diff --git a/deep_sequencing_unit/.classpath b/deep_sequencing_unit/.classpath
deleted file mode 100644
index 823bf30e1145d1db03d89d48de98c5aede6f5bb1..0000000000000000000000000000000000000000
--- a/deep_sequencing_unit/.classpath
+++ /dev/null
@@ -1,25 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<classpath>
- <classpathentry kind="src" path="source/java"/>
- <classpathentry kind="src" path="sourceTest/java"/>
- <classpathentry kind="con" path="org.eclipse.jdt.launching.JRE_CONTAINER"/>
- <classpathentry combineaccessrules="false" kind="src" path="/datastore_server"/>
- <classpathentry combineaccessrules="false" kind="src" path="/common"/>
- <classpathentry kind="lib" path="/libraries/testng/testng-jdk15.jar" sourcepath="/libraries/testng/src.zip"/>
- <classpathentry kind="lib" path="/libraries/cisd-base/cisd-base.jar" sourcepath="/libraries/cisd-base/cisd-base-src.zip"/>
- <classpathentry kind="lib" path="/libraries/jmock/hamcrest/hamcrest-core.jar"/>
- <classpathentry kind="lib" path="/libraries/jmock/hamcrest/hamcrest-library.jar"/>
- <classpathentry kind="lib" path="/libraries/jmock/objenesis/objenesis-1.0.jar"/>
- <classpathentry kind="lib" path="/libraries/jmock/jmock.jar"/>
- <classpathentry kind="lib" path="/libraries/log4j/log4j.jar" sourcepath="/libraries/log4j/src.zip"/>
- <classpathentry kind="lib" path="/libraries/mail/mail.jar"/>
- <classpathentry kind="lib" path="/libraries/jaxb/jaxb-api.jar" sourcepath="/libraries/jaxb/jaxb-api-src.zip"/>
- <classpathentry kind="lib" path="/libraries/jaxb/jaxb-impl.jar" sourcepath="/libraries/jaxb/jaxb-impl.src.zip"/>
- <classpathentry kind="lib" path="/libraries/jaxb/jsr173_1.0_api.jar"/>
- <classpathentry kind="lib" path="/libraries/activation/activation.jar"/>
- <classpathentry kind="lib" path="/libraries/restrictionchecker/restrictions.jar"/>
- <classpathentry kind="lib" path="/libraries/gwt2.4/gwt-isserializable.jar"/>
- <classpathentry kind="lib" path="/libraries/commons-lang/commons-lang.jar" sourcepath="/libraries/commons-lang/src.zip"/>
- <classpathentry kind="lib" path="/libraries/commons-io/commons-io.jar" sourcepath="/libraries/commons-io/src.zip"/>
- <classpathentry kind="output" path="targets/classes"/>
-</classpath>
diff --git a/deep_sequencing_unit/.project b/deep_sequencing_unit/.project
deleted file mode 100644
index cd093e7720726d766628bb15807cd4da86cf4aed..0000000000000000000000000000000000000000
--- a/deep_sequencing_unit/.project
+++ /dev/null
@@ -1,28 +0,0 @@
-<?xml version="1.0" encoding="UTF-8"?>
-<projectDescription>
- <name>deep_sequencing_unit</name>
- <comment></comment>
- <projects>
- </projects>
- <buildSpec>
- <buildCommand>
- <name>org.eclipse.jdt.core.javabuilder</name>
- <arguments>
- </arguments>
- </buildCommand>
- </buildSpec>
- <natures>
- <nature>org.eclipse.jdt.core.javanature</nature>
- </natures>
- <filteredResources>
- <filter>
- <id>1332321366607</id>
- <name></name>
- <type>26</type>
- <matcher>
- <id>org.eclipse.ui.ide.multiFilter</id>
- <arguments>1.0-name-matches-true-false-.git</arguments>
- </matcher>
- </filter>
- </filteredResources>
-</projectDescription>
diff --git a/deep_sequencing_unit/build/antrun.sh b/deep_sequencing_unit/build/antrun.sh
deleted file mode 100755
index 5ff1a62b259d6011d228440f2fb89ec0dbecf747..0000000000000000000000000000000000000000
--- a/deep_sequencing_unit/build/antrun.sh
+++ /dev/null
@@ -1,6 +0,0 @@
-#! /bin/bash
-
-ME="$0"
-MYDIR=${ME%/*}
-cd $MYDIR
-ant -lib ../../build_resources/lib/ecj.jar "$@"
diff --git a/deep_sequencing_unit/build/build.xml b/deep_sequencing_unit/build/build.xml
deleted file mode 100644
index 5471f070c10573ec319714cdf824ef1100a33fb7..0000000000000000000000000000000000000000
--- a/deep_sequencing_unit/build/build.xml
+++ /dev/null
@@ -1,187 +0,0 @@
-<project name="deep_sequencing_unit" default="ci" basedir="..">
- <import file="../../datastore_server/build/build.xml" />
- <import file="../../openbis/build/build.xml" />
- <project-classpath name="ecp" classes="${classes}" />
-
- <property name="original.dist" value="dist" />
- <property name="mainfolder" value="deep_sequencing_unit" />
- <property name="variant" value="-dsu" />
-
- <property name="dist.tracking" value="${dist}/tracking" />
- <property name="dist.tracking.lib" value="${dist.tracking}/lib" />
- <property name="tracking-jar.file" value="${dist.tracking.lib}/openbis-tracking-dsu-client.jar" />
- <property name="tracking.original.dist" value="tracking/dist" />
-
- <property name="dist.createsamplesheet" value="${dist}/createsamplesheet" />
- <property name="dist.createsamplesheet.lib" value="${dist.createsamplesheet}/lib" />
