1 <?xml version="1.0" encoding="UTF-8"?>
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3 <project default="build-server" name="compbio-ws" basedir=".">
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6 <property name="classes" location="${basedir}/WEB-INF/classes" />
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7 <property name="lib.path" location="${basedir}/WEB-INF/lib" />
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9 <path id="classes.path">
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10 <pathelement location="${classes}" />
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13 <!-- add libraries -->
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14 <path id="project.classpath">
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15 <fileset dir="${lib.path}">
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16 <include name="*.jar" />
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20 <property name="wsdl.dir" location="${basedir}/webservices/compbio/ws/server/resource" />
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21 <property name="jpred.wsdl" location="${wsdl.dir}/JpredWS.wsdl" />
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22 <property name="aacon.wsdl" location="${wsdl.dir}/AAConWS.wsdl" />
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23 <property name="clustal.wsdl" location="${wsdl.dir}/ClustalWS.wsdl" />
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24 <property name="muscle.wsdl" location="${wsdl.dir}/MuscleWS.wsdl" />
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25 <property name="tcoffee.wsdl" location="${wsdl.dir}/TcoffeeWS.wsdl" />
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26 <property name="mafft.wsdl" location="${wsdl.dir}/MafftWS.wsdl" />
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27 <property name="disembl.wsdl" location="${wsdl.dir}/DisemblWS.wsdl" />
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28 <property name="globplot.wsdl" location="${wsdl.dir}/GlobPlotWS.wsdl" />
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29 <property name="iupred.wsdl" location="${wsdl.dir}/IUPredWS.wsdl" />
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30 <property name="jronn.wsdl" location="${wsdl.dir}/JronnWS.wsdl" />
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31 <property name="registry.wsdl" location="${wsdl.dir}/RegistryWS.wsdl" />
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32 <property name="rnaalifold.wsdl" location="${wsdl.dir}/RNAalifold.wsdl" />
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34 <taskdef name="wsgen" onerror="report" classname="com.sun.tools.ws.ant.WsGen">
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35 <classpath refid="project.classpath" />
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38 <target name="build-server">
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39 <!-- TODO this runs file from Eclipse, but with Ant only this need to depends on clean and build! -->
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40 <property name="server.artifacts.dir" location="${basedir}/webservices/compbio/ws/server/jaxws/" />
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42 <mkdir dir="${server.artifacts.dir}" />
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43 <mkdir dir="${wsdl.dir}" />
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44 <delete quiet="false" verbose="true" failonerror="false">
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45 <fileset dir="${server.artifacts.dir}">
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46 <include name="*.java" />
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48 <fileset dir="${wsdl.dir}">
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52 <!-- destdir - Where to put generated classes -->
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53 <!-- sourcedestdir - Where to put generated source files -->
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54 <!-- resourcedestdir - Where to put generated source files -->
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55 <wsgen sei="compbio.ws.server.JpredWS"
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56 sourcedestdir="${basedir}/webservices"
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57 destdir="${classes}"
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58 resourcedestdir="${wsdl.dir}"
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64 <classpath refid="classes.path" />
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65 <classpath refid="project.classpath" />
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67 <wsgen sei="compbio.ws.server.AAConWS"
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68 sourcedestdir="${basedir}/webservices"
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69 destdir="${classes}"
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70 resourcedestdir="${wsdl.dir}"
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76 <classpath refid="classes.path" />
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77 <classpath refid="project.classpath" />
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79 <wsgen sei="compbio.ws.server.ClustalWS"
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80 sourcedestdir="${basedir}/webservices"
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81 destdir="${classes}"
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82 resourcedestdir="${wsdl.dir}"
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88 <classpath refid="classes.path" />
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89 <classpath refid="project.classpath" />
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91 <wsgen sei="compbio.ws.server.MuscleWS"
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92 sourcedestdir="${basedir}/webservices"
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93 destdir="${classes}"
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94 resourcedestdir="${wsdl.dir}"
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100 <classpath refid="classes.path" />
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101 <classpath refid="project.classpath" />
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103 <wsgen sei="compbio.ws.server.MafftWS"
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104 sourcedestdir="${basedir}/webservices"
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105 destdir="${classes}"
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106 resourcedestdir="${wsdl.dir}"
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112 <classpath refid="classes.path" />
