Migrating to Gradle

.gitignore

+### Eclipse ###
+.metadata
+bin/
+tmp/
+*.tmp
+*.bak
+*.swp
+*~.nib
+local.properties
+.settings/
+.loadpath
+.recommenders
+
+# External tool builders
+.externalToolBuilders/
+
+# Locally stored "Eclipse launch configurations"
+*.launch
+
+# PyDev specific (Python IDE for Eclipse)
+*.pydevproject
+
+# CDT-specific (C/C++ Development Tooling)
+.cproject
+
+# CDT- autotools
+.autotools
+
+# Java annotation processor (APT)
+.factorypath
+
+# PDT-specific (PHP Development Tools)
+.buildpath
+
+# sbteclipse plugin
+.target
+
+# Tern plugin
+.tern-project
+
+# TeXlipse plugin
+.texlipse
+
+# STS (Spring Tool Suite)
 .springBeans
+
+# Code Recommenders
+.recommenders/
+
+# Annotation Processing
+.apt_generated/
+
+# Scala IDE specific (Scala & Java development for Eclipse)
+.cache-main
+.scala_dependencies
+.worksheet
+
+### Eclipse Patch ###
+# Eclipse Core
+.project
+
+# JDT-specific (Eclipse Java Development Tools)
+.classpath
+
+# Annotation Processing
+.apt_generated
+
+.sts4-cache/
+
+### Java ###
+# Compiled class file
 *.class
 
+# Log file
+*.log
+
+# BlueJ files
+*.ctxt
+
 # Mobile Tools for Java (J2ME)
 .mtj.tmp/
 
 # Package Files #
 *.jar
 *.war
+*.nar
 *.ear
+*.zip
+*.tar.gz
+*.rar
 
 # virtual machine crash logs, see http://www.java.com/en/download/help/error_hotspot.xml
 hs_err_pid*
-**/target/
 
-.project
-.settings
-.classpath
+### Java-Web ###
+## ignoring target file
+target/
+
+### Gradle ###
+.gradle
+build/
+
+# Ignore Gradle GUI config
+gradle-app.setting
+
+# Avoid ignoring Gradle wrapper jar file (.jar files are usually ignored)
+!gradle-wrapper.jar
+
+# Cache of project
+.gradletasknamecache
 
+# # Work around https://youtrack.jetbrains.com/issue/IDEA-116898
+# gradle/wrapper/gradle-wrapper.properties
 
-docs/_build
-docs/venv
+### Gradle Patch ###
+**/build/

.gitlab-ci.yml

-image: maven:latest
+image: java:8-jdk
 
 variables:
-  MAVEN_CLI_OPTS: "--batch-mode"
-  GIT_SUBMODULE_STRATEGY: recursive
+  GRADLE_OPTS: "-Dorg.gradle.daemon=false"
+  NEXUS_CREDENTIALS: "-Pnexususer=$NEXUS_REPO_USER -Pnexuspass=$NEXUS_REPO_PASS"
 
 before_script:
-  - VERSION=$(mvn help:evaluate -Dexpression=project.version -q -DforceStdout)
-  - ARTIFACT=$(mvn help:evaluate -Dexpression=project.artifactId -q -DforceStdout)
+  - export GRADLE_USER_HOME=`pwd`/.gradle
+  - ./gradlew wrapper --gradle-version=5.6.4 --distribution-type=bin
 
+cache:
+  paths:
+    - .gradle/wrapper
+    - .gradle/caches
+
+stages:
+  - build
+  - deploy
+  
 build:
   stage: build
-  script:
-    - mvn $MAVEN_CLI_OPTS compile
-
-test:
-  stage: test
-  script:
-    - mvn $MAVEN_CLI_OPTS test
+  script: ./gradlew assemble
    
 deploy:
   stage: deploy
-  script:
-    - |
-      if [[ $VERSION = *"SNAPSHOT" || $VERSION = *"RELEASE" ]]; then
-        echo "Building Debian package for $VERSION"
-        mvn $MAVEN_CLI_OPTS -U -Pdariah.deb -Dmaven.test.failure.ignore package
-
-        ~/scripts/push_deb_packages.sh ./target/
-
-      fi
+  script: 
+    - ./gradlew publish -x test $NEXUS_CREDENTIALS
   only:
     - master
 