- <property name="createsamplesheet.original.dist" value="createsamplesheet/dist" />
-
- <property name="dist.createsamplesheet-nov" value="${dist}/createsamplesheet" />
- <property name="dist.createsamplesheet-nov.lib" value="${dist.createsamplesheet}/lib" />
- <property name="createsamplesheet-nov.original.dist" value="createsamplesheet/dist" />
-
- <property name="dist.createInvoices" value="${dist}/createInvoices" />
- <property name="dist.createInvoices.lib" value="${dist.createInvoices}/lib" />
- <property name="createInvoices.original.dist" value="createInvoices/dist" />
-
- <target name="compile" depends="build-common.compile, clean" />
-
- <target name="run-tests">
- <antcall target="build-common.run-tests">
- <param name="test.suite" value="tests.xml" />
- </antcall>
- </target>
-
- <target name="tracking-jar" depends="compile">
- <mkdir dir="${dist.tracking.lib}" />
- <build-info revision="revision.number" version="version.number" clean="clean.flag" />
- <echo file="${build.info.file}">${version.number}:${revision.number}:${clean.flag}</echo>
- <recursive-jar destfile="${tracking-jar.file}">
- <fileset dir="${classes}">
- <include name="**/*.class" />
- <include name="${build.info.filename}" />
- </fileset>
- <manifest>
- <attribute name="Main-Class" value="ch.ethz.bsse.cisd.dsu.tracking.main.TrackingClient" />
- <attribute name="Class-Path" value="cisd-base.jar log4j.jar activation.jar mail.jar gwt-isserializable.jar
- commons-io.jar commons-lang.jar commons-logging.jar commons-httpclient.jar commons-codec.jar
- spring.jar stream-supporting-httpinvoker.jar" />
- <attribute name="Version" value="${version.number}" />
- <attribute name="Build-Number" value="${version.number} (r${revision.number},${clean.flag})" />
- </manifest>
- </recursive-jar>
- <jar update="true" destfile="${tracking-jar.file}">
- <fileset dir="../${ant.project.name}/${classes}"
- includes="ch/systemsx/cisd/openbis/dss/BuildAndEnvironmentInfo.class" />
- </jar>
- </target>
-
- <target name="tracking-dist" depends="tracking-jar">
- <copy file="${tracking-jar.file}" todir="${dist.tracking.lib}" />
- <copy file="${lib}/cisd-base/cisd-base.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/activation/activation.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/mail/mail.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/log4j/log4j.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/gwt2.4/gwt-isserializable.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/commons-logging/commons-logging.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/commons-io/commons-io.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/commons-lang/commons-lang.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/commons-httpclient/commons-httpclient.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/commons-codec/commons-codec.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/spring/spring.jar" todir="${dist.tracking.lib}" />
- <copy file="${lib}/spring/third-party/stream-supporting-httpinvoker.jar" todir="${dist.tracking.lib}" />
-
- <property name="tracking-dist.file" value="openbis-tracking-client-Illumina-NGS-${version.number}-r${revision.number}.zip" />
- <zip basedir="${dist.tracking}" destfile="${dist}/${tracking-dist.file}" excludes="*.zip *.jar">
- <zipfileset dir="${tracking.original.dist}" excludes="**/*.sh"/>
- <zipfileset file="${tracking.original.dist}/tracking.sh" filemode="755" />
- </zip>
- <delete dir="${dist.tracking}" />
- </target>
-
- <target name="createsamplesheet-dist">
-
- <copy file="source/Jython/createSampleSheet.py" todir="${dist.createsamplesheet}" />
-
- <copy file="${lib}/commons-codec/commons-codec.jar" todir="${dist.createsamplesheet.lib}" />
- <copy file="${lib}/commons-httpclient/commons-httpclient.jar" todir="${dist.createsamplesheet.lib}" />
- <copy file="${lib}/commons-logging/commons-logging.jar" todir="${dist.createsamplesheet.lib}" />
- <copy file="${lib}/openbis-apis/dss/dss_client.jar" todir="${dist.createsamplesheet.lib}" />
- <copy file="${lib}/jython/jython.jar" todir="${dist.createsamplesheet.lib}" />
- <copy file="${lib}/spring/spring.jar" todir="${dist.createsamplesheet.lib}" />
- <copy file="${lib}/spring/third-party/stream-supporting-httpinvoker.jar" todir="${dist.createsamplesheet.lib}" />
-
- <property name="createsamplesheet-dist.file" value="openbis-createSampleSheet-Illimuna-NGS-${version.number}-r${revision.number}.zip" />
- <zip basedir="${dist.createsamplesheet}" destfile="${dist}/${createsamplesheet-dist.file}" excludes="*.zip *.jar">
- <zipfileset dir="${createsamplesheet.original.dist}" excludes="**/*.sh **/*nov.properties"/>