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113 <classpath refid="project.classpath" />
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115 <wsgen sei="compbio.ws.server.TcoffeeWS"
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116 sourcedestdir="${basedir}/webservices"
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117 destdir="${classes}"
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118 resourcedestdir="${wsdl.dir}"
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124 <classpath refid="classes.path" />
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125 <classpath refid="project.classpath" />
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127 <wsgen sei="compbio.ws.server.DisemblWS"
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128 sourcedestdir="${basedir}/webservices"
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129 destdir="${classes}"
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130 resourcedestdir="${wsdl.dir}"
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136 <classpath refid="classes.path" />
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137 <classpath refid="project.classpath" />
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139 <wsgen sei="compbio.ws.server.GlobPlotWS"
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140 sourcedestdir="${basedir}/webservices"
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141 destdir="${classes}"
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142 resourcedestdir="${wsdl.dir}"
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148 <classpath refid="classes.path" />
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149 <classpath refid="project.classpath" />
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151 <wsgen sei="compbio.ws.server.JronnWS"
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152 sourcedestdir="${basedir}/webservices"
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153 destdir="${classes}"
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154 resourcedestdir="${wsdl.dir}"
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160 <classpath refid="classes.path" />
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161 <classpath refid="project.classpath" />
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163 <wsgen sei="compbio.ws.server.IUPredWS"
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164 sourcedestdir="${basedir}/webservices"
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165 destdir="${classes}"
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166 resourcedestdir="${wsdl.dir}"
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172 <classpath refid="classes.path" />
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173 <classpath refid="project.classpath" />
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175 <wsgen sei="compbio.ws.server.RegistryWS"
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176 sourcedestdir="${basedir}/webservices"
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177 destdir="${classes}"
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178 resourcedestdir="${wsdl.dir}"
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184 <classpath refid="classes.path" />
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185 <classpath refid="project.classpath" />
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187 <wsgen sei="compbio.ws.server.RNAalifoldWS"
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188 sourcedestdir="${basedir}/webservices"
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189 destdir="${classes}"
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190 resourcedestdir="${wsdl.dir}"
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191 keep="true" genwsdl="true"
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195 <classpath refid="classes.path" />
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196 <classpath refid="project.classpath" />
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200 <taskdef name="wsimport" classname="com.sun.tools.ws.ant.WsImport">
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201 <classpath refid="project.classpath" />
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204 <target name="build-clients">
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205 <property name="client.artifacts.dir" location="${basedir}/webservices/compbio/ws/client/stub" />
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207 <mkdir dir="${client.artifacts.dir}" />
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208 <delete quiet="false" verbose="true" failonerror="true">
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209 <fileset dir="${client.artifacts.dir}">
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210 <include name="*.java" />
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213 <wsimport wsdl="${clustal.wsdl}"
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214 sourcedestdir="${basedir}/webservices/"
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215 keep="true" extension="false"
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216 verbose="true" xnocompile="true" xendorsed="true"
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217 package="compbio.ws.client.stub" target="2.1"
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220 <wsimport wsdl="${muscle.wsdl}"
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221 sourcedestdir="${basedir}/webservices/"
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222 keep="true" extension="false"
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223 verbose="true" xnocompile="true" xendorsed="true"
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224 package="compbio.ws.client.stub" target="2.1"
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227 <wsimport wsdl="${mafft.wsdl}"
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228 sourcedestdir="${basedir}/webservices/"
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229 keep="true" extension="false"
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230 verbose="true" xnocompile="true" xendorsed="true"
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231 package="compbio.ws.client.stub" target="2.1"
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234 <wsimport wsdl="${tcoffee.wsdl}"
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235 sourcedestdir="${basedir}/webservices/"
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236 keep="true" extension="false"
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237 verbose="true" xnocompile="true" xendorsed="true"
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238 package="compbio.ws.client.stub" target="2.1"
