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="${basedir}/webservices/compbio/ws/server/resource" />
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21 <property name="clustal.wsdl" location="${wsdl.dir}/ClustalWS.wsdl" />
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22 <property name="muscle.wsdl" location="${wsdl.dir}/MuscleWS.wsdl" />
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23 <property name="tcoffee.wsdl" location="${wsdl.dir}/TcoffeeWS.wsdl" />
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24 <property name="mafft.wsdl" location="${wsdl.dir}/MafftWS.wsdl" />
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25 <property name="aacon.wsdl" location="${wsdl.dir}/AAConWS.wsdl" />
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26 <property name="disembl.wsdl" location="${wsdl.dir}/DisemblWS.wsdl" />
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27 <property name="globplot.wsdl" location="${wsdl.dir}/GlobPlotWS.wsdl" />
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28 <property name="iupred.wsdl" location="${wsdl.dir}/IUPredWS.wsdl" />
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29 <property name="jronn.wsdl" location="${wsdl.dir}/JronnWS.wsdl" />
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30 <property name="registry.wsdl" location="${wsdl.dir}/RegistryWS.wsdl" />
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31 <property name="rnaalifold.wsdl" location="${wsdl.dir}/RNAalifold.wsdl" />
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32 <taskdef name="wsgen" onerror="report" classname="com.sun.tools.ws.ant.WsGen">
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33 <classpath refid="project.classpath" />
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36 <target name="build-server">
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37 <!-- TODO this runs file from Eclipse, but with Ant only this need to depends on clean and build! -->
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38 <property name="server.artifacts.dir" location="${basedir}/webservices/compbio/ws/server/jaxws/" />
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40 <mkdir dir="${server.artifacts.dir}" />
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41 <mkdir dir="${wsdl.dir}" />
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42 <delete quiet="false" verbose="true" failonerror="false">
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43 <fileset dir="${server.artifacts.dir}">
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44 <include name="*.java" />
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46 <fileset dir="${wsdl.dir}">
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49 <!-- destdir - Where to put generated classes -->
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50 <!-- sourcedestdir - Where to put generated source files -->
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51 <!-- resourcedestdir - Where to put generated source files -->
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53 <wsgen sei="compbio.ws.server.AAConWS"
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54 sourcedestdir="${basedir}/webservices"
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55 destdir="${classes}"
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56 resourcedestdir="${wsdl.dir}"
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57 keep="true" genwsdl="true"
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61 <classpath refid="classes.path" />
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62 <classpath refid="project.classpath" />
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64 <wsgen sei="compbio.ws.server.ClustalWS"
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65 sourcedestdir="${basedir}/webservices"
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66 destdir="${classes}"
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67 resourcedestdir="${wsdl.dir}"
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68 keep="true" genwsdl="true"
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72 <classpath refid="classes.path" />
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73 <classpath refid="project.classpath" />
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75 <wsgen sei="compbio.ws.server.MuscleWS"
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76 sourcedestdir="${basedir}/webservices"
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77 destdir="${classes}"
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78 resourcedestdir="${wsdl.dir}"
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79 keep="true" genwsdl="true"
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83 <classpath refid="classes.path" />
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84 <classpath refid="project.classpath" />
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86 <wsgen sei="compbio.ws.server.MafftWS"
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87 sourcedestdir="${basedir}/webservices"
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88 destdir="${classes}"
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89 resourcedestdir="${wsdl.dir}"
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90 keep="true" genwsdl="true"
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94 <classpath refid="classes.path" />
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95 <classpath refid="project.classpath" />
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97 <wsgen sei="compbio.ws.server.TcoffeeWS"
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98 sourcedestdir="${basedir}/webservices"
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99 destdir="${classes}"
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100 resourcedestdir="${wsdl.dir}"
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101 keep="true" genwsdl="true"
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105 <classpath refid="classes.path" />
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106 <classpath refid="project.classpath" />
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108 <wsgen sei="compbio.ws.server.DisemblWS"
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109 sourcedestdir="${basedir}/webservices"
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110 destdir="${classes}"
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111 resourcedestdir="${wsdl.dir}"
