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Revision f1a25720

Added by Katja Luther over 6 years ago

  • ID f1a25720755daa96e8838a617a660dfced7b9f31
  • Parent 23e50194

first implementation for change from joda time to java8 time

View differences:

cdmlib-db/bin/.gitignore
1 
/target/
cdmlib-db/bin/LICENSE.TXT
1 
The contents of this file are subject to the Mozilla Public License
2 
Version 1.1 (the "License"); you may not use this file except in
3 
compliance with the License. You may obtain a copy of the License at
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http://www.mozilla.org/MPL/
5 

  		




  
  6
  
    
Software distributed under the License is distributed on an "AS IS"


  		




  
  7
  
    
basis, WITHOUT WARRANTY OF ANY KIND, either express or implied. See the


  		




  
  8
  
    
License for the specific language governing rights and limitations


  		




  
  9
  
    
under the License.


  		












  

    
      cdmlib-db/bin/README.TXT
    
  





  
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The project uses Maven3.


  		




  
  2
  
    

  		




  
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Please see http://dev.e-taxonomy.eu/trac/wiki/CdmLibrary for details on installation and usage


  		












  

    
      cdmlib-db/bin/pom.xml
    
  





  
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<?xml version="1.0" encoding="UTF-8"?>


  		




  
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<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">


  		




  
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  <parent>


  		




  
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    <groupId>eu.etaxonomy</groupId>


  		




  
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    <artifactId>cdmlib-parent</artifactId>


  		




  
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    <version>4.10.0-SNAPSHOT</version>


  		




  
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    <relativePath>../pom.xml</relativePath>


  		




  
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  </parent>


  		




  
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  <modelVersion>4.0.0</modelVersion>


  		




  
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  <artifactId>cdmlib-db</artifactId>


  		




  
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  <name>CDM Database Connectivity</name>


  		




  
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  <description>EDIT CDM database connectivity. Dependencies for database drivers and other database related libraries</description>


  		




  
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  <scm>


  		




  
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    <connection>scm:svn:http://dev.e-taxonomy.eu/svn/trunk/cdmlib/cdmlib-db/</connection>


  		




  
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    <developerConnection>scm:svn:http://dev.e-taxonomy.eu/svn/trunk/cdmlib/cdmlib-db/</developerConnection>


  		




  
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    <url>http://dev.e-taxonomy.eu/trac/browser/trunk/cdmlib/cdmlib-db/</url>


  		




  
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  </scm>


  		




  
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  <build>


  		




  
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    <plugins>


  		




  
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     </plugins>


  		




  
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  </build>


  		




  
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  <dependencies>


  		




  
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   <dependency>


  		




  
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      <groupId>com.mchange</groupId>


  		




  
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      <artifactId>c3p0</artifactId>


  		




  
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<!--       <version>0.9.5.2</version> -->


  		




  
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    </dependency>


  		




  
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    <dependency>


  		




  
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        <groupId>com.mchange</groupId>


  		




  
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        <artifactId>mchange-commons-java</artifactId>


  		




  
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        <!-- mchange-commons-java needs to match the version as defined in the c3p0/pom.xml -->


  		




  
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        <version>0.2.11</version>


  		




  
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    </dependency>


  		




  
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    <!-- ******* DATABASES DRIVER ******* -->


  		




  
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      <!-- 


  		




  
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            IMPORTANT:


  		




  
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            Any driver dependency listed here must be excluded from the 


  		




  
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            cdmlib-remote depedency in cdmlib-remote-webapp


  		




  
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       -->


  		




  
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    <!-- For using cdmlib-db in testing only, currently not in use -->


  		




  
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    <dependency>


  		




  
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      <groupId>org.hsqldb</groupId>


  		




  
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      <artifactId>hsqldb</artifactId>


  		




  
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<!--       <version>2.3.3</version> -->


  		




  
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      <scope>compile</scope>


  		




  
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    </dependency>


  		




  
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    <!-- Database drivers -->


  		




  
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    <dependency>


  		




  
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      <groupId>mysql</groupId>


  		




  
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      <artifactId>mysql-connector-java</artifactId>


  		




  
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<!-- 	  <version>5.1.38</version> -->


  		




  
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    </dependency>


  		




  
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    <dependency>


  		




  
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      <groupId>org.postgresql</groupId>


  		




  
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      <artifactId>postgresql</artifactId>


  		




  
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<!-- 	  <version>9.4-1206-jdbc4</version> -->


  		




  
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    </dependency>


  		




  
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    <dependency>


  		




  
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      <groupId>com.h2database</groupId>


  		




  
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      <artifactId>h2</artifactId>


  		




  
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<!--       <version>1.4.190</version> -->


  		




  
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    </dependency>


  		




  
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    <!--for sqlserver2008 and sqlserver2005 and probably higher-->


  		




  
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    <dependency>


  		




  
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      <groupId>com.microsoft.sqlserver</groupId>


  		




  
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      <artifactId>jdbc4</artifactId>


  		




  
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<!--       <version>2.0</version> -->


  		




  
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    </dependency>


  		




  
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    <!-- SQL Server and Sybase -->


  		




  
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    <dependency>


  		




  
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      <groupId>net.sourceforge.jtds</groupId>


  		




  
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      <artifactId>jtds</artifactId>


  		




  
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<!-- 	  <version>1.3.1</version> -->


  		




  
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    </dependency>


  		




  
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    <!-- Oracle -->	


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>oracle</groupId> -->


  		




  
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<!--       <artifactId>ojdbc14</artifactId> -->


  		




  
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<!--       <version>10.2.0.4.0</version> -->


  		




  
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<!--     </dependency> -->


  		




  
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    <!-- <dependency>


  		




  
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		<groupId>ojdbc</groupId>


  		




  
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		<artifactId>ojdbc</artifactId>


  		




  
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		<version>14</version>


  		




  
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	</dependency>   -->


  		




  
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  </dependencies>


  		




  
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</project>


  		












  

    
      cdmlib-ext/bin/LICENSE.TXT
    
  





  
  1
  
    
The contents of this file are subject to the Mozilla Public License


  		




  
  2
  
    
Version 1.1 (the "License"); you may not use this file except in


  		




  
  3
  
    
compliance with the License. You may obtain a copy of the License at


  		




  
  4
  
    
http://www.mozilla.org/MPL/


  		




  
  5
  
    

  		




  
  6
  
    
Software distributed under the License is distributed on an "AS IS"


  		




  
  7
  
    
basis, WITHOUT WARRANTY OF ANY KIND, either express or implied. See the


  		




  
  8
  
    
License for the specific language governing rights and limitations


  		




  
  9
  
    
under the License.


  		












  

    
      cdmlib-ext/bin/README.TXT
    
  





  
  1
  
    
The project uses Maven2 and AspectJ.


  		




  
  2
  
    

  		




  
  3
  
    
Please see http://dev.e-taxonomy.eu/trac/wiki/CdmLibrary for details on installation and usage


  		












  

    
      cdmlib-ext/bin/pom.xml
    
  





  
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<?xml version="1.0" encoding="UTF-8"?>


  		




  
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<project xmlns="http://maven.apache.org/POM/4.0.0" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd">


  		




  
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  <!--


  		




  
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    xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/maven-v4_0_0.xsd"


  		




  
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   -->


  		




  
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	<parent>


  		




  
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	    <groupId>eu.etaxonomy</groupId>


  		




  
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	    <artifactId>cdmlib-parent</artifactId>


  		




  
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	    <version>4.10.0-SNAPSHOT</version>


  		




  
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	    <relativePath>../pom.xml</relativePath>


  		




  
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	</parent>


  		




  
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  <modelVersion>4.0.0</modelVersion>


  		




  
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  <artifactId>cdmlib-ext</artifactId>


  		




  
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  <name>CDM External</name>


  		




  
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  <description>EDIT CDM library external services. Module for handling requests to non CDM library services like the EDIT geoservice.</description>


  		




  
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  <scm>


  		




  
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    <connection>scm:svn:http://dev.e-taxonomy.eu/svn/trunk/cdmlib/cdmlib-extern/</connection>


  		




  
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    <developerConnection>scm:svn:http://dev.e-taxonomy.eu/svn/trunk/cdmlib/cdmlib-extern/</developerConnection>


  		




  
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    <url>http://dev.e-taxonomy.eu/trac/browser/trunk/cdmlib/cdmlib-extern/</url>


  		




  
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  </scm>


  		




  
  22
  
    

  		




  
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  <dependencies>


  		




  
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 	<dependency>


  		




  
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  		<groupId>eu.etaxonomy</groupId>


  		




  
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  		<artifactId>cdmlib-services</artifactId>


  		




  
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  	</dependency>


  		




  
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    <dependency>


  		




  
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        <groupId>eu.etaxonomy</groupId>


  		




  
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        <artifactId>cdmlib-test</artifactId>


  		




  
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        <scope>test</scope>


  		




  
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        <version>${project.version}</version>


  		




  
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    </dependency>


  		




  
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<!--   	<dependency> -->


  		




  
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<!--   		<groupId>eu.etaxonomy</groupId> -->


  		




  
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<!--   		<artifactId>cdmlib-persistence</artifactId> -->


  		




  
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<!--   		<type>test-jar</type> -->


  		




  
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<!--   		<scope>test</scope> -->


