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Commit 6597170d authored by pkupczyk's avatar pkupczyk
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SSDM-133 : Remove .classpath, .project, build/ from gradle-built projects - convert more projects 

SVN: 32045
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deep_sequencing_unit/.classpath deleted 100644 → 0
+ 0
− 25
View file @ f7d7516c
<?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>
deep_sequencing_unit/.project deleted 100644 → 0
+ 0
− 28
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<?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>
deep_sequencing_unit/build/antrun.sh deleted 100755 → 0
+ 0
− 6
View file @ f7d7516c
#! /bin/bash
ME="$0"
MYDIR=${ME%/*}
cd $MYDIR
ant -lib ../../build_resources/lib/ecj.jar "$@"
deep_sequencing_unit/build/build.xml deleted 100644 → 0
+ 0
− 187
View file @ f7d7516c
<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
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