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112 keep="true" genwsdl="true"
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116 <classpath refid="classes.path" />
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117 <classpath refid="project.classpath" />
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119 <wsgen sei="compbio.ws.server.GlobPlotWS"
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120 sourcedestdir="${basedir}/webservices"
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121 destdir="${classes}"
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122 resourcedestdir="${wsdl.dir}"
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123 keep="true" genwsdl="true"
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127 <classpath refid="classes.path" />
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128 <classpath refid="project.classpath" />
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130 <wsgen sei="compbio.ws.server.JronnWS"
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131 sourcedestdir="${basedir}/webservices"
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132 destdir="${classes}"
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133 resourcedestdir="${wsdl.dir}"
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134 keep="true" genwsdl="true"
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138 <classpath refid="classes.path" />
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139 <classpath refid="project.classpath" />
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141 <wsgen sei="compbio.ws.server.IUPredWS"
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142 sourcedestdir="${basedir}/webservices"
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143 destdir="${classes}"
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144 resourcedestdir="${wsdl.dir}"
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145 keep="true" genwsdl="true"
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149 <classpath refid="classes.path" />
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150 <classpath refid="project.classpath" />
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152 <wsgen sei="compbio.ws.server.RegistryWS"
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153 sourcedestdir="${basedir}/webservices"
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154 destdir="${classes}"
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155 resourcedestdir="${wsdl.dir}"
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156 keep="true" genwsdl="true"
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160 <classpath refid="classes.path" />
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161 <classpath refid="project.classpath" />
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164 <wsgen sei="compbio.ws.server.RNAalifoldWS"
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165 sourcedestdir="${basedir}/webservices"
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166 destdir="${classes}"
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167 resourcedestdir="${wsdl.dir}"
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168 keep="true" genwsdl="true"
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172 <classpath refid="classes.path" />
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173 <classpath refid="project.classpath" />
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179 <taskdef name="wsimport" classname="com.sun.tools.ws.ant.WsImport">
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180 <classpath refid="project.classpath" />
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183 <target name="build-clients">
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184 <property name="client.artifacts.dir" location="${basedir}/webservices/compbio/ws/client/stub" />
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186 <mkdir dir="${client.artifacts.dir}" />
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187 <delete quiet="false" verbose="true" failonerror="true">
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188 <fileset dir="${client.artifacts.dir}">
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189 <include name="*.java" />
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192 <wsimport wsdl="${clustal.wsdl}"
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193 sourcedestdir="${basedir}/webservices/"
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194 keep="true" extension="false"
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195 verbose="true" xnocompile="true" xendorsed="true"
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196 package="compbio.ws.client.stub" target="2.1"
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199 <wsimport wsdl="${muscle.wsdl}"
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200 sourcedestdir="${basedir}/webservices/"
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201 keep="true" extension="false"
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202 verbose="true" xnocompile="true" xendorsed="true"
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203 package="compbio.ws.client.stub" target="2.1"
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206 <wsimport wsdl="${mafft.wsdl}"
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207 sourcedestdir="${basedir}/webservices/"
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208 keep="true" extension="false"
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209 verbose="true" xnocompile="true" xendorsed="true"
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210 package="compbio.ws.client.stub" target="2.1"
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213 <wsimport wsdl="${tcoffee.wsdl}"
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214 sourcedestdir="${basedir}/webservices/"
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215 keep="true" extension="false"
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216 verbose="true" xnocompile="true" xendorsed="true"
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217 package="compbio.ws.client.stub" target="2.1"
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220 <wsimport wsdl="${iupred.wsdl}"
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221 sourcedestdir="${basedir}/webservices/"