- <zipfileset file="${createsamplesheet.original.dist}/createSampleSheet.sh" filemode="755" />
- </zip>
- <delete dir="${dist.createsamplesheet}" />
-
- </target>
-
- <target name="createsamplesheet-nov-dist">
-
- <copy file="source/Jython/createSampleSheet_nov.py" todir="${dist.createsamplesheet-nov}" />
-
- <copy file="${lib}/commons-codec/commons-codec.jar" todir="${dist.createsamplesheet-nov.lib}" />
- <copy file="${lib}/commons-httpclient/commons-httpclient.jar" todir="${dist.createsamplesheet-nov.lib}" />
- <copy file="${lib}/commons-logging/commons-logging.jar" todir="${dist.createsamplesheet-nov.lib}" />
- <copy file="${lib}/openbis-apis/dss/dss_client.jar" todir="${dist.createsamplesheet-nov.lib}" />
- <copy file="${lib}/jython/jython.jar" todir="${dist.createsamplesheet-nov.lib}" />
- <copy file="${lib}/spring/spring.jar" todir="${dist.createsamplesheet-nov.lib}" />
- <copy file="${lib}/spring/third-party/stream-supporting-httpinvoker.jar" todir="${dist.createsamplesheet-nov.lib}" />
-
- <property name="createsamplesheet-nov-dist.file" value="openbis-createSampleSheet-Illimuna-NGS-NOV-${version.number}-r${revision.number}.zip" />
- <zip basedir="${dist.createsamplesheet-nov}" destfile="${dist}/${createsamplesheet-nov-dist.file}" excludes="*.zip *.jar">
- <zipfileset dir="${createsamplesheet-nov.original.dist}" excludes="**/*.sh **/createSampleSheet.properties"/>
- <zipfileset file="${createsamplesheet-nov.original.dist}/createSampleSheet_nov.sh" filemode="755" />
- </zip>
- <delete dir="${dist.createsamplesheet}" />
- </target>
-
- <target name="createInvoices-dist">
- <copy file="source/Jython/create_QGF_Invoices_simplified.py" todir="${dist.createInvoices}" />
-
- <copy file="${lib}/commons-codec/commons-codec.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/commons-httpclient/commons-httpclient.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/commons-logging/commons-logging.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/openbis-apis/dss/dss_client.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/jython/jython.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/spring/spring.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/spring/third-party/stream-supporting-httpinvoker.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/poi/poi.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/poi/poi-ooxml.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/poi/poi-ooxml-schemas.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/poi/ooxml-lib/xmlbeans-2.3.0.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/poi/ooxml-lib/dom4j-1.6.1.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/poi/ooxml-lib/geronimo-stax-api_1.0_spec-1.0.jar" todir="${dist.createInvoices.lib}" />
- <copy file="${lib}/openbis-apis/query/openbis-query-api.jar" todir="${dist.createInvoices.lib}" />
-
- <property name="createInvoices.dist.file" value="openbis-createInvoices-${version.number}-r${revision.number}.zip" />
- <zip basedir="${dist.createInvoices}" destfile="${dist}/${createInvoices.dist.file}" excludes="*.zip *.jar">
- <zipfileset dir="${createInvoices.original.dist}" excludes="**/*.sh" />
- <zipfileset file="${createInvoices.original.dist}/createInvoices.sh" filemode="755" />
-
- </zip>
- <delete dir="${dist.createInvoices}" />
- </target>
-
-
- <target name="jar" depends="compile">
- <mkdir dir="${dist}" />
- <build-info revision="revision.number" version="version.number" clean="clean.flag" />
- <antcall target="make-dss-plugin-jar"/>
- </target>
-
- <target name="make-dss-plugin-jar">
- <echo file="${build.info.file}">${version.number}:${revision.number}:${clean.flag}</echo>
- <jar destfile="${plugin-jar.file}">
- <fileset dir="../deep_sequencing_unit/${classes}">
- <include name="ch/ethz/bsse/cisd/dsu/**/*.class" />
- <include name="ch/systemsx/cisd.openbis/dss/BuildAndEnvironmentInfo.class" />
- <include name="${build.info.filename}" />
- </fileset>
- <fileset dir="source">
- <include name="**/*.sql" />
- </fileset>
- <manifest>
- <attribute name="Version" value="${version.number}" />
- <attribute name="Build-Number"
- value="${version.number} (r${revision.number},${clean.flag})" />
- </manifest>
- </jar>
- </target>
-
- <!--
- // Task for creating distributions
- -->
- <target name="dist" depends="jar, datastore_server.make-plugin-dist, tracking-dist, createsamplesheet-dist, createsamplesheet-nov-dist,createInvoices-dist" />
-
- <!--
- // Task for continuous integration server.
- -->
- <target name="ci" depends="build-common.ci, dist, check-dependencies" />
-
-
-</project>
\ No newline at end of file