  		




  
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<!--   		<version>${project.version}</version> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-core</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     probably most unitils dependencies can be deleted from here -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-database</artifactId> -->


  		




  
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<!--       <exclusions> -->


  		




  
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<!--       	<exclusion> -->


  		




  
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<!--       		<groupId>commons-dbcp</groupId> -->


  		




  
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<!--       		<artifactId>commons-dbcp</artifactId> -->


  		




  
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<!--       	</exclusion> -->


  		




  
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<!--       </exclusions> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-dbmaintainer</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-dbunit</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--      <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-easymock</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-mock</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-inject</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--      <dependency> -->


  		




  
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<!--       <groupId>org.unitils</groupId> -->


  		




  
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<!--       <artifactId>unitils-spring</artifactId> -->


  		




  
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<!--       <scope>test</scope> -->


  		




  
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<!--     </dependency> -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>org.dbunit</groupId> -->


  		




  
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<!--       <artifactId>dbunit</artifactId> -->


  		




  
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<!--     </dependency>  -->


  		




  
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<!--     <dependency> -->


  		




  
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<!--       <groupId>xmlunit</groupId> -->


  		




  
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<!--       <artifactId>xmlunit</artifactId> -->


  		




  
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<!--   	</dependency> -->


  		




  
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    <dependency>


  		




  
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	    <groupId>org.apache.httpcomponents</groupId>


  		




  
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	    <artifactId>httpclient</artifactId>


  		




  
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	</dependency>


  		




  
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	<dependency>


  		




  
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        <groupId>net.sf.json-lib</groupId>


  		




  
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        <artifactId>json-lib</artifactId>


  		




  
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		<classifier>jdk15</classifier>


  		




  
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    </dependency>


  		




  
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    <dependency>


  		




  
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        <groupId>com.fasterxml.jackson.core</groupId>


  		




  
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        <artifactId>jackson-databind</artifactId>


  		




  
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    </dependency>


  		




  
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	<dependency>


  		




  
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        <groupId>net.sf.ezmorph</groupId>


  		




  
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        <artifactId>ezmorph</artifactId>


  		




  
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    </dependency>


  		




  
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    <dependency>


  		




  
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        <groupId>commons-io</groupId>


  		




  
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        <artifactId>commons-io</artifactId>


  		




  
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    </dependency>


  		




  
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  </dependencies>


  		




  
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</project>


  		




  
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      cdmlib-ext/bin/src/main/resources/eu/etaxonomy/cdm/ext/geo/mapServices_v10.xsd
    
  





  
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<?xml version="1.0" encoding="UTF-8"?>


  		




  
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<!-- Mit XMLSpy v2011 sp1 (http://www.altova.com) von Andreas Müller (BGBM) bearbeitet -->


  		




  
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<xs:schema xmlns:xs="http://www.w3.org/2001/XMLSchema" elementFormDefault="qualified" attributeFormDefault="unqualified">


  		




  
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	<xs:element name="mapService">


  		




  
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		<xs:annotation>


  		




  
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			<xs:documentation>Map service. If type is wms the uri attribute is required and points to the wms service to use. If type is editMapService the uri should be the uri of the edit map services (optional).</xs:documentation>


  		




  
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		</xs:annotation>


  		




  
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		<xs:complexType>


  		




  
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			<xs:sequence>


  		




  
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				<xs:element name="area" maxOccurs="unbounded">


  		




  
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					<xs:complexType>


  		




  
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						<xs:sequence>


  		




  
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							<xs:element name="layer"/>


  		




  
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							<xs:element name="field"/>


  		




  
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							<xs:element name="value" maxOccurs="unbounded"/>


  		




  
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						</xs:sequence>


  		




  
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					</xs:complexType>


  		




  
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				</xs:element>


  		




  
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			</xs:sequence>


  		




  
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			<xs:attribute name="type" use="required">


  		




  
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				<xs:simpleType>


  		




  
  22
  
    
					<xs:restriction base="xs:string">


  		




  
  23
  
    
						<xs:enumeration value="editMapService"/>


  		




  
  24
  
    
						<xs:enumeration value="wms"/>


  		




  
  25
  
    
					</xs:restriction>


  		




  
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				</xs:simpleType>


  		




  
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			</xs:attribute>


  		




  
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			<xs:attribute name="uri"/>


  		




  
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		</xs:complexType>


  		




  
  30
  
    
	</xs:element>


  		




  
  31
  
    
</xs:schema>


  		












  

    
      cdmlib-ext/bin/src/main/resources/eu/etaxonomy/cdm/httpInvokerExtServices.xml
    
  





  
  1
  
    
<?xml version="1.0" encoding="UTF-8"?>


  		




  
  2
  
    
<beans xmlns="http://www.springframework.org/schema/beans"


  		




  
  3
  
    
  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:context="http://www.springframework.org/schema/context"


  		




  
  4
  
    
  xmlns:tx="http://www.springframework.org/schema/tx"


  		




  
  5
  
    
  xsi:schemaLocation="http://www.springframework.org/schema/beans 


  		




  
  6
  
    
    http://www.springframework.org/schema/beans/spring-beans-2.5.xsd


  		




  
  7
  
    
    http://www.springframework.org/schema/context http://www.springframework.org/schema/context/spring-context-2.5.xsd


  		




  
  8
  
    
    http://www.springframework.org/schema/tx http://www.springframework.org/schema/tx/spring-tx-2.5.xsd


  		




  
  9
  
    
    ">


  		




  
  10
  
    

  		




  
  11
  
    
  <!-- The beans for the implementation classes are declared with the @Service 


  		




  
  12
  
    
    annotation. See EditGeoService for an example. -->


  		




  
  13
  
    

  		




  
  14
  
    
  <bean id="httpEditGeoService"


  		




  
  15
  
    
    class="org.springframework.remoting.httpinvoker.HttpInvokerServiceExporter">


  		




  
  16
  
    
    <property name="service">


  		




  
  17
  
    
      <ref bean="editGeoService" />


  		




  
  18
  
    
    </property>


  		




  
  19
  
    
    <property name="serviceInterface">


  		




  
  20
  
    
      <value>eu.etaxonomy.cdm.ext.geo.IEditGeoService</value>


  		




  
  21
  
    
    </property>


  		




  
  22
  
    
  </bean>


  		




  
  23
  
    
  


  		




  
  24
  
    
</beans>


  		












  

    
      cdmlib-ext/bin/src/test/resources/eu/etaxonomy/cdm/applicationContext-test.xml
    
  





  
  1
  
    
<?xml version="1.0" encoding="UTF-8"?>


  		




  
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<beans xmlns="http://www.springframework.org/schema/beans"


  		




  
  3
  
    
	xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"


  		




  
  4
  
    
	xmlns:context="http://www.springframework.org/schema/context"


  		




  
  5
  
    
	xsi:schemaLocation="http://www.springframework.org/schema/beans


  		




  
  6
  
    
    http://www.springframework.org/schema/beans/spring-beans-4.0.xsd


  		




  
  7
  
    
    http://www.springframework.org/schema/context


  		




  
  8
  
    
    http://www.springframework.org/schema/context/spring-context-4.0.xsd">


  		




  
  9
  
    

  		




  
  10
  
    
    <!-- This application can definetly still be adapted to the new structure.


  		




  
  11
  
    
    However currently it is only used the EditGeoServiceTest and works, so for now


  		




  
  12
  
    
    we don't touch it -->


  		




  
  13
  
    
    


  		




  
  14
  
    
    <import resource="classpath:/eu/etaxonomy/cdm/defaultApplicationContext.xml"/>


  		




  
  15
  
    

  		




  
  16
  
    
	<context:component-scan base-package="eu/etaxonomy/cdm/ext"/>


  		




  
  17
  
    

  		




  
  18
  
    
    <bean id="dataSource" class="org.unitils.database.UnitilsDataSourceFactoryBean"/>


  		




  
  19
  
    

  		




  
  20
  
    
    <!--


  		




  
  21
  
    
    <bean id="testingTermInitializer" class="eu.etaxonomy.cdm.database.TestingTermInitializer">


  		




  
  22
  
    
            TermsDataSet-with_auditing_info.cdmlib-services.xml has different IDs than TermsDataSet-with_auditing_info.xml


  		




  
  23
  
    
            which is used in persistence !!