build.gradle

+/*buildscript {
+    repositories {
+        maven { url 'https://repo.spring.io/plugins-snapshot' }
+    }
+    dependencies {
+        classpath 'io.spring.gradle:dependency-management-plugin:1.0.8.RELEASE'
+    }
+}*/
+
+plugins {
+    //id 'java'
+    id 'war'
+    //id "io.spring.dependency-management" version "1.0.6.RELEASE"
+    id 'maven-publish'
+}
+
+group = 'de.unibamberg.minf'
+version = '3.6.0-SNAPSHOT'
+description = 'DARIAH-DE Data Modeling Environment'
+
+repositories {
+    mavenLocal()
+    maven {
+        url = 'https://minfba.de.dariah.eu/nexus/repository/minfba-central/'
+    }
+}
+
+ext {
+    coreVersion = "5.3.0-SNAPSHOT"
+    gtfVersion = "1.6.0-SNAPSHOT"
+    processingVersion = "3.8.0-SNAPSHOT"
+}
+
+dependencies {
+    compile "de.unibamberg.minf.core:core-metamodel:$coreVersion"
+    compile "de.unibamberg.minf.core:core-web:$coreVersion"
+    compile "de.unibamberg.minf.core:core-util:$coreVersion"
+    compile "de.unibamberg.minf.gtf:gtf-base:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-core:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-extension-file:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-extension-wiki:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-extension-geo:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-extension-nlp:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-extension-vocabulary:$gtfVersion"
+    compile "de.unibamberg.minf.gtf:gtf-extension-dai:$gtfVersion"
+    compile "de.unibamberg.minf.processing:processing:$processingVersion"
+    compile "eu.dariah.de.minfba.core-legacy:core-metamodel:3.3.1"
+    compile "org.springframework:spring-context:4.3.6.RELEASE"
+    compile "org.springframework:spring-core:4.3.6.RELEASE"
+    compile "org.springframework:spring-beans:4.3.6.RELEASE"
+    compile "org.springframework:spring-webmvc:4.3.6.RELEASE"
+    compile "org.springframework:spring-web:4.3.6.RELEASE"
+    compile "org.apache.httpcomponents:httpclient:4.3.3"
+    compile "org.apache.httpcomponents:httpcore:4.3.2"
+    compile "org.springframework.security:spring-security-core:4.2.1.RELEASE"
+    compile "org.springframework.security:spring-security-web:4.2.1.RELEASE"
+    compile "org.springframework.security:spring-security-config:4.2.1.RELEASE"
+    compile "eu.dariah.de:dariahsp-core:1.3.0-SNAPSHOT"
+    compile "org.springframework.data:spring-data-mongodb:1.10.6.RELEASE"
+    compile "org.mongodb:mongo-java-driver:3.4.2"
+    compile "org.hibernate:hibernate-validator:5.2.2.Final"
+    compile "xerces:xercesImpl:2.12.0"
+    compile "org.apache.tiles:tiles-core:3.0.7"
+    compile "org.apache.tiles:tiles-jsp:3.0.7"
+    compile "org.apache.tiles:tiles-api:3.0.7"
+    compile "org.slf4j:slf4j-api:1.7.22"
+    compile "ch.qos.logback:logback-core:1.1.3"
+    compile "ch.qos.logback:logback-classic:1.1.3"
+    compile "javax.servlet:jstl:1.2"
+    compile "com.fasterxml.jackson.core:jackson-databind:2.9.6"
+    compile "com.fasterxml.jackson.datatype:jackson-datatype-joda:2.9.6"
+    compile "com.fasterxml.jackson.core:jackson-annotations:2.9.6"
+    compile "commons-fileupload:commons-fileupload:1.3.1"
+    compile "joda-time:joda-time:2.8.2"
+    compile "joda-time:joda-time-jsptags:1.1.1"
+    runtime "org.slf4j:jcl-over-slf4j:1.7.22"
+    runtime "org.slf4j:log4j-over-slf4j:1.7.22"
+    testCompile "org.springframework:spring-test:4.3.6.RELEASE"
+    testCompile "junit:junit:4.12"
+    testCompile "org.mockito:mockito-all:1.10.19"
+    compileOnly "javax.servlet:javax.servlet-api:3.1.0"
+    compileOnly "javax.servlet.jsp:jsp-api:2.2"
+}
+
+java {
+    sourceCompatibility = JavaVersion.VERSION_1_8
+}
+
+tasks.withType(JavaCompile) {
+    options.encoding = 'UTF-8'
+}
+
+task sourcesJar(type: Jar, dependsOn: classes) {
+    classifier = 'sources'
+    from sourceSets.main.allSource
+}
+
+/*task javadocJar(type: Jar, dependsOn: javadoc) {
+    classifier = 'javadoc'
+    from javadoc.destinationDir
+}*/
+
+artifacts {
+    archives sourcesJar
+    //archives javadocJar
+}
+
+publishing {
+    publications {
+        maven(MavenPublication) {
+            from(components.web)
+            //artifact(sourcesJar) {}
+            //artifact(javadocJar) {}
+            pom {
+                name = 'DARIAH-DE Data Modeling Environment'
+                url = 'https://gitlab.rz.uni-bamberg.de/dariah/dme'
+                licenses {
+                    license {
+                        name = 'The Apache License, Version 2.0'
+                        url = 'http://www.apache.org/licenses/LICENSE-2.0.txt'
+                    }
+                }
+                developers {
+                    developer {
+                        id = 'tgradl'
+                        name = 'Tobias Gradl'
+                        email = 'tobias.gradl@uni-bamberg.de'
+                    }
+                }
+                scm {
+                    connection = 'scm:git:git://gitlab.rz.uni-bamberg.de/dariah/dme.git'
+                    developerConnection = 'scm:git:ssh://gitlab.rz.uni-bamberg.de/dariah/dme.git'
+                    url = 'https://gitlab.rz.uni-bamberg.de/dariah/dme'
+                }
+                issueManagement {
+                    system = 'GitLab'
+                    url = 'https://gitlab.rz.uni-bamberg.de/dariah/dme/issues'
+                }
+            }
+        }
+    }
+    repositories {
+        maven {
+            def releasesRepoUrl = "https://minfba.de.dariah.eu/nexus/repository/minfba-releases/"
+            def snapshotsRepoUrl = "https://minfba.de.dariah.eu/nexus/repository/minfba-snapshots/"
+            
+            if (version.endsWith('SNAPSHOT') || version.endsWith('RELEASE')) {
+                credentials {
+                    username project.hasProperty('nexususer') ? project.getProperty('nexususer') : ''
+                    password project.hasProperty('nexuspass') ? project.getProperty('nexuspass') : ''
+                }
+                url = version.endsWith('SNAPSHOT') ? snapshotsRepoUrl : releasesRepoUrl
+            } else {
+                // Have a local test repo under buildDir to be able to test publish but only actually do publish when the version ending matches
+                url = "$buildDir/repo/"
+            }
+        }
+    }
+}
\ No newline at end of file