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241 <wsimport wsdl="${iupred.wsdl}"
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242 sourcedestdir="${basedir}/webservices/"
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243 keep="true" extension="false"
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244 verbose="true" xnocompile="true" xendorsed="true"
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245 package="compbio.ws.client.stub" target="2.1"
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248 <wsimport wsdl="${registry.wsdl}"
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249 sourcedestdir="${basedir}/webservices/"
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250 keep="true" extension="false"
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251 verbose="true" xnocompile="true" xendorsed="true"
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252 package="compbio.ws.client.stub" target="2.1"
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255 <wsimport wsdl="${rnaalifold.wsdl}"
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256 sourcedestdir="${basedir}/webservices/"
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257 keep="true" extension="false"
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258 verbose="true" xnocompile="true" xendorsed="true"
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259 package="compbio.ws.client.stub" target="2.1"
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266 <target name="Build artifacts from schema" description="Test task to generate JaxB commons annotated data classes DOES NOT REALLY WORK">
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267 <taskdef name="xjc" classname="com.sun.tools.xjc.XJCTask">
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268 <classpath refid="project.classpath" />
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270 <mkdir dir="${basedir}/src/test" />
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271 <xjc schema="${wsdl.dir}/SyncMsaWS_schema1.xsd" destdir="${basedir}/src/test">
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272 <arg value="-Xcommons-lang" />
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274 <produces dir="${basedir}/src/test" />
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275 <classpath refid="classes.path" />
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277 <fileset dir="${basedir}/lib">
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278 //JAXB2 Basics library
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279 <include name="jaxb2-basics-*.jar"/>
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280 // JAXB2 Basics library dependencies
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281 <include name="jaxb2-basics-runtime-*.jar"/>
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282 <include name="jaxb2-basics-tools-*.jar"/>
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283 <include name="commons-beanutils-*.jar"/>
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284 <include name="commons-lang-*.jar"/>
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285 <include name="commons-logging-*.jar"/>
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296 <target name="build-Clustal-client-from-live-server">
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298 <wsimport wsdl="http://localhost:7979/ClustalWS?wsdl"
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299 sourcedestdir="${basedir}/webservices/"
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304 package="compbio.ws.client.stub"
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309 <target name="build-Muscle-client-from-live-server">
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310 <wsimport wsdl="http://localhost:7979/MuscleWS?wsdl"
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311 sourcedestdir="${basedir}/webservices/"
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316 package="compbio.ws.client.stub"
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322 <target name="build-client-jar" description="Pack WS client into a single jar THIS IS EXAMPLE ONLY!">
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323 <echo>Jar file: wsclient</echo>
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324 <delete file="${basedir}/resources/wsclient.jar">
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326 <jar jarfile="${basedir}/resources/wsclient.jar">
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327 <fileset dir="${basedir}/WebContent/WEB-INF/classes/" includes="org/pimslims/ws/client/**/*.class" />
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328 <fileset dir="${classes}" includes="org/pimslims/sec/*,org/pimslims/lab/Util.class" />
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329 <zipfileset excludes="META-INF/*.SF" src="D:/workspace/current-pims-web/WebContent/WEB-INF/lib/webservices-rt.jar" />
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331 <attribute name="Built-By" value="${user.name}" />
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332 <attribute name="Main-Class" value="org.pimslims.ws.client.FileUploadClient" />
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333 <attribute name="Class-Path" value="." />
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334 <attribute name="Implementation-Title" value="PIMS File Upload Web Service Client" />
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335 <attribute name="Implementation-Vendor" value="The PIMS team" />
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336 <attribute name="Implementation-URL" value="http://www.pims-lims.org" />
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342 <target name="run-client-jar" description="THIS IS EXAMPLE ONLY">
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343 <java jar="${basedir}/resources/wsclient.jar" fork="true" failonerror="true" maxmemory="256m">
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344 <arg value="C:/Documents and Settings/pvt43/Desktop/Leeds Sequencing/Copy of Files to up load" />
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348 <target name="run-client-class" description="THIS IS EXAMPLE ONLY">
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349 <java classname="org.pimslims.ws.client.FileUploadClient" fork="true" failonerror="true" maxmemory="256m">
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350 <classpath refid="project.classpath" />
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351 <classpath refid="instrument.classpath" />
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