  		




  
  24
  
    
        <property name="termsDataSet" value="classpath:/eu/etaxonomy/cdm/database/TermsDataSet-with_auditing_info.cdmlib-services.xml"/>


  		




  
  25
  
    
        <property name="termsDtd" value="classpath:/eu/etaxonomy/cdm/persistence/dao/hibernate/dataset.dtd"/>


  		




  
  26
  
    
        <property name="omit" value="false"/>


  		




  
  27
  
    
    </bean>


  		




  
  28
  
    
    <bean id="persistentTermInitializer" class="eu.etaxonomy.cdm.database.PersistentTermInitializer">


  		




  
  29
  
    
        <property name="omit" value="true"/>


  		




  
  30
  
    
    </bean>


  		




  
  31
  
    
    -->


  		




  
  32
  
    

  		




  
  33
  
    
     <bean id="hibernateProperties"


  		




  
  34
  
    
            class="org.springframework.beans.factory.config.PropertiesFactoryBean">


  		




  
  35
  
    
            <property name="properties">


  		




  
  36
  
    
                <props>


  		




  
  37
  
    
                    <prop key="hibernate.cache.region.factory_class">org.hibernate.cache.internal.NoCachingRegionFactory</prop>


  		




  
  38
  
    
                    <prop key="hibernate.show_sql">false</prop>


  		




  
  39
  
    
                    <prop key="hibernate.format_sql">false</prop>


  		




  
  40
  
    
                    <prop key="hibernate.search.default.directory_provider">org.hibernate.search.store.impl.FSDirectoryProvider</prop>


  		




  
  41
  
    
                    <!-- TODO trying to use a managed session context


  		




  
  42
  
    
                    <prop key="hibernate.current_session_context_class">managed</prop>


  		




  
  43
  
    
                    -->


  		




  
  44
  
    
                    <prop key="hibernate.search.default.indexBase">./target/index</prop>


  		




  
  45
  
    
                    <!--  hibernate.search.default.exclusive_index_use=false


  		




  
  46
  
    
                          locks must not only be released after application shutdown in test environment -->


  		




  
  47
  
    
                    <prop key="hibernate.search.default.exclusive_index_use">false</prop>


  		




  
  48
  
    
                    <!-- hsqldb v. <1.9 has a bug (http://sourceforge.net/tracker/?func=detail&atid=378131&aid=1407528&group_id=23316)


  		




  
  49
  
    
                        due to which it is not possible to use batch updates, so we need to disable


  		




  
  50
  
    
                        hibernate batching when using hsqldb in the app context: -->


  		




  
  51
  
    
                    <prop key="hibernate.jdbc.batch_size">0</prop>


  		




  
  52
  
    
                </props>


  		




  
  53
  
    
            </property>


  		




  
  54
  
    
    </bean>


  		




  
  55
  
    

  		




  
  56
  
    
</beans>


  		












  

    
      cdmlib-ext/bin/src/test/resources/eu/etaxonomy/cdm/ext/geo/EditGeoServiceTest.getDistributionServiceRequestParameterString.xml
    
  





  
  1
  
    
<?xml version='1.0' encoding='UTF-8'?>


  		




  
  2
  
    
<dataset>


  		




  
  3
  
    
  <TAXONBASE DTYPE="Taxon" ID="10" CREATED="2015-12-18 09:29:42.0" UUID="7598f5d4-1cf2-4269-ae99-2adb79ae167c" UPDATED="[null]" LSID_AUTHORITY="[null]" LSID_LSID="[null]" LSID_NAMESPACE="[null]" LSID_OBJECT="[null]" LSID_REVISION="[null]" PROTECTEDTITLECACHE="true" TITLECACHE="Dummy taxon" APPENDEDPHRASE="[null]" DOUBTFUL="false" PUBLISH="true" USENAMECACHE="false" TAXONSTATUSUNKNOWN="false" CREATEDBY_ID="[null]" UPDATEDBY_ID="[null]" NAME_ID="[null]" SEC_ID="[null]"/>


  		




  
  4
  
    
  <DESCRIPTIONBASE DTYPE="TaxonDescription" ID="10" CREATED="2015-12-18 09:29:42.0" UUID="9c362630-08ef-4e2f-95d8-57b1cebd1197" UPDATED="[null]" LSID_AUTHORITY="[null]" LSID_LSID="[null]" LSID_NAMESPACE="[null]" LSID_OBJECT="[null]" LSID_REVISION="[null]" PROTECTEDTITLECACHE="false" TITLECACHE="Taxon description for Dummy taxon" IMAGEGALLERY="false" ISDEFAULT="false" CREATEDBY_ID="[null]" UPDATEDBY_ID="[null]" SPECIMEN_ID="[null]" TAXON_ID="10" TAXONNAME_ID="[null]"/>


  		




  
  5
  
    
  <DESCRIPTIONELEMENTBASE DTYPE="Distribution" ID="10" CREATED="2015-12-18 09:29:42.0" UUID="43b69cdb-ef08-41b2-9f25-32dce86e260d" UPDATED="[null]" NAME="[null]" TIMEPERIOD_START="[null]" TIMEPERIOD_END="[null]" TIMEPERIOD_FREETEXT="[null]" ORDERRELEVANT="[null]" UNKNOWNDATA="[null]" CREATEDBY_ID="[null]" UPDATEDBY_ID="[null]" FEATURE_ID="986" INDESCRIPTION_ID="10" AREA_ID="572" LANGUAGE_ID="[null]" STATUS_ID="[null]" ASSOCIATEDSPECIMENOROBSERVATION_ID="[null]" UNIT_ID="[null]" TAXON2_ID="[null]" FORMAT_ID="[null]"/>


  		




  
  6
  
    
  <DESCRIPTIONELEMENTBASE DTYPE="Distribution" ID="11" CREATED="2015-12-18 09:29:42.0" UUID="285562d2-0fd3-4e6e-a83c-c65bb2eb9085" UPDATED="[null]" NAME="[null]" TIMEPERIOD_START="[null]" TIMEPERIOD_END="[null]" TIMEPERIOD_FREETEXT="[null]" ORDERRELEVANT="[null]" UNKNOWNDATA="[null]" CREATEDBY_ID="[null]" UPDATEDBY_ID="[null]" FEATURE_ID="986" INDESCRIPTION_ID="10" AREA_ID="537" LANGUAGE_ID="[null]" STATUS_ID="[null]" ASSOCIATEDSPECIMENOROBSERVATION_ID="[null]" UNIT_ID="[null]" TAXON2_ID="[null]" FORMAT_ID="[null]"/>


  		




  
  7
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="CdmMetaData" NEXT_VAL="30"/>


  		




  
  8
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="DefinedTermBase" NEXT_VAL="2190"/>


  		




  
  9
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="DescriptionBase" NEXT_VAL="30"/>


  		




  
  10
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="DescriptionElementBase" NEXT_VAL="30"/>


  		




  
  11
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="GrantedAuthorityImpl" NEXT_VAL="40"/>


  		




  
  12
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="PermissionGroup" NEXT_VAL="30"/>


  		




  
  13
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="Representation" NEXT_VAL="2290"/>


  		




  
  14
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="TaxonBase" NEXT_VAL="30"/>


  		




  
  15
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="TermVocabulary" NEXT_VAL="70"/>


  		




  
  16
  
    
  <HIBERNATE_SEQUENCES SEQUENCE_NAME="UserAccount" NEXT_VAL="30"/>


  		




  
  17
  
    
</dataset>


  		












  

    
      cdmlib-ext/bin/src/test/resources/eu/etaxonomy/cdm/ext/geo/cyprusdivs.csv
    
  





  
  1
  
    
bdcode,bddescript,bdarea


  		




  
  2
  
    
                  1,cyprus_zone_1,                  0


  		




  
  3
  
    
                  2,cyprus_zone_2,                  0


  		




  
  4
  
    
                  3,cyprus_zone_3,                  0


  		




  
  5
  
    
                  4,cyprus_zone_4,                  0


  		




  
  6
  
    
                  5,cyprus_zone_5,                  0


  		




  
  7
  
    
                  6,cyprus_zone_6,                  0


  		




  
  8
  
    
                  7,cyprus_zone_7,                  0


  		




  
  9
  
    
                  8,cyprus_zone_8,                  0


  		












  

    
      cdmlib-ext/bin/src/test/resources/log4j.properties
    
  





  
  1
  
    
### ************ APPENDER ***********************************###


  		




  
  2
  
    

  		




  
  3
  
    
### direct log messages to stdout ###


  		




  
  4
  
    
log4j.appender.stdout=org.apache.log4j.ConsoleAppender


  		




  
  5
  
    
log4j.appender.stdout.Target=System.out


  		




  
  6
  
    
log4j.appender.stdout.layout=org.apache.log4j.PatternLayout


  		




  
  7
  
    
log4j.appender.stdout.layout.ConversionPattern=%d{ABSOLUTE} %5p %c{1}:%L - %m%n


  		




  
  8
  
    

  		




  
  9
  
    
### direct messages to file hibernate.log ###


  		




  
  10
  
    
log4j.appender.file=org.apache.log4j.FileAppender


  		




  
  11
  
    
log4j.appender.file.File=hibernate.log


  		




  
  12
  
    
log4j.appender.file.layout=org.apache.log4j.PatternLayout


  		




  
  13
  
    
log4j.appender.file.layout.ConversionPattern=%d{ABSOLUTE} %5p %c{1}:%L - %m%n


  		




  
  14
  
    

  		




  
  15
  
    

  		




  
  16
  
    
### ************* LOG LEVELS *********************************###


  		




  
  17
  
    

  		




  
  18
  
    
### set log levels - for more verbose logging change 'info' to 'debug' ###


  		




  
  19
  
    

  		




  
  20
  
    
log4j.rootLogger=warn, stdout, file


  		




  
  21
  
    

  		




  
  22
  
    
### *** CDM *** ###


  		




  
  23
  
    
log4j.logger.eu.etaxonomy.cdm = info


  		




  
  24
  
    
log4j.logger.eu.etaxonomy.cdm.database.init = warn


  		




  
  25
  
    
#


  		




  
  26
  
    
log4j.logger.eu.etaxonomy.cdm.model.common.init = warn


  		