gradle/wrapper/gradle-wrapper.properties

+distributionBase=GRADLE_USER_HOME
+distributionPath=wrapper/dists
+distributionUrl=https\://services.gradle.org/distributions/gradle-5.6.4-bin.zip
+zipStoreBase=GRADLE_USER_HOME
+zipStorePath=wrapper/dists

gradlew

+#!/usr/bin/env sh
+
+#
+# Copyright 2015 the original author or authors.
+#
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#
+#      https://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+#
+
+##############################################################################
+##
+##  Gradle start up script for UN*X
+##
+##############################################################################
+
+# Attempt to set APP_HOME
+# Resolve links: $0 may be a link
+PRG="$0"
+# Need this for relative symlinks.
+while [ -h "$PRG" ] ; do
+    ls=`ls -ld "$PRG"`
+    link=`expr "$ls" : '.*-> \(.*\)$'`
+    if expr "$link" : '/.*' > /dev/null; then
+        PRG="$link"
+    else
+        PRG=`dirname "$PRG"`"/$link"
+    fi
+done
+SAVED="`pwd`"
+cd "`dirname \"$PRG\"`/" >/dev/null
+APP_HOME="`pwd -P`"
+cd "$SAVED" >/dev/null
+
+APP_NAME="Gradle"
+APP_BASE_NAME=`basename "$0"`
+
+# Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
+DEFAULT_JVM_OPTS='"-Xmx64m" "-Xms64m"'
+
+# Use the maximum available, or set MAX_FD != -1 to use that value.
+MAX_FD="maximum"
+
+warn () {
+    echo "$*"
+}
+
+die () {
+    echo
+    echo "$*"
+    echo
+    exit 1
+}
+
+# OS specific support (must be 'true' or 'false').
+cygwin=false
+msys=false
+darwin=false
+nonstop=false
+case "`uname`" in
+  CYGWIN* )
+    cygwin=true
+    ;;
+  Darwin* )
+    darwin=true
+    ;;
+  MINGW* )
+    msys=true
+    ;;
+  NONSTOP* )
+    nonstop=true
+    ;;
+esac
+
+CLASSPATH=$APP_HOME/gradle/wrapper/gradle-wrapper.jar
+
+# Determine the Java command to use to start the JVM.
+if [ -n "$JAVA_HOME" ] ; then
+    if [ -x "$JAVA_HOME/jre/sh/java" ] ; then
+        # IBM's JDK on AIX uses strange locations for the executables
+        JAVACMD="$JAVA_HOME/jre/sh/java"
+    else
+        JAVACMD="$JAVA_HOME/bin/java"
+    fi
+    if [ ! -x "$JAVACMD" ] ; then
+        die "ERROR: JAVA_HOME is set to an invalid directory: $JAVA_HOME
+
+Please set the JAVA_HOME variable in your environment to match the
+location of your Java installation."
+    fi
+else
+    JAVACMD="java"
+    which java >/dev/null 2>&1 || die "ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
+
+Please set the JAVA_HOME variable in your environment to match the
+location of your Java installation."
+fi
+
+# Increase the maximum file descriptors if we can.
+if [ "$cygwin" = "false" -a "$darwin" = "false" -a "$nonstop" = "false" ] ; then
+    MAX_FD_LIMIT=`ulimit -H -n`
+    if [ $? -eq 0 ] ; then
+        if [ "$MAX_FD" = "maximum" -o "$MAX_FD" = "max" ] ; then
+            MAX_FD="$MAX_FD_LIMIT"
+        fi
+        ulimit -n $MAX_FD
+        if [ $? -ne 0 ] ; then
