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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25 <!-- Session timeout in minutes -->
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27 <session-timeout>20</session-timeout>
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32 <display-name>This is a standard tomcat 'default' servlet for making listings</display-name>
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33 <servlet-name>listings</servlet-name>
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34 <servlet-class>org.apache.catalina.servlets.DefaultServlet</servlet-class>
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36 <param-name>debug</param-name>
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37 <param-value>0</param-value>
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40 <param-name>readonly</param-name>
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41 <param-value>true</param-value>
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44 <param-name>listings</param-name>
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45 <param-value>true</param-value>
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47 <load-on-startup>1</load-on-startup>
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51 <!-- JABAWS servlets -->
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53 <description>Display pre-calculated accounting info</description>
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54 <servlet-name>DisplayStat</servlet-name>
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55 <servlet-class>compbio.stat.servlet.DisplayStat</servlet-class>
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59 <description>WebServices Status</description>
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60 <servlet-name>ServiceStatus</servlet-name>
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61 <servlet-class>compbio.stat.servlet.ServiceStatus</servlet-class>
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65 <servlet-name>DownloadRedirector</servlet-name>
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66 <servlet-class>compbio.stat.servlet.DownloadRedirector</servlet-class>
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70 <description>WebService Status with no UI. Accepts web service name as a parameter</description>
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71 <servlet-name>HttpCodeResponseServiceStatus</servlet-name>
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72 <servlet-class>compbio.stat.servlet.HttpCodeResponseServiceStatus</servlet-class>
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76 <description>Display job list</description>
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77 <servlet-name>Joblist</servlet-name>
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78 <servlet-class>compbio.stat.servlet.Joblist</servlet-class>
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82 <description>Display monthly summary statistics</description>
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83 <servlet-name>AnnualStat</servlet-name>
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84 <servlet-class>compbio.stat.servlet.AnnualStat</servlet-class>
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88 <description>Display monthly summary statistics with no links to details</description>
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89 <servlet-name>PublicAnnualStat</servlet-name>
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90 <servlet-class>compbio.stat.servlet.AnnualStat</servlet-class>
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94 <servlet-name>RegistryWS</servlet-name>
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95 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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96 <load-on-startup>1</load-on-startup>
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100 <servlet-name>ClustalWS</servlet-name>
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101 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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102 <load-on-startup>1</load-on-startup>
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106 <servlet-name>ClustalOWS</servlet-name>
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107 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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108 <load-on-startup>1</load-on-startup>
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112 <servlet-name>MuscleWS</servlet-name>
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113 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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114 <load-on-startup>1</load-on-startup>
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118 <servlet-name>MafftWS</servlet-name>
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119 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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120 <load-on-startup>1</load-on-startup>
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124 <servlet-name>TcoffeeWS</servlet-name>
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125 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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126 <load-on-startup>1</load-on-startup>
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130 <servlet-name>ProbconsWS</servlet-name>
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131 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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132 <load-on-startup>1</load-on-startup>
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136 <servlet-name>MSAprobsWS</servlet-name>
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137 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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138 <load-on-startup>1</load-on-startup>
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142 <servlet-name>GLprobsWS</servlet-name>
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143 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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144 <load-on-startup>1</load-on-startup>
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148 <servlet-name>AAConWS</servlet-name>
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149 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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150 <load-on-startup>1</load-on-startup>
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154 <servlet-name>JronnWS</servlet-name>
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155 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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156 <load-on-startup>1</load-on-startup>
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160 <servlet-name>DisemblWS</servlet-name>
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161 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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162 <load-on-startup>1</load-on-startup>
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166 <servlet-name>GlobPlotWS</servlet-name>
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167 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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168 <load-on-startup>1</load-on-startup>
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172 <servlet-name>IUPredWS</servlet-name>
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173 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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174 <load-on-startup>1</load-on-startup>
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178 <servlet-name>JpredWS</servlet-name>
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179 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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180 <load-on-startup>1</load-on-startup>
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183 <servlet-name>RNAalifoldWS</servlet-name>
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184 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>
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185 <load-on-startup>1</load-on-startup>