  
  27
  
    
#


  		




  
  28
  
    
log4j.logger.eu.etaxonomy.cdm.test.integration = info


  		




  
  29
  
    
log4j.logger.eu.etaxonomy.cdm.api.application = warn


  		




  
  30
  
    
log4j.logger.eu.etaxonomy.cdm.api.service = info


  		




  
  31
  
    
#log4j.logger.eu.etaxonomy.cdm.database.VocabularyStoreImpl = warn


  		




  
  32
  
    
log4j.logger.eu.etaxonomy.cdm.database = warn


  		




  
  33
  
    
log4j.logger.eu.etaxonomy.cdm.persistence.dao.hibernate.common = warn


  		




  
  34
  
    
log4j.logger.eu.etaxonomy.cdm.ext = info


  		




  
  35
  
    

  		




  
  36
  
    

  		




  
  37
  
    

  		




  
  38
  
    
### *** SPRING ************ ###


  		




  
  39
  
    
log4j.logger.org.springframework.transaction = warn


  		




  
  40
  
    
log4j.logger.org.hibernate.engine.LoadContexts = warn


  		




  
  41
  
    
log4j.logger.org.springframework.orm.hibernate5.SessionFactoryUtils = warn


  		




  
  42
  
    
log4j.logger.org.springframework.orm.hibernate5 = warn


  		




  
  43
  
    
log4j.logger.org.springframework.FileSystemXmlApplicationContext = warn;


  		




  
  44
  
    
log4j.logger.org.springframework.core.io.support = warn


  		




  
  45
  
    

  		




  
  46
  
    

  		




  
  47
  
    
### ***HIBERNATE ************ ###


  		




  
  48
  
    
log4j.logger.org.hibernate=warn


  		




  
  49
  
    
log4j.logger.org.hibernate.orm.deprecation = error


  		




  
  50
  
    

  		




  
  51
  
    
### No warnings as thrown by SQLServer


  		




  
  52
  
    
###log4j.logger.org.hibernate.cfg = warn


  		




  
  53
  
    

  		




  
  54
  
    
### No warnings as thrown by SQLServer


  		




  
  55
  
    
log4j.logger.org.hibernate.util.JDBCExceptionReporter = error


  		




  
  56
  
    

  		




  
  57
  
    
### log HQL query parser activity


  		




  
  58
  
    
#log4j.logger.org.hibernate.hql.ast.AST=debug


  		




  
  59
  
    

  		




  
  60
  
    
### log just the SQL


  		




  
  61
  
    
log4j.logger.org.hibernate.SQL=warn


  		




  
  62
  
    

  		




  
  63
  
    
### log JDBC bind parameters ###


  		




  
  64
  
    
log4j.logger.org.hibernate.type=warn


  		




  
  65
  
    

  		




  
  66
  
    
### log schema export/update ###


  		




  
  67
  
    
log4j.logger.org.hibernate.tool.hbm2ddl=warn


  		




  
  68
  
    

  		




  
  69
  
    
### log HQL parse trees


  		




  
  70
  
    
log4j.logger.org.hibernate.hql=warn


  		




  
  71
  
    
log4j.logger.org.hibernate.hql.ast=warn


  		




  
  72
  
    

  		




  
  73
  
    
### log cache activity ###


  		




  
  74
  
    
#log4j.logger.org.hibernate.cache=debug


  		




  
  75
  
    

  		




  
  76
  
    
### log transaction activity


  		




  
  77
  
    
#log4j.logger.org.hibernate.transaction=debug


  		




  
  78
  
    

  		




  
  79
  
    
### log JDBC resource acquisition


  		




  
  80
  
    
log4j.logger.org.hibernate.jdbc=info


  		




  
  81
  
    

  		




  
  82
  
    
### avoid warnings about inappropriate Annotations ###


  		




  
  83
  
    
# TODO remove the below two line after updating to hibernate 4.x


  		




  
  84
  
    
log4j.logger.org.hibernate.search.engine.DocumentBuilderContainedEntity=error


  		




  
  85
  
    
log4j.logger.org.hibernate.search.impl.SearchFactoryImpl=error


  		




  
  86
  
    

  		




  
  87
  
    
### enable the following line if you want to track down connection ###


  		




  
  88
  
    
### leakages when using DriverManagerConnectionProvider ###


  		




  
  89
  
    
#log4j.logger.org.hibernate.connection.DriverManagerConnectionProvider=trace


  		




  
  90
  
    

  		




  
  91
  
    
### log dbUnit data loading


  		




  
  92
  
    
log4j.appender.org.unitils=info


  		




  
  93
  
    
#log4j.appender.org.unitils.dbunit=debug


  		




  
  94
  
    
log4j.appender.org.dbunit=info


  		




  
  95
  
    
#log4j.appender.org.dbunit.database.statement=debug


  		




  
  96
  
    
#log4j.appender.org.dbunit.database.DatabaseConfig=trace


  		




  
  97
  
    

  		




  
  98
  
    

  		




  
  99
  
    
   ### *** Profiling Logger ************ ###


  		




  
  100
  
    

  		




  
  101
  
    
#log4j.logger.org.springframework.aop.interceptor.PerformanceMonitorInterceptor=TRACE, profiling


  		




  
  102
  
    
### Profiling output


  		




  
  103
  
    
#log4j.appender.profiling=org.apache.log4j.RollingFileAppender


  		




  
  104
  
    
#log4j.appender.profiling.File=profiling.log


  		




  
  105
  
    
#log4j.appender.profiling.MaxFileSize=1024KB


  		




  
  106
  
    
#log4j.appender.profiling.MaxBackupIndex=1


  		




  
  107
  
    
#log4j.appender.profiling.layout=org.apache.log4j.PatternLayout


  		




  
  108
  
    
#log4j.appender.profiling.layout.conversionPattern=%d,%p,%m%n


  		




  
  109
  
    

  		












  

    
      cdmlib-io/.gitignore
    
  





  
  1
  
    
/bin/


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/ImportConfiguratorBase.java
    
  





  10
  10
  
    
package eu.etaxonomy.cdm.io.common;


  		




  11
  11
  
    

  		




  12
  12
  
    
import java.lang.reflect.Method;


  		




  
  13
  
    
import java.time.ZonedDateTime;


  		




  
  14
  
    
import java.time.format.DateTimeFormatter;


  		




  13
  15
  
    
import java.util.HashMap;


  		




  14
  16
  
    
import java.util.List;


  		




  15
  17
  
    
import java.util.Map;


  		




  16
  18
  
    
import java.util.UUID;


  		




  17
  19
  
    

  		




  18
  
  
    
import org.joda.time.DateTime;


  		




  19
  
  
    
import org.joda.time.format.DateTimeFormat;


  		




  20
  
  
    
import org.joda.time.format.DateTimeFormatter;


  		




  21
  20
  
    
import org.springframework.security.authentication.UsernamePasswordAuthenticationToken;


  		




  22
  21
  
    
import org.springframework.stereotype.Component;


  		




  23
  22
  
    

  		




  ......




  419
  418
  
    
    }


  		




  420
  419
  
    

  		




  421
  420
  
    

  		




  422
  
  
    
    private static final DateTimeFormatter formatter = DateTimeFormat.forPattern("YYYY-MM-dd");


  		




  
  421
  
    
    private static final DateTimeFormatter formatter = DateTimeFormatter.ofPattern("YYYY-MM-dd");


  		




  423
  422
  
    

  		




  424
  423
  
    
    protected String getDateString(){


  		




  425
  
  
    
        return formatter.print(new DateTime());


  		




  
  424
  
    
        return ZonedDateTime.now().format(formatter);


  		




  
  425
  
    

  		




  426
  426
  
    
    }


  		




  427
  427
  
    

  		




  428
  428
  
    
    /**


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/PartitionerProfiler.java
    
  





  1
  1
  
    
/**


  		




  2
  2
  
    
* Copyright (C) 2007 EDIT


  		




  3
  
  
    
* European Distributed Institute of Taxonomy 


  		




  
  3
  
    
* European Distributed Institute of Taxonomy


  		




  4
  4
  
    
* http://www.e-taxonomy.eu


  		




  5
  
  
    
* 


  		




  
  5
  
    
*


  		




  6
  6
  
    
* The contents of this file are subject to the Mozilla Public License Version 1.1


  		




  7
  7
  
    
* See LICENSE.TXT at the top of this package for the full license terms.


  		




  8
  8
  
    
*/


  		




  9
  9
  
    

  		




  10
  10
  
    
package eu.etaxonomy.cdm.io.common;


  		




  11
  11
  
    

  		




  
  12
  
    
import java.time.Duration;


  		




  
  13
  
    
import java.time.ZonedDateTime;


  		




  
  14
  
    

  		




  12
  15
  
    
import org.apache.log4j.Logger;


  		




  13
  
  
    
import org.joda.time.DateTime;


  		




  14
  
  
    
import org.joda.time.Duration;


  		




  15
  
  
    
import org.joda.time.ReadableDuration;


  		




  
  16
  
    

  		




  16
  17
  
    

  		




  17
  18
  
    

  		




  18
  19
  
    
/**


  		




  ......




