http://localhost:8080/sourceExtractor/extractNewsML
+Charset text/xml
+
+    curl -XPOST -H "Content-Type: text/xml" -d @afp.com-20150123T153420Z-TX-PAR-SZS52.xml http://localhost:8080/sourceExtractor/extractNewsML
+
+
--- a/configuration/application.yml
+++ b/configuration/application.yml
+server:
+ context-path: /sourceExtractor
+ 
+resource: 
+ #Directory containing the librairies and models
+ #lib: /Users/bertrand/Documents/eclipse-workspace/afp-asrael/Limsi-SourceExtractor/lib
+ lib: /configuration/lib
+ #Directory containing the language-dependent resources
+ resources: /configuration/resources
+ #Directory containing trained data
+ data: /home/xtannier/Recherche/SourceExtractor
+
+logging:
+  level:
+    fr.limsi.sourceExtractor: info 
\ No newline at end of file
--- a/lib/jar/hfst-ol.jar
+++ b/lib/jar/hfst-ol.jar
--- a/lib/jar/stanford-french-corenlp-2016-01-14-models.jar
+++ b/lib/jar/stanford-french-corenlp-2016-01-14-models.jar
--- a/lib/jar/wapiti-1.5.0-win.jar
+++ b/lib/jar/wapiti-1.5.0-win.jar
--- a/lib/maltparser/model/fremalt-1.7.mco
+++ b/lib/maltparser/model/fremalt-1.7.mco