1 <web-app xmlns="http://java.sun.com/xml/ns/j2ee"
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2 xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
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3 xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/web-app_2_4.xsd"
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6 <display-name>JABAWS</display-name>
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7 <description>JAva Bioinformatics Analysis Web Services (JABAWS) v.2</description>
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10 <!-- JABAWS listeners -->
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12 <listener-class>compbio.ws.server.MainManager</listener-class>
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15 <listener-class>compbio.stat.servlet.StatisticCollector</listener-class>
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18 <listener-class>compbio.ws.server.SetExecutableFlag</listener-class>
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21 <listener-class>com.sun.xml.ws.transport.http.servlet.WSServletContextListener</listener-class>
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24 <!-- Session timeout in minutes -->
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26 <session-timeout>20</session-timeout>
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31 <display-name>This is a standard tomcat 'default' servlet for making listings</display-name>
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32 <servlet-name>listings</servlet-name>
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33 <servlet-class>org.apache.catalina.servlets.DefaultServlet</servlet-class>
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35 <param-name>debug</param-name>
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36 <param-value>0</param-value>
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39 <param-name>readonly</param-name>
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40 <param-value>true</param-value>
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43 <param-name>listings</param-name>
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44 <param-value>true</param-value>
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46 <load-on-startup>1</load-on-startup>
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50 <!-- JABAWS servlets -->
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52 <description>Display pre-calculated accounting info</description>
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53 <servlet-name>DisplayStat</servlet-name>
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54 <servlet-class>compbio.stat.servlet.DisplayStat</servlet-class>
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58 <description>WebServices Status</description>
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59 <servlet-name>ServiceStatus</servlet-name>
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60 <servlet-class>compbio.stat.servlet.ServiceStatus</servlet-class>
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64 <servlet-name>DownloadRedirector</servlet-name>
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65 <servlet-class>compbio.stat.servlet.DownloadRedirector</servlet-class>
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69 <description>WebService Status with no UI. Accepts web service name as a parameter</description>
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70 <servlet-name>HttpCodeResponseServiceStatus</servlet-name>
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71 <servlet-class>compbio.stat.servlet.HttpCodeResponseServiceStatus</servlet-class>
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75 <description>Display job list</description>
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76 <servlet-name>Joblist</servlet-name>
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77 <servlet-class>compbio.stat.servlet.Joblist</servlet-class>
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81 <description>Display monthly summary statistics</description>
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82 <servlet-name>AnnualStat</servlet-name>
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83 <servlet-class>compbio.stat.servlet.AnnualStat</servlet-class>
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87 <description>Display monthly summary statistics with no links to details</description>
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88 <servlet-name>PublicAnnualStat</servlet-name>
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89 <servlet-class>compbio.stat.servlet.AnnualStat</servlet-class>
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93 <servlet-name>RegistryWS</servlet-name>
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94 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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95 <load-on-startup>1</load-on-startup>
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99 <servlet-name>ClustalWS</servlet-name>
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100 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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101 <load-on-startup>1</load-on-startup>
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105 <servlet-name>ClustalOWS</servlet-name>
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106 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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107 <load-on-startup>1</load-on-startup>
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111 <servlet-name>MuscleWS</servlet-name>
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112 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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113 <load-on-startup>1</load-on-startup>
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117 <servlet-name>MafftWS</servlet-name>
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118 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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119 <load-on-startup>1</load-on-startup>
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123 <servlet-name>TcoffeeWS</servlet-name>
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124 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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125 <load-on-startup>1</load-on-startup>
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129 <servlet-name>ProbconsWS</servlet-name>
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130 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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131 <load-on-startup>1</load-on-startup>
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135 <servlet-name>AAConWS</servlet-name>
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136 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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137 <load-on-startup>1</load-on-startup>
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141 <servlet-name>JronnWS</servlet-name>
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142 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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143 <load-on-startup>1</load-on-startup>
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147 <servlet-name>DisemblWS</servlet-name>
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148 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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149 <load-on-startup>1</load-on-startup>
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153 <servlet-name>GlobPlotWS</servlet-name>
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154 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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155 <load-on-startup>1</load-on-startup>
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159 <servlet-name>IUPredWS</servlet-name>
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160 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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161 <load-on-startup>1</load-on-startup>
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165 <servlet-name>RNAalifoldWS</servlet-name>
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166 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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167 <load-on-startup>1</load-on-startup>
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170 <display-name>Apache-Axis Servlet</display-name>
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171 <servlet-name>AxisServlet</servlet-name>
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172 <servlet-class>org.apache.axis.transport.http.AxisServlet</servlet-class>
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175 <display-name>Axis Admin Servlet</display-name>
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176 <servlet-name>AdminServlet</servlet-name>
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177 <servlet-class>org.apache.axis.transport.http.AdminServlet</servlet-class>