  22
  23
  
    
 */


  		




  23
  24
  
    
public class PartitionerProfiler {


  		




  24
  25
  
    
	private static final Logger logger = Logger.getLogger(PartitionerProfiler.class);


  		




  25
  
  
    
	


  		




  
  26
  
    

  		




  26
  27
  
    
	ResultSetPartitioner partitioner;


  		




  27
  
  
    
	


  		




  28
  
  
    
	DateTime startTx = new DateTime();


  		




  29
  
  
    
	DateTime startRs = new DateTime();


  		




  30
  
  
    
	DateTime startRelObjects = new DateTime();


  		




  31
  
  
    
	DateTime startRS2 = new DateTime();


  		




  32
  
  
    
	DateTime startDoPartition = new DateTime();


  		




  33
  
  
    
	DateTime startDoSave = new DateTime();


  		




  34
  
  
    
	DateTime startDoCommit = new DateTime();


  		




  35
  
  
    
	DateTime end = new DateTime();


  		




  36
  
  
    

  		




  37
  
  
    
	private Duration durTxStartAll = new Duration(0, 0);


  		




  38
  
  
    
	private Duration durPartitionRs1All= new Duration(0, 0);


  		




  39
  
  
    
	private Duration durRelObjectsAll = new Duration(0, 0);


  		




  40
  
  
    
	private Duration durPartitionRs2All =new Duration(0, 0);


  		




  41
  
  
    
	private Duration durPartitionAll = new Duration(0, 0);


  		




  42
  
  
    
	private Duration durTxCommitAll = new Duration(0, 0);


  		




  43
  
  
    
	private Duration durSaveAll = new Duration(0, 0);


  		




  44
  
  
    

  		




  45
  
  
    
	


  		




  46
  
  
    
	private ReadableDuration durTxStartSingle;


  		




  47
  
  
    
	private ReadableDuration durPartitionRs1Single;


  		




  48
  
  
    
	private ReadableDuration durRelObjectsSingle;


  		




  49
  
  
    
	private ReadableDuration durPartitionRs2Single;


  		




  50
  
  
    
	private ReadableDuration durPartitionSingle;


  		




  51
  
  
    
	private ReadableDuration durSaveSingle;


  		




  52
  
  
    
	private ReadableDuration durTxCommitSingle;


  		




  
  28
  
    

  		




  
  29
  
    
	ZonedDateTime startTx = ZonedDateTime.now();


  		




  
  30
  
    
	ZonedDateTime startRs = ZonedDateTime.now();


  		




  
  31
  
    
	ZonedDateTime startRelObjects = ZonedDateTime.now();


  		




  
  32
  
    
	ZonedDateTime startRS2 = ZonedDateTime.now();


  		




  
  33
  
    
	ZonedDateTime startDoPartition = ZonedDateTime.now();


  		




  
  34
  
    
	ZonedDateTime startDoSave = ZonedDateTime.now();


  		




  
  35
  
    
	ZonedDateTime startDoCommit = ZonedDateTime.now();


  		




  
  36
  
    
	ZonedDateTime end = ZonedDateTime.now();


  		




  
  37
  
    

  		




  
  38
  
    
	private Duration durTxStartAll =Duration.ofMinutes(0);


  		




  
  39
  
    
	private Duration durPartitionRs1All= Duration.ofMinutes(0);


  		




  
  40
  
    
	private Duration durRelObjectsAll = Duration.ofMinutes(0);


  		




  
  41
  
    
	private Duration durPartitionRs2All =Duration.ofMinutes(0);


  		




  
  42
  
    
	private Duration durPartitionAll = Duration.ofMinutes(0);


  		




  
  43
  
    
	private Duration durTxCommitAll = Duration.ofMinutes(0);


  		




  
  44
  
    
	private Duration durSaveAll = Duration.ofMinutes(0);


  		




  
  45
  
    

  		




  
  46
  
    

  		




  
  47
  
    
	private Duration durTxStartSingle;


  		




  
  48
  
    
	private Duration durPartitionRs1Single;


  		




  
  49
  
    
	private Duration durRelObjectsSingle;


  		




  
  50
  
    
	private Duration durPartitionRs2Single;


  		




  
  51
  
    
	private Duration durPartitionSingle;


  		




  
  52
  
    
	private Duration durSaveSingle;


  		




  
  53
  
    
	private Duration durTxCommitSingle;


  		




  53
  54
  
    

  		




  54
  55
  
    
	public void startTx(){


  		




  55
  
  
    
		startTx = new DateTime();


  		




  
  56
  
    
		startTx = ZonedDateTime.now();


  		




  56
  57
  
    

  		




  57
  58
  
    
	}


  		




  58
  
  
    
	


  		




  
  59
  
    

  		




  59
  60
  
    
	public void startRs(){


  		




  60
  
  
    
		startRs = new DateTime();


  		




  61
  
  
    
		durTxStartSingle = new Duration(startTx, startRs);


  		




  62
  
  
    
		durTxStartAll = durTxStartAll.withDurationAdded(durTxStartSingle, 1);


  		




  
  61
  
    
		startRs = ZonedDateTime.now();


  		




  
  62
  
    

  		




  
  63
  
    
		durTxStartSingle = Duration.between(startTx, startRs);


  		




  
  64
  
    
		durTxStartAll = durTxStartAll.plus(durTxStartSingle);


  		




  63
  65
  
    
	}


  		




  64
  66
  
    

  		




  65
  67
  
    
	public void startRelObjects(){


  		




  66
  
  
    
		startRelObjects = new DateTime();


  		




  67
  
  
    
		durPartitionRs1Single = new Duration(startRs, startRelObjects);


  		




  68
  
  
    
		durPartitionRs1All= durPartitionRs1All.withDurationAdded(durPartitionRs1Single, 1);


  		




  
  68
  
    
		startRelObjects =ZonedDateTime.now();


  		




  
  69
  
    
		durPartitionRs1Single = Duration.between(startRs, startRelObjects);


  		




  
  70
  
    
		durPartitionRs1All= durPartitionRs1All.plus(durPartitionRs1Single);


  		




  69
  71
  
    
	}


  		




  70
  72
  
    

  		




  71
  73
  
    
	public void startRs2(){


  		




  72
  
  
    
		startRS2 = new DateTime();


  		




  73
  
  
    
		durRelObjectsSingle = new Duration(startRelObjects, startRS2);


  		




  74
  
  
    
		durRelObjectsAll = durRelObjectsAll.withDurationAdded(durRelObjectsSingle, 1);


  		




  
  74
  
    
		startRS2 = ZonedDateTime.now();


  		




  
  75
  
    
		durRelObjectsSingle = Duration.between(startRelObjects, startRS2);


  		




  
  76
  
    
		durRelObjectsAll = durRelObjectsAll.plus(durRelObjectsSingle);


  		




  75
  77
  
    
	}


  		




  76
  78
  
    

  		




  77
  79
  
    
	public void startDoPartition(){


  		




  78
  
  
    
		startDoPartition = new DateTime();


  		




  79
  
  
    
		startDoSave = new DateTime();


  		




  80
  
  
    
		durPartitionRs2Single = new Duration(startRS2, startDoPartition);


  		




  81
  
  
    
		durPartitionRs2All = durPartitionRs2All.withDurationAdded(durPartitionRs2Single, 1);


  		




  
  80
  
    
		startDoPartition = ZonedDateTime.now();


  		




  
  81
  
    
		startDoSave = ZonedDateTime.now();


  		




  
  82
  
    
		durPartitionRs2Single = Duration.between(startRS2, startDoPartition);


  		




  
  83
  
    
		durPartitionRs2All = durPartitionRs2All.plus(durPartitionRs2Single);


  		




  82
  84
  
    
	}


  		




  83
  
  
    
	


  		




  
  85
  
    

  		




  84
  86
  
    
	public void startDoSave(){


  		




  85
  
  
    
		startDoSave = new DateTime();


  		




  
  87
  
    
		startDoSave = ZonedDateTime.now();


  		




  86
  88
  
    
		//durSaveSingle = new Duration(startRS2, startSave);


  		




  87
  89
  
    
		//durPartitionRs2All = durPartitionRs2All.withDurationAdded(durPartitionRs2Single, 1);


  		




  88
  90
  
    
	}


  		




  89
  91
  
    

  		




  90
  92
  
    
	public void startDoCommit(){


  		




  91
  
  
    
		startDoCommit = new DateTime();


  		




  92
  
  
    
		durPartitionSingle = new Duration(startDoPartition, startDoCommit);


  		




  93
  
  
    
		durPartitionAll = durPartitionAll.withDurationAdded(durPartitionSingle, 1);


  		




  94
  
  
    
		durSaveSingle = new Duration(startDoSave, startDoCommit);


  		




  95
  
  
    
		durSaveAll = durSaveAll.withDurationAdded(durSaveSingle, 1);


  		




  
  93
  
    
		startDoCommit = ZonedDateTime.now();


  		




  
  94
  
    
		durPartitionSingle = Duration.between(startDoPartition, startDoCommit);


  		




  
  95
  
    
		durPartitionAll = durPartitionAll.plus(durPartitionSingle);


  		




  
  96
  
    
		durSaveSingle = Duration.between(startDoSave, startDoCommit);


  		




  
  97
  
    
		durSaveAll = durSaveAll.plus(durSaveSingle);


  		




  96
  98
  
    
	}


  		




  97
  
  
    
	


  		