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188 <!-- JABAWS servlet mappings -->
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190 <servlet-name>listings</servlet-name>
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191 <url-pattern>/</url-pattern>
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195 <servlet-name>DownloadRedirector</servlet-name>
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196 <url-pattern>/download</url-pattern>
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200 <servlet-name>DisplayStat</servlet-name>
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201 <url-pattern>/DisplayStat</url-pattern>
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205 <servlet-name>ServiceStatus</servlet-name>
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206 <url-pattern>/ServiceStatus</url-pattern>
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210 <servlet-name>HttpCodeResponseServiceStatus</servlet-name>
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211 <url-pattern>/HttpCodeResponseServiceStatus/*</url-pattern>
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215 <servlet-name>AnnualStat</servlet-name>
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216 <url-pattern>/AnnualStat</url-pattern>
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220 <servlet-name>PublicAnnualStat</servlet-name>
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221 <url-pattern>/PublicAnnualStat</url-pattern>
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225 <servlet-name>Joblist</servlet-name>
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226 <url-pattern>/Joblist</url-pattern>
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230 <servlet-name>RegistryWS</servlet-name>
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231 <url-pattern>/RegistryWS</url-pattern>
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235 <servlet-name>ClustalWS</servlet-name>
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236 <url-pattern>/ClustalWS</url-pattern>
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240 <servlet-name>ClustalOWS</servlet-name>
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241 <url-pattern>/ClustalOWS</url-pattern>
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245 <servlet-name>MuscleWS</servlet-name>
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246 <url-pattern>/MuscleWS</url-pattern>
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250 <servlet-name>MafftWS</servlet-name>
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251 <url-pattern>/MafftWS</url-pattern>
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255 <servlet-name>TcoffeeWS</servlet-name>
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256 <url-pattern>/TcoffeeWS</url-pattern>
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260 <servlet-name>ProbconsWS</servlet-name>
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261 <url-pattern>/ProbconsWS</url-pattern>
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265 <servlet-name>MSAprobsWS</servlet-name>
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266 <url-pattern>/MSAprobsWS</url-pattern>
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270 <servlet-name>GLprobsWS</servlet-name>
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271 <url-pattern>/GLprobsWS</url-pattern>
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275 <servlet-name>AAConWS</servlet-name>
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276 <url-pattern>/AAConWS</url-pattern>
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280 <servlet-name>JronnWS</servlet-name>
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281 <url-pattern>/JronnWS</url-pattern>
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285 <servlet-name>DisemblWS</servlet-name>
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286 <url-pattern>/DisemblWS</url-pattern>
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290 <servlet-name>GlobPlotWS</servlet-name>
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291 <url-pattern>/GlobPlotWS</url-pattern>
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295 <servlet-name>IUPredWS</servlet-name>
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296 <url-pattern>/IUPredWS</url-pattern>
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300 <servlet-name>JpredWS</servlet-name>
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301 <url-pattern>/JpredWS</url-pattern>
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305 <servlet-name>RNAalifoldWS</servlet-name>
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306 <url-pattern>/RNAalifoldWS</url-pattern>
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310 <!-- JABAWS security constraints -->
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311 <security-constraint>
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312 <web-resource-collection>
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313 <web-resource-name>Administrator pages</web-resource-name>
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314 <!-- Prohibit access to any resources -->
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315 <url-pattern>/DisplayStat</url-pattern>
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316 <url-pattern>/Joblist</url-pattern>
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317 <url-pattern>/AnnualStat</url-pattern>
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318 <url-pattern>/conf/*</url-pattern>
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319 <url-pattern>/binaries/*</url-pattern>
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320 <url-pattern>/jobsout/*</url-pattern>
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321 <url-pattern>/testsrc/*</url-pattern>
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322 <url-pattern>/lib/*</url-pattern>
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323 <url-pattern>/test-output/*</url-pattern>
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324 <!-- Uncomment this to secure services status checker
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325 <url-pattern>/HttpCodeResponseServiceStatus/*</url-pattern>
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326 <url-pattern>/ServiceStatus</url-pattern>
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328 <!-- No http-method means all methods are constrained -->
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329 </web-resource-collection>
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331 <role-name>admin</role-name>
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333 </security-constraint>
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336 <!-- unsupported HTTP methods -->
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337 <security-constraint>
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338 <web-resource-collection>
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339 <web-resource-name>unsupported HTTP methods</web-resource-name>
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340 <url-pattern>/*</url-pattern>
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341 <http-method>PUT</http-method>
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342 <http-method>DELETE</http-method>
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343 <http-method>TRACE</http-method>
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344 <http-method>OPTIONS</http-method>
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345 </web-resource-collection>
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347 </security-constraint>
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350 <!-- Define the Login Configuration for this Application -->
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352 <auth-method>BASIC</auth-method>
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353 <realm-name>JABAWS administrators</realm-name>
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357 <!-- Security roles referenced by this web application -->
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359 <description>The role that is required to log in and view JABAWS internals</description>
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360 <role-name>admin</role-name>
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