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222 keep="true" extension="false"
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223 verbose="true" xnocompile="true" xendorsed="true"
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224 package="compbio.ws.client.stub" target="2.1"
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227 <wsimport wsdl="${registry.wsdl}"
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228 sourcedestdir="${basedir}/webservices/"
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229 keep="true" extension="false"
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230 verbose="true" xnocompile="true" xendorsed="true"
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231 package="compbio.ws.client.stub" target="2.1"
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235 <wsimport wsdl="${rnaalifold.wsdl}"
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236 sourcedestdir="${basedir}/webservices/"
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237 keep="true" extension="false"
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238 verbose="true" xnocompile="true" xendorsed="true"
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239 package="compbio.ws.client.stub" target="2.1"
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246 <target name="Build artifacts from schema" description="Test task to generate JaxB commons annotated data classes DOES NOT REALLY WORK">
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247 <taskdef name="xjc" classname="com.sun.tools.xjc.XJCTask">
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248 <classpath refid="project.classpath" />
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250 <mkdir dir="${basedir}/src/test" />
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251 <xjc schema="${wsdl.dir}/SyncMsaWS_schema1.xsd" destdir="${basedir}/src/test">
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252 <arg value="-Xcommons-lang" />
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254 <produces dir="${basedir}/src/test" />
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255 <classpath refid="classes.path" />
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257 <fileset dir="${basedir}/lib">
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258 //JAXB2 Basics library
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259 <include name="jaxb2-basics-*.jar"/>
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260 // JAXB2 Basics library dependencies
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261 <include name="jaxb2-basics-runtime-*.jar"/>
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262 <include name="jaxb2-basics-tools-*.jar"/>
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263 <include name="commons-beanutils-*.jar"/>
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264 <include name="commons-lang-*.jar"/>
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265 <include name="commons-logging-*.jar"/>
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276 <target name="build-Clustal-client-from-live-server">
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278 <wsimport wsdl="http://localhost:7979/ClustalWS?wsdl"
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279 sourcedestdir="${basedir}/webservices/"
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284 package="compbio.ws.client.stub"
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289 <target name="build-Muscle-client-from-live-server">
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290 <wsimport wsdl="http://localhost:7979/MuscleWS?wsdl"
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291 sourcedestdir="${basedir}/webservices/"
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296 package="compbio.ws.client.stub"
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302 <target name="build-client-jar" description="Pack WS client into a single jar THIS IS EXAMPLE ONLY!">
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303 <echo>Jar file: wsclient</echo>
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304 <delete file="${basedir}/resources/wsclient.jar">
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306 <jar jarfile="${basedir}/resources/wsclient.jar">
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307 <fileset dir="${basedir}/WebContent/WEB-INF/classes/" includes="org/pimslims/ws/client/**/*.class" />
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308 <fileset dir="${classes}" includes="org/pimslims/sec/*,org/pimslims/lab/Util.class" />
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309 <zipfileset excludes="META-INF/*.SF" src="D:/workspace/current-pims-web/WebContent/WEB-INF/lib/webservices-rt.jar" />
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311 <attribute name="Built-By" value="${user.name}" />
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312 <attribute name="Main-Class" value="org.pimslims.ws.client.FileUploadClient" />
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313 <attribute name="Class-Path" value="." />
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314 <attribute name="Implementation-Title" value="PIMS File Upload Web Service Client" />
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315 <attribute name="Implementation-Vendor" value="The PIMS team" />
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316 <attribute name="Implementation-URL" value="http://www.pims-lims.org" />
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322 <target name="run-client-jar" description="THIS IS EXAMPLE ONLY">
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323 <java jar="${basedir}/resources/wsclient.jar" fork="true" failonerror="true" maxmemory="256m">
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324 <arg value="C:/Documents and Settings/pvt43/Desktop/Leeds Sequencing/Copy of Files to up load" />
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328 <target name="run-client-class" description="THIS IS EXAMPLE ONLY">
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329 <java classname="org.pimslims.ws.client.FileUploadClient" fork="true" failonerror="true" maxmemory="256m">
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330 <classpath refid="project.classpath" />
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331 <classpath refid="instrument.classpath" />
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