  
  99
  
    

  		




  98
  100
  
    
	public void end(){


  		




  99
  
  
    
		end = new DateTime();


  		




  100
  
  
    
		durTxCommitSingle = new Duration(startDoCommit, end);


  		




  101
  
  
    
		durTxCommitAll = durTxCommitAll.withDurationAdded(durTxCommitSingle, 1);


  		




  
  101
  
    
		end = ZonedDateTime.now();


  		




  
  102
  
    
		durTxCommitSingle = Duration.between(startDoCommit, end);


  		




  
  103
  
    
		durTxCommitAll = durTxCommitAll.plus(durTxCommitSingle);


  		




  102
  104
  
    
	}


  		




  103
  105
  
    

  		




  104
  106
  
    
	public void print(){


  		




  105
  107
  
    
		if (logger.isDebugEnabled()){


  		




  106
  108
  
    
			System.out.println("Durations: " +


  		




  107
  
  
    
					"Start Transaction: " + durTxStartSingle.getMillis() + "/" + durTxStartAll.getMillis() +   


  		




  108
  
  
    
					"; partitionRS1: " + durPartitionRs1Single.getMillis() + "/" + durPartitionRs1All.getMillis() +


  		




  109
  
  
    
					"; getRelatedObjects: " + durRelObjectsSingle.getMillis() + "/" + durRelObjectsAll.getMillis() +


  		




  110
  
  
    
					"; partitionRS2 " + durPartitionRs2Single.getMillis() + "/" + durPartitionRs2All.getMillis() +


  		




  111
  
  
    
					"; doPartition " + durPartitionSingle.getMillis() + "/" + durPartitionAll.getMillis() +


  		




  112
  
  
    
					"; doSave " + durSaveSingle.getMillis() + "/" + durSaveAll.getMillis() +


  		




  113
  
  
    
					"; commit " + durTxCommitSingle.getMillis() + "/" + durTxCommitAll.getMillis() 


  		




  
  109
  
    
					"Start Transaction: " + durTxStartSingle.getNano() + "/" + durTxStartAll.getNano() +


  		




  
  110
  
    
					"; partitionRS1: " + durPartitionRs1Single.getNano() + "/" + durPartitionRs1All.getNano()+


  		




  
  111
  
    
					"; getRelatedObjects: " + durRelObjectsSingle.getNano() + "/" + durRelObjectsAll.getNano() +


  		




  
  112
  
    
					"; partitionRS2 " + durPartitionRs2Single.getNano() + "/" + durPartitionRs2All.getNano() +


  		




  
  113
  
    
					"; doPartition " + durPartitionSingle.getNano() + "/" + durPartitionAll.getNano() +


  		




  
  114
  
    
					"; doSave " + durSaveSingle.getNano() + "/" + durSaveAll.getNano() +


  		




  
  115
  
    
					"; commit " + durTxCommitSingle.getNano() + "/" + durTxCommitAll.getNano()


  		




  114
  116
  
    
			);


  		




  115
  117
  
    
		}


  		




  116
  118
  
    
	}


  		




  117
  
  
    
	


  		




  
  119
  
    

  		




  118
  120
  
    
}


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/out/DbDateMapper.java
    
  





  10
  10
  
    
package eu.etaxonomy.cdm.io.common.mapping.out;


  		




  11
  11
  
    

  		




  12
  12
  
    
import java.sql.Types;


  		




  
  13
  
    
import java.time.ZonedDateTime;


  		




  13
  14
  
    

  		




  14
  15
  
    
import org.apache.log4j.Logger;


  		




  15
  
  
    
import org.joda.time.DateTime;


  		




  
  16
  
    

  		




  16
  17
  
    

  		




  17
  18
  
    
/**


  		




  18
  19
  
    
 * @author a.mueller


  		




  ......




  27
  28
  
    
		return new DbDateMapper(cdmAttributeString, dbAttributeString, null);


  		




  28
  29
  
    
	}


  		




  29
  30
  
    

  		




  30
  
  
    
	public static DbDateMapper NewInstance(String cdmAttributeString, String dbAttributeString, DateTime defaultValue){


  		




  
  31
  
    
	public static DbDateMapper NewInstance(String cdmAttributeString, String dbAttributeString, ZonedDateTime defaultValue){


  		




  31
  32
  
    
		return new DbDateMapper(cdmAttributeString, dbAttributeString, defaultValue);


  		




  32
  33
  
    
	}


  		




  33
  34
  
    

  		




  ......




  35
  36
  
    
	 * @param dbAttributeString


  		




  36
  37
  
    
	 * @param cdmAttributeString


  		




  37
  38
  
    
	 */


  		




  38
  
  
    
	private DbDateMapper(String cdmAttributeString, String dbAttributeString, DateTime defaultValue) {


  		




  
  39
  
    
	private DbDateMapper(String cdmAttributeString, String dbAttributeString, ZonedDateTime defaultValue) {


  		




  39
  40
  
    
		super(cdmAttributeString, dbAttributeString, defaultValue);


  		




  40
  41
  
    
	}


  		




  41
  42
  
    

  		




  ......




  88
  89
  
    
	 */


  		




  89
  90
  
    
	@Override


  		




  90
  91
  
    
	public Class<?> getTypeClass() {


  		




  91
  
  
    
		return DateTime.class;


  		




  
  92
  
    
		return ZonedDateTime.class;


  		




  92
  93
  
    
	}


  		




  93
  94
  
    

  		




  94
  95
  
    

  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/out/DbLastActionMapper.java
    
  





  10
  10
  
    
package eu.etaxonomy.cdm.io.common.mapping.out;


  		




  11
  11
  
    

  		




  12
  12
  
    
import java.sql.Types;


  		




  
  13
  
    
import java.time.ZonedDateTime;


  		




  13
  14
  
    
import java.util.UUID;


  		




  14
  15
  
    

  		




  15
  16
  
    
import org.apache.log4j.Logger;


  		




  16
  
  
    
import org.joda.time.DateTime;


  		




  17
  17
  
    

  		




  18
  18
  
    
import eu.etaxonomy.cdm.io.common.DbExportStateBase;


  		




  19
  19
  
    
import eu.etaxonomy.cdm.model.common.AnnotatableEntity;


  		




  ......




  110
  110
  
    
	 */


  		




  111
  111
  
    
	@Override


  		




  112
  112
  
    
	public Class<?> getTypeClass() {


  		




  113
  
  
    
		return DateTime.class;


  		




  
  113
  
    
		return ZonedDateTime.class;


  		




  114
  114
  
    
	}


  		




  115
  115
  
    

  		




  116
  116
  
    
}


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/out/DbSingleAttributeExportMapperBase.java
    
  





  13
  13
  
    
import java.sql.ResultSet;


  		




  14
  14
  
    
import java.sql.SQLException;


  		




  15
  15
  
    
import java.sql.Types;


  		




  
  16
  
    
import java.time.LocalDateTime;


  		




  
  17
  
    
import java.time.ZonedDateTime;


  		




  16
  18
  
    

  		




  17
  19
  
    
import org.apache.log4j.Logger;


  		




  18
  
  
    
import org.joda.time.DateTime;


  		




  19
  20
  
    

  		




  20
  21
  
    
import eu.etaxonomy.cdm.common.CdmUtils;


  		




  21
  22
  
    
import eu.etaxonomy.cdm.io.common.DbExportStateBase;


  		




  ......




  121
  122
  
    
				}else if (sqlType == Types.BOOLEAN){


  		




  122
  123
  
    
					getPreparedStatement().setBoolean(getIndex(), (Boolean)value);


  		




  123
  124
  
    
				}else if (sqlType == Types.DATE){


  		




  124
  
  
    
					java.util.Date date = ((DateTime)value).toDate();


  		




  125
  
  
    
					long t = date.getTime();


  		




  126
  
  
    
					java.sql.Timestamp sqlTimestamp = new java.sql.Timestamp(t);


  		




  
  125
  
    
					LocalDateTime date = ((ZonedDateTime)value).toLocalDateTime();


  		




  
  126
  
    
					java.sql.Timestamp sqlTimestamp = java.sql.Timestamp.valueOf(date);


  		




  127
  127
  
    
					getPreparedStatement().setTimestamp(getIndex(), sqlTimestamp);


  		




  128
  128
  
    
				}else{


  		




  129
  129
  
    
					throw new IllegalArgumentException("SqlType not yet supported yet: " + sqlType);


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/common/mapping/out/MethodMapper.java
    
  





  1
  1
  
    
/**


  		




  2
  2
  
    
* Copyright (C) 2007 EDIT


  		




  3
  
  
    
* European Distributed Institute of Taxonomy 


  		




  
  3
  
    
* European Distributed Institute of Taxonomy


  		




  4
  4
  
    
* http://www.e-taxonomy.eu


  		




  5
  
  
    
* 


  		




  
  5
  
    
*


  		




  6
  6
  
    
* The contents of this file are subject to the Mozilla Public License Version 1.1


  		




  7
  7
  
    
* See LICENSE.TXT at the top of this package for the full license terms.


  		




  8
  8
  
    
*/


  		




  ......