+            warn "Could not set maximum file descriptor limit: $MAX_FD"
+        fi
+    else
+        warn "Could not query maximum file descriptor limit: $MAX_FD_LIMIT"
+    fi
+fi
+
+# For Darwin, add options to specify how the application appears in the dock
+if $darwin; then
+    GRADLE_OPTS="$GRADLE_OPTS \"-Xdock:name=$APP_NAME\" \"-Xdock:icon=$APP_HOME/media/gradle.icns\""
+fi
+
+# For Cygwin or MSYS, switch paths to Windows format before running java
+if [ "$cygwin" = "true" -o "$msys" = "true" ] ; then
+    APP_HOME=`cygpath --path --mixed "$APP_HOME"`
+    CLASSPATH=`cygpath --path --mixed "$CLASSPATH"`
+    JAVACMD=`cygpath --unix "$JAVACMD"`
+
+    # We build the pattern for arguments to be converted via cygpath
+    ROOTDIRSRAW=`find -L / -maxdepth 1 -mindepth 1 -type d 2>/dev/null`
+    SEP=""
+    for dir in $ROOTDIRSRAW ; do
+        ROOTDIRS="$ROOTDIRS$SEP$dir"
+        SEP="|"
+    done
+    OURCYGPATTERN="(^($ROOTDIRS))"
+    # Add a user-defined pattern to the cygpath arguments
+    if [ "$GRADLE_CYGPATTERN" != "" ] ; then
+        OURCYGPATTERN="$OURCYGPATTERN|($GRADLE_CYGPATTERN)"
+    fi
+    # Now convert the arguments - kludge to limit ourselves to /bin/sh
+    i=0
+    for arg in "$@" ; do
+        CHECK=`echo "$arg"|egrep -c "$OURCYGPATTERN" -`
+        CHECK2=`echo "$arg"|egrep -c "^-"`                                 ### Determine if an option
+
+        if [ $CHECK -ne 0 ] && [ $CHECK2 -eq 0 ] ; then                    ### Added a condition
+            eval `echo args$i`=`cygpath --path --ignore --mixed "$arg"`
+        else
+            eval `echo args$i`="\"$arg\""
+        fi
+        i=$((i+1))
+    done
+    case $i in
+        (0) set -- ;;
+        (1) set -- "$args0" ;;
+        (2) set -- "$args0" "$args1" ;;
+        (3) set -- "$args0" "$args1" "$args2" ;;
+        (4) set -- "$args0" "$args1" "$args2" "$args3" ;;
+        (5) set -- "$args0" "$args1" "$args2" "$args3" "$args4" ;;
+        (6) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" ;;
+        (7) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" ;;
+        (8) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" ;;
+        (9) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" "$args8" ;;
+    esac
+fi
+
+# Escape application args
+save () {
+    for i do printf %s\\n "$i" | sed "s/'/'\\\\''/g;1s/^/'/;\$s/\$/' \\\\/" ; done
+    echo " "
+}
+APP_ARGS=$(save "$@")
+
+# Collect all arguments for the java command, following the shell quoting and substitution rules
+eval set -- $DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS "\"-Dorg.gradle.appname=$APP_BASE_NAME\"" -classpath "\"$CLASSPATH\"" org.gradle.wrapper.GradleWrapperMain "$APP_ARGS"
+
+# by default we should be in the correct project dir, but when run from Finder on Mac, the cwd is wrong
+if [ "$(uname)" = "Darwin" ] && [ "$HOME" = "$PWD" ]; then
+  cd "$(dirname "$0")"
+fi
+
+exec "$JAVACMD" "$@"