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178 <load-on-startup>100</load-on-startup>
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182 <servlet-name>JpredWS</servlet-name>
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183 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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184 <load-on-startup>1</load-on-startup>
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187 <!-- JABAWS servlet mappings -->
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189 <servlet-name>listings</servlet-name>
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190 <url-pattern>/</url-pattern>
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194 <servlet-name>DownloadRedirector</servlet-name>
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195 <url-pattern>/download</url-pattern>
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199 <servlet-name>DisplayStat</servlet-name>
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200 <url-pattern>/DisplayStat</url-pattern>
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204 <servlet-name>ServiceStatus</servlet-name>
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205 <url-pattern>/ServiceStatus</url-pattern>
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209 <servlet-name>HttpCodeResponseServiceStatus</servlet-name>
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210 <url-pattern>/HttpCodeResponseServiceStatus/*</url-pattern>
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214 <servlet-name>AnnualStat</servlet-name>
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215 <url-pattern>/AnnualStat</url-pattern>
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219 <servlet-name>PublicAnnualStat</servlet-name>
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220 <url-pattern>/PublicAnnualStat</url-pattern>
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224 <servlet-name>Joblist</servlet-name>
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225 <url-pattern>/Joblist</url-pattern>
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229 <servlet-name>RegistryWS</servlet-name>
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230 <url-pattern>/RegistryWS</url-pattern>
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234 <servlet-name>ClustalWS</servlet-name>
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235 <url-pattern>/ClustalWS</url-pattern>
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239 <servlet-name>ClustalOWS</servlet-name>
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240 <url-pattern>/ClustalOWS</url-pattern>
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244 <servlet-name>MuscleWS</servlet-name>
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245 <url-pattern>/MuscleWS</url-pattern>
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249 <servlet-name>MafftWS</servlet-name>
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250 <url-pattern>/MafftWS</url-pattern>
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254 <servlet-name>TcoffeeWS</servlet-name>
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255 <url-pattern>/TcoffeeWS</url-pattern>
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259 <servlet-name>ProbconsWS</servlet-name>
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260 <url-pattern>/ProbconsWS</url-pattern>
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264 <servlet-name>AAConWS</servlet-name>
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265 <url-pattern>/AAConWS</url-pattern>
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269 <servlet-name>JronnWS</servlet-name>
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270 <url-pattern>/JronnWS</url-pattern>
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274 <servlet-name>DisemblWS</servlet-name>
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275 <url-pattern>/DisemblWS</url-pattern>
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279 <servlet-name>GlobPlotWS</servlet-name>
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280 <url-pattern>/GlobPlotWS</url-pattern>
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284 <servlet-name>IUPredWS</servlet-name>
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285 <url-pattern>/IUPredWS</url-pattern>
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289 <servlet-name>RNAalifoldWS</servlet-name>
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290 <url-pattern>/RNAalifoldWS</url-pattern>
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293 <servlet-name>AxisServlet</servlet-name>
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294 <url-pattern>/servlet/AxisServlet</url-pattern>
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297 <servlet-name>AxisServlet</servlet-name>
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298 <url-pattern>*.jws</url-pattern>
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301 <servlet-name>AxisServlet</servlet-name>
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302 <url-pattern>/services/*</url-pattern>
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305 <servlet-name>AdminServlet</servlet-name>
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306 <url-pattern>/servlet/AdminServlet</url-pattern>
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310 <servlet-name>JpredWS</servlet-name>
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311 <url-pattern>/JpredWS</url-pattern>
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315 <!-- JABAWS security constraints -->
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316 <security-constraint>
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317 <web-resource-collection>
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318 <web-resource-name>Administrator pages</web-resource-name>
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319 <!-- Prohibit access to any resources -->
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320 <url-pattern>/DisplayStat</url-pattern>
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321 <url-pattern>/Joblist</url-pattern>
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322 <url-pattern>/AnnualStat</url-pattern>
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323 <url-pattern>/conf/*</url-pattern>
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324 <url-pattern>/binaries/*</url-pattern>
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325 <url-pattern>/jobsout/*</url-pattern>
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326 <url-pattern>/testsrc/*</url-pattern>
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327 <url-pattern>/lib/*</url-pattern>
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328 <url-pattern>/test-output/*</url-pattern>
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329 <!-- Uncomment this to secure services status checker
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330 <url-pattern>/HttpCodeResponseServiceStatus/*</url-pattern>
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331 <url-pattern>/ServiceStatus</url-pattern>
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333 <!-- No http-method means all methods are constrained -->
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334 </web-resource-collection>
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336 <role-name>admin</role-name>
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338 </security-constraint>
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341 <!-- unsupported HTTP methods -->
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342 <security-constraint>
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343 <web-resource-collection>
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344 <web-resource-name>unsupported HTTP methods</web-resource-name>
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345 <url-pattern>/*</url-pattern>
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346 <http-method>PUT</http-method>
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347 <http-method>DELETE</http-method>
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348 <http-method>TRACE</http-method>
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349 <http-method>OPTIONS</http-method>
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350 </web-resource-collection>
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352 </security-constraint>
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355 <!-- Define the Login Configuration for this Application -->
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357 <auth-method>BASIC</auth-method>
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358 <realm-name>JABAWS administrators</realm-name>
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362 <!-- Security roles referenced by this web application -->
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364 <description>The role that is required to log in and view JABAWS internals</description>
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365 <role-name>admin</role-name>
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