  12
  12
  
    
import java.lang.reflect.InvocationTargetException;


  		




  13
  13
  
    
import java.lang.reflect.Method;


  		




  14
  14
  
    
import java.sql.Types;


  		




  
  15
  
    
import java.time.ZonedDateTime;


  		




  15
  16
  
    

  		




  16
  17
  
    
import org.apache.log4j.Logger;


  		




  17
  
  
    
import org.joda.time.DateTime;


  		




  18
  18
  
    

  		




  19
  19
  
    
import eu.etaxonomy.cdm.io.common.DbExportBase;


  		




  20
  20
  
    
import eu.etaxonomy.cdm.io.common.DbExportStateBase;


  		




  ......




  27
  27
  
    
 */


  		




  28
  28
  
    
public class MethodMapper extends DbSingleAttributeExportMapperBase<DbExportStateBase<?, IExportTransformer>> implements IDbExportMapper<DbExportStateBase<?, IExportTransformer>, IExportTransformer> {


  		




  29
  29
  
    
	private static final Logger logger = Logger.getLogger(MethodMapper.class);


  		




  30
  
  
    
	


  		




  
  30
  
    

  		




  31
  31
  
    
	private Method method;


  		




  32
  32
  
    
	private Class<?>[] parameterTypes;


  		




  33
  
  
    
	


  		




  
  33
  
    

  		




  34
  34
  
    
	public static <T extends DbExportBase> MethodMapper NewInstance(String dbAttributeString, DbExportBase exportBase){


  		




  35
  35
  
    
		String methodName = "get" + dbAttributeString;


  		




  36
  36
  
    
		return NewInstance(dbAttributeString, exportBase, methodName);


  		




  37
  37
  
    
	}


  		




  38
  
  
    
	


  		




  
  38
  
    

  		




  39
  39
  
    
	public static <T extends DbExportBase> MethodMapper NewInstance(String dbAttributeString, DbExportBase exportBase, Class<?>... parameterTypes){


  		




  40
  40
  
    
		String methodName = "get" + dbAttributeString;


  		




  41
  41
  
    
		return new MethodMapper(dbAttributeString, exportBase.getClass(), methodName, parameterTypes);


  		




  42
  42
  
    
	}


  		




  43
  
  
    
	


  		




  
  43
  
    

  		




  44
  44
  
    
	public static <T extends DbExportBase> MethodMapper NewInstance(String dbAttributeString, DbExportBase exportBase, String methodName){


  		




  45
  45
  
    
		Class<?> parameterTypes = exportBase.getStandardMethodParameter();


  		




  46
  46
  
    
		MethodMapper result = new MethodMapper(dbAttributeString, exportBase.getClass(), methodName, parameterTypes);


  		




  ......




  51
  51
  
    
		MethodMapper result = new MethodMapper(dbAttributeString, clazz, methodName, parameterTypes);


  		




  52
  52
  
    
		return result;


  		




  53
  53
  
    
	}


  		




  54
  
  
    
	


  		




  
  54
  
    

  		




  55
  55
  
    
	public static <T extends DbExportBase> MethodMapper NewInstance(String dbAttributeString, Class<?> clazz, String methodName, Class<?> parameterType1, Class<?> parameterType2){


  		




  56
  56
  
    
		MethodMapper result = new MethodMapper(dbAttributeString, clazz, methodName, parameterType1,parameterType2);


  		




  57
  57
  
    
		return result;


  		




  58
  58
  
    
	}


  		




  59
  
  
    
	


  		




  
  59
  
    

  		




  60
  60
  
    
	/**


  		




  61
  
  
    
	 * @param parameterTypes 


  		




  
  61
  
    
	 * @param parameterTypes


  		




  62
  62
  
    
	 * @param dbIdAttributString


  		




  63
  63
  
    
	 */


  		




  64
  64
  
    
	protected MethodMapper(String dbAttributeString, Class<?> clazz, String methodName, Class<?>... parameterTypes) {


  		




  ......




  73
  73
  
    
			logger.error("NoSuchMethodException", e);


  		




  74
  74
  
    
		}


  		




  75
  75
  
    
	}


  		




  76
  
  
    
	


  		




  
  76
  
    

  		




  77
  77
  
    
	@Override


  		




  78
  78
  
    
	public Class<?> getTypeClass() {


  		




  79
  79
  
    
		return method.getReturnType();


  		




  80
  80
  
    
	}


  		




  81
  
  
    
	


  		




  
  81
  
    

  		




  82
  82
  
    
	@Override


  		




  83
  83
  
    
	protected Object getValue(CdmBase cdmBase) {


  		




  84
  
  
    
		try{	


  		




  
  84
  
    
		try{


  		




  85
  85
  
    
			if (this.parameterTypes.length > 1 && DbExportStateBase.class.isAssignableFrom(parameterTypes[1])){


  		




  86
  86
  
    
				return method.invoke(null, cdmBase, getState());


  		




  87
  87
  
    
			}else{


  		




  88
  88
  
    
				return method.invoke(null, cdmBase);


  		




  89
  89
  
    
			}


  		




  90
  
  
    
			


  		




  
  90
  
    

  		




  91
  91
  
    
		} catch (IllegalAccessException e) {


  		




  92
  92
  
    
			logger.error("IllegalAccessException: " + e.getMessage() + " when invoking MethodMapper " +  this.toString());


  		




  93
  93
  
    
			return false;


  		




  ......




  99
  99
  
    
			throw new RuntimeException(e);


  		




  100
  100
  
    
		}


  		




  101
  101
  
    
	}


  		




  102
  
  
    
	


  		




  
  102
  
    

  		




  103
  103
  
    
	@Override


  		




  104
  104
  
    
	protected int getSqlType() {


  		




  105
  105
  
    
		Class<?> returnType = method.getReturnType();


  		




  ......




  109
  109
  
    
			return Types.VARCHAR;


  		




  110
  110
  
    
		}else if (returnType == Boolean.class){


  		




  111
  111
  
    
			return Types.BOOLEAN;


  		




  112
  
  
    
		}else if (returnType == DateTime.class){


  		




  
  112
  
    
		}else if (returnType == ZonedDateTime.class){


  		




  113
  113
  
    
			return Types.DATE;


  		




  114
  114
  
    
		}else{


  		




  115
  115
  
    
			logger.warn("Return type not supported yet: " + returnType.getSimpleName());


  		




  116
  116
  
    
			throw new IllegalArgumentException("Return type not supported yet: " + returnType.getSimpleName());


  		




  117
  117
  
    
		}


  		




  118
  118
  
    
	}


  		




  119
  
  
    
	


  		




  
  119
  
    

  		




  120
  120
  
    
}


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/csv/redlist/demo/CsvDemoRecordBase.java
    
  





  11
  11
  
    
import java.io.PrintWriter;


  		




  12
  12
  
    
import java.net.URI;


  		




  13
  13
  
    
import java.net.URISyntaxException;


  		




  
  14
  
    
import java.time.ZonedDateTime;


  		




  
  15
  
    
import java.time.temporal.Temporal;


  		




  14
  16
  
    
import java.util.ArrayList;


  		




  15
  17
  
    
import java.util.HashMap;


  		




  16
  18
  
    
import java.util.HashSet;


  		




  ......




  20
  22
  
    

  		




  21
  23
  
    
import org.apache.commons.lang.StringUtils;


  		




  22
  24
  
    
import org.apache.log4j.Logger;


  		




  23
  
  
    
import org.joda.time.DateTime;


  		




  24
  
  
    
import org.joda.time.Partial;


  		




  25
  25
  
    

  		




  26
  26
  
    
import eu.etaxonomy.cdm.common.CdmUtils;


  		




  27
  27
  
    
import eu.etaxonomy.cdm.io.dwca.TermUri;


  		




  ......




  293
  293
  
    
		}


  		




  294
  294
  
    
	}


  		




  295
  295
  
    

  		




  296
  
  
    
	protected String getDate(DateTime date) {


  		




  
  296
  
    
	protected String getDate(ZonedDateTime date) {


  		




  297
  297
  
    
		if (date == null){


  		




  298
  298
  
    
			return "";


  		




  299
  299
  
    
		}else{


  		




  ......




  424
  424
  
    
		if (period == null){


  		




  425
  425
  
    
			return "";


  		




  426
  426
  
    
		}else{


  		




  427
  
  
    
			Partial date = useEnd? period.getEnd(): period.getStart();


  		




  
  427
  
    
			Temporal date = useEnd? period.getEnd(): period.getStart();


  		




  428
  428
  
    
			if (date == null){


  		




  429
  429
  
    
				return "";


  		




  430
  430
  
    
			}else{


  		












  

    
      cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/csv/redlist/out/CsvRecordBaseRedlist.java
    
  





  1
  1
  
    
/**


  		




  2
  2
  
    
* Copyright (C) 2009 EDIT


  		




  3
  
  
    
* European Distributed Institute of Taxonomy 


  		




  
  3
  
    
* European Distributed Institute of Taxonomy


  		




  4
  4
  
    
* http://www.e-taxonomy.eu


  		




  5
  
  
    
* 


  		




  
  5
  
    
*


  		




  6
  6
  
    
* The contents of this file are subject to the Mozilla Public License Version 1.1


  		




  7
  7
  
    
* See LICENSE.TXT at the top of this package for the full license terms.


  		




  8
  8
  
    
*/


  		




  ......