gradlew.bat

+@rem
+@rem Copyright 2015 the original author or authors.
+@rem
+@rem Licensed under the Apache License, Version 2.0 (the "License");
+@rem you may not use this file except in compliance with the License.
+@rem You may obtain a copy of the License at
+@rem
+@rem      https://www.apache.org/licenses/LICENSE-2.0
+@rem
+@rem Unless required by applicable law or agreed to in writing, software
+@rem distributed under the License is distributed on an "AS IS" BASIS,
+@rem WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+@rem See the License for the specific language governing permissions and
+@rem limitations under the License.
+@rem
+
+@if "%DEBUG%" == "" @echo off
+@rem ##########################################################################
+@rem
+@rem  Gradle startup script for Windows
+@rem
+@rem ##########################################################################
+
+@rem Set local scope for the variables with windows NT shell
+if "%OS%"=="Windows_NT" setlocal
+
+set DIRNAME=%~dp0
+if "%DIRNAME%" == "" set DIRNAME=.
+set APP_BASE_NAME=%~n0
+set APP_HOME=%DIRNAME%
+
+@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
+set DEFAULT_JVM_OPTS="-Xmx64m" "-Xms64m"
+
+@rem Find java.exe
+if defined JAVA_HOME goto findJavaFromJavaHome
+
+set JAVA_EXE=java.exe
+%JAVA_EXE% -version >NUL 2>&1
+if "%ERRORLEVEL%" == "0" goto init
+
+echo.
+echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
+echo.
+echo Please set the JAVA_HOME variable in your environment to match the
+echo location of your Java installation.
+
+goto fail
+
+:findJavaFromJavaHome
+set JAVA_HOME=%JAVA_HOME:"=%
+set JAVA_EXE=%JAVA_HOME%/bin/java.exe
+
+if exist "%JAVA_EXE%" goto init
+
+echo.
+echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME%
+echo.
+echo Please set the JAVA_HOME variable in your environment to match the
+echo location of your Java installation.
+
+goto fail
+
+:init
+@rem Get command-line arguments, handling Windows variants
+
+if not "%OS%" == "Windows_NT" goto win9xME_args
+
+:win9xME_args
+@rem Slurp the command line arguments.
+set CMD_LINE_ARGS=
+set _SKIP=2
+
+:win9xME_args_slurp
+if "x%~1" == "x" goto execute
+
+set CMD_LINE_ARGS=%*
+
+:execute
+@rem Setup the command line
+
+set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar
+
+@rem Execute Gradle
+"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %CMD_LINE_ARGS%
+
+:end
+@rem End local scope for the variables with windows NT shell
+if "%ERRORLEVEL%"=="0" goto mainEnd
+
+:fail
+rem Set variable GRADLE_EXIT_CONSOLE if you need the _script_ return code instead of
+rem the _cmd.exe /c_ return code!
+if  not "" == "%GRADLE_EXIT_CONSOLE%" exit 1
+exit /b 1
+
+:mainEnd
+if "%OS%"=="Windows_NT" endlocal
+
+:omega

settings.gradle

+rootProject.name = 'dme'

src/main/java/de/unibamberg/minf/dme/controller/exceptions/ControllerExceptionHandler.java

 package de.unibamberg.minf.dme.controller.exceptions;
 
-import javax.activity.InvalidActivityException;
 import javax.servlet.http.HttpServletRequest;
 
 import org.slf4j.Logger;
@@ -24,10 +23,6 @@ public class ControllerExceptionHandler {
 	public static final String DEFAULT_ERROR_VIEW = "error";
 
 	@ResponseStatus(HttpStatus.CONFLICT)  // 409
-    @ExceptionHandler(InvalidActivityException.class)
-    public void handleConflict() {
-        // Nothing to do, just to show how individual errors could be handled
-    }
 	
 	@ExceptionHandler(value = Exception.class)
 	public Object defaultErrorHandler(HttpServletRequest req, Exception e) throws Exception {