  11
  11
  
    
import java.io.PrintWriter;


  		




  12
  12
  
    
import java.net.URI;


  		




  13
  13
  
    
import java.net.URISyntaxException;


  		




  
  14
  
    
import java.time.ZonedDateTime;


  		




  
  15
  
    
import java.time.temporal.Temporal;


  		




  14
  16
  
    
import java.util.ArrayList;


  		




  15
  17
  
    
import java.util.HashMap;


  		




  16
  18
  
    
import java.util.HashSet;


  		




  ......




  20
  22
  
    

  		




  21
  23
  
    
import org.apache.commons.lang.StringUtils;


  		




  22
  24
  
    
import org.apache.log4j.Logger;


  		




  23
  
  
    
import org.joda.time.DateTime;


  		




  24
  
  
    
import org.joda.time.Partial;


  		




  25
  25
  
    

  		




  26
  26
  
    
import eu.etaxonomy.cdm.common.CdmUtils;


  		




  27
  27
  
    
import eu.etaxonomy.cdm.io.dwca.TermUri;


  		




  ......




  61
  61
  
    
	protected static final boolean IS_FIRST = false;


  		




  62
  62
  
    
	protected static final boolean IS_NOT_FIRST = true;


  		




  63
  63
  
    
//	protected static final String SEP = ",";


  		




  64
  
  
    
	


  		




  
  64
  
    

  		




  65
  65
  
    
	protected Map<String, URI> knownFields = new HashMap<String, URI>();


  		




  66
  66
  
    
	protected Set<TermUri> knownTermFields = new HashSet<TermUri>();


  		




  67
  
  
    
	


  		




  
  67
  
    

  		




  68
  68
  
    
	public abstract void write(PrintWriter writer);


  		




  69
  69
  
    
	protected abstract void registerKnownFields();


  		




  70
  
  
    
	


  		




  
  70
  
    

  		




  71
  71
  
    
	protected int count;


  		




  72
  72
  
    
	private CsvMetaDataRecordRedlist metaDataRecord;


  		




  73
  73
  
    
	protected CsvTaxExportConfiguratorRedlist config;


  		




  ......




  75
  75
  
    
	private Integer id;


  		




  76
  76
  
    
	private UUID uuid;


  		




  77
  77
  
    

  		




  78
  
  
    
	


  		




  
  78
  
    

  		




  79
  79
  
    
	protected CsvRecordBaseRedlist(CsvMetaDataRecordRedlist metaDataRecord, CsvTaxExportConfiguratorRedlist config){


  		




  80
  80
  
    
		this.metaDataRecord = metaDataRecord;


  		




  81
  81
  
    
		this.count = metaDataRecord.inc();


  		




  82
  82
  
    
		this.config = config;


  		




  83
  83
  
    
	}


  		




  84
  
  
    
	


  		




  85
  
  
    
	


  		




  
  84
  
    

  		




  
  85
  
    

  		




  86
  86
  
    
	public void setId(Integer id) {


  		




  87
  87
  
    
		this.id = id;


  		




  88
  88
  
    
	}


  		




  ......




  107
  107
  
    
		String value = null;


  		




  108
  108
  
    
		print(value, writer, addSeparator, fieldKey);


  		




  109
  109
  
    
	}


  		




  110
  
  
    
	


  		




  
  110
  
    

  		




  111
  111
  
    
//	protected void print(Object object, PrintWriter writer, boolean addSeparator, TermUri fieldKey) {


  		




  112
  112
  
    
//		print(object == null ? null : object.toString(), writer, addSeparator, fieldKey);


  		




  113
  113
  
    
//	}


  		




  ......




  124
  124
  
    
		print(agent == null ? null : getAgent(agent), writer, addSeparator, fieldKey);


  		




  125
  125
  
    
	}


  		




  126
  126
  
    

  		




  127
  
  
    
	


  		




  
  127
  
    

  		




  128
  128
  
    
	protected void print(Language language, PrintWriter writer, boolean addSeparator, TermUri fieldKey) {


  		




  129
  129
  
    
		print(language, writer, addSeparator, fieldKey.getUriString());


  		




  130
  130
  
    
	}


  		




  ......




  137
  137
  
    
	protected void print(LSID lsid, PrintWriter writer, boolean addSeparator, String fieldKey) {


  		




  138
  138
  
    
		print(lsid == null ? null : String.valueOf(lsid.toString()), writer, addSeparator, fieldKey);


  		




  139
  139
  
    
	}


  		




  140
  
  
    
	


  		




  
  140
  
    

  		




  141
  141
  
    
	protected void print(Set<Rights> rights, PrintWriter writer, boolean addSeparator, TermUri fieldKey) {


  		




  142
  142
  
    
		print(rights, writer, addSeparator, fieldKey.getUriString());


  		




  143
  143
  
    
	}


  		




  ......




  151
  151
  
    
	protected void print(URI uri, PrintWriter writer, boolean addSeparator, String fieldKey) {


  		




  152
  152
  
    
		print(uri == null ? null : String.valueOf(uri), writer, addSeparator, fieldKey);


  		




  153
  153
  
    
	}


  		




  154
  
  
    
	


  		




  
  154
  
    

  		




  155
  155
  
    
	protected void print(Point point, PrintWriter writer, boolean addSeparator, TermUri latitudeKey, TermUri longitudeKey) {


  		




  156
  156
  
    
		print(point, writer, addSeparator, latitudeKey.getUriString(), longitudeKey.getUriString());


  		




  157
  157
  
    
	}


  		




  158
  
  
    
	


  		




  
  158
  
    

  		




  159
  159
  
    
	protected void print(Point point, PrintWriter writer, boolean addSeparator, String latitudeKey, String longitudeKey) {


  		




  160
  160
  
    
		if (point == null){


  		




  161
  161
  
    
			String toPrint = null;


  		




  ......




  170
  170
  
    
	}


  		




  171
  171
  
    
	protected void print(Boolean boolValue, PrintWriter writer, boolean addSeparator, TermUri fieldKey) {


  		




  172
  172
  
    
		print(boolValue, writer, addSeparator, fieldKey.getUriString());


  		




  173
  
  
    
	}	


  		




  
  173
  
    
	}


  		




  174
  174
  
    
	protected void print(Boolean boolValue, PrintWriter writer, boolean addSeparator, String fieldKey) {


  		




  175
  175
  
    
		print(boolValue == null ? null : String.valueOf(boolValue), writer, addSeparator, fieldKey);


  		




  176
  176
  
    
	}


  		




  ......




  181
  181
  
    
	protected void print(Integer intValue, PrintWriter writer, boolean addSeparator, String fieldKey) {


  		




  182
  182
  
    
		print(intValue == null ? null : String.valueOf(intValue), writer, addSeparator, fieldKey);


  		




  183
  183
  
    
	}


  		




  184
  
  
    
	


  		




  
  184
  
    

  		




  185
  185
  
    
	protected void printId(Integer intValue, PrintWriter writer, boolean addSeparator, String fieldKey) {


  		




  186
  186
  
    
		print(intValue == null ? null : String.valueOf(intValue), writer, addSeparator, fieldKey);


  		




  187
  187
  
    
	}


  		




  ......




  196
  196
  
    
	protected void print(String value, PrintWriter writer, boolean addSeparator, TermUri fieldKey, String defaultValue) {


  		




  197
  197
  
    
		print(value, writer, addSeparator, fieldKey.getUriString(), defaultValue);


  		




  198
  198
  
    
	}


  		




  199
  
  
    
	


  		




  
  199
  
    

  		




  200
  200
  
    
	protected void print(String value, PrintWriter writer, boolean addSeparator, String fieldKey) {


  		




  201
  201
  
    
		print(value, writer, addSeparator, fieldKey, null);


  		




  202
  202
  
    
	}


  		




  203
  
  
    
	


  		




  
  203
  
    

  		




  204
  204
  
    
	protected void print(String value, PrintWriter writer, boolean addSeparator, String fieldKey, String defaultValue) {


  		




  205
  205
  
    
		if (count == 1 && addSeparator == IS_NOT_FIRST){


  		




  206
  206
  
    
			registerFieldKey(URI.create(fieldKey), defaultValue);


  		




  ......




  210
  210
  
    
			if (StringUtils.isNotBlank(value)){


  		




  211
  211
  
    
				//Replace quotes by double quotes


  		




  212
  212
  
    
				value = value.replace("\"", "\"\"");


  		




  213
  
  
    
				


  		




  
  213
  
    

  		




  214
  214
  
    
				value = value.replace(config.getLinesTerminatedBy(), "\\r");


  		




  215
  
  
    
				


  		




  
  215
  
    

  		




  216
  216
  
    
				//replace all line brakes according to best practices: http://code.google.com/p/gbif-ecat/wiki/BestPractices


  		




  217
  217
  
    
				value = value.replace("\r\n", "\\r");


  		




  218
  218
  
    
				value = value.replace("\r", "\\r");


  		




  219
  219
  
    
				value = value.replace("\n", "\\r");


  		




  220
  
  
    
				


  		




  
  220
  
    

  		




  221
  221
  
    
				strToPrint += config.getFieldsEnclosedBy() + value + config.getFieldsEnclosedBy();


  		




  222
  222
  
    
			}


  		




  223
  223
  
    
			writer.print(strToPrint);


  		




  224
  224
  
    
		}


  		








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