WEB-INF/web.xml

   1 <web-app xmlns="http://java.sun.com/xml/ns/j2ee"\r
   2  xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"\r
   3  xsi:schemaLocation="http://java.sun.com/xml/ns/j2ee http://java.sun.com/xml/ns/j2ee/web-app_2_4.xsd"\r
   4  version="2.4">\r
   5 \r
   6 <display-name>ProteoCache</display-name>\r
   7 <description>ProteoCache - Results repository for the Dundee Resource</description>\r
   8 \r
   9         <welcome-file-list>\r
  10                 <welcome-file>Index.jsp</welcome-file>\r
  11         </welcome-file-list>\r
  12 \r
  13         <!-- ProteoCache listeners -->\r
  14         <listener>\r
  15                 <listener-class>compbio.listeners.ContextListener</listener-class>\r
  16         </listener>\r
  17 \r
  18 \r
  19         <!-- Session timeout in minutes -->\r
  20         <session-config>\r
  21                 <session-timeout>20</session-timeout>\r
  22         </session-config>\r
  23 \r
  24 \r
  25         <servlet>\r
  26                 <display-name>This is a standard tomcat 'default' servlet for making listings</display-name>\r
  27                 <servlet-name>listings</servlet-name>\r
  28                 <servlet-class>org.apache.catalina.servlets.DefaultServlet</servlet-class>\r
  29                 <init-param>\r
  30                         <param-name>debug</param-name>\r
  31                         <param-value>0</param-value>\r
  32                 </init-param>\r
  33                 <init-param>\r
  34                         <param-name>readonly</param-name>\r
  35                         <param-value>true</param-value>\r
  36                 </init-param>\r
  37                 <init-param>\r
  38                         <param-name>listings</param-name>\r
  39                         <param-value>true</param-value>\r
  40                 </init-param>\r
  41                 <load-on-startup>1</load-on-startup>\r
  42         </servlet>\r
  43 \r
  44 \r
  45         <!-- ProteoCache servlets -->\r
  46 <!--\r
  47         <servlet>\r
  48                 <description>Display pre-calculated accounting info</description>\r
  49                 <servlet-name>DisplayStat</servlet-name>\r
  50                 <servlet-class>compbio.stat.servlet.DisplayStat</servlet-class>\r
  51         </servlet>\r
  52 \r
  53         <servlet>\r
  54                 <description>WebServices Status</description>\r
  55                 <servlet-name>ServiceStatus</servlet-name>\r
  56                 <servlet-class>compbio.stat.servlet.ServiceStatus</servlet-class>\r
  57         </servlet>\r
  58 \r
  59         <servlet>\r
  60                 <servlet-name>DownloadRedirector</servlet-name>\r
  61                 <servlet-class>compbio.stat.servlet.DownloadRedirector</servlet-class>\r
  62         </servlet>\r
  63 \r
  64         <servlet>\r
  65                 <description>WebService Status with no UI. Accepts web service name as a parameter</description>\r
  66                 <servlet-name>HttpCodeResponseServiceStatus</servlet-name>\r
  67                 <servlet-class>compbio.stat.servlet.HttpCodeResponseServiceStatus</servlet-class>\r
  68         </servlet>\r
  69 \r
  70         <servlet>\r
  71                 <description>Display job list</description>\r
  72                 <servlet-name>Joblist</servlet-name>\r
  73                 <servlet-class>compbio.stat.servlet.Joblist</servlet-class>\r
  74         </servlet>\r
  75 \r
  76         <servlet>\r
  77                 <description>Display monthly summary statistics</description>\r
  78                 <servlet-name>AnnualStat</servlet-name>\r
  79                 <servlet-class>compbio.stat.servlet.AnnualStat</servlet-class>\r
  80         </servlet>\r
  81 \r
  82         <servlet>\r
  83                 <description>Display monthly summary statistics with no links to details</description>\r
  84                 <servlet-name>PublicAnnualStat</servlet-name>\r
  85                 <servlet-class>compbio.stat.servlet.AnnualStat</servlet-class>\r
  86         </servlet>\r
  87 \r
  88         <servlet>\r
  89                 <servlet-name>RegistryWS</servlet-name>\r
  90                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
  91                 <load-on-startup>1</load-on-startup>\r
  92         </servlet>\r
  93 \r
  94         <servlet>\r
  95                 <servlet-name>ClustalWS</servlet-name>\r
  96                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
  97                 <load-on-startup>1</load-on-startup>\r
  98         </servlet>\r
  99 \r
 100         <servlet>\r
 101                 <servlet-name>ClustalOWS</servlet-name>\r
 102                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 103                 <load-on-startup>1</load-on-startup>\r
 104         </servlet>\r
 105 \r
 106         <servlet>\r
 107                 <servlet-name>MuscleWS</servlet-name>\r
 108                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 109                 <load-on-startup>1</load-on-startup>\r
 110         </servlet>\r
 111 \r
 112         <servlet>\r
 113                 <servlet-name>MafftWS</servlet-name>\r
 114                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 115                 <load-on-startup>1</load-on-startup>\r
 116         </servlet>\r
 117 \r
 118         <servlet>\r
 119                 <servlet-name>TcoffeeWS</servlet-name>\r
 120                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 121                 <load-on-startup>1</load-on-startup>\r
 122         </servlet>\r
 123 \r
 124         <servlet>\r
 125                 <servlet-name>ProbconsWS</servlet-name>\r
 126                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 127                 <load-on-startup>1</load-on-startup>\r
 128         </servlet>\r
 129 \r
 130         <servlet>\r
 131                 <servlet-name>MSAprobsWS</servlet-name>\r
 132                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 133                 <load-on-startup>1</load-on-startup>\r
 134         </servlet>\r
 135 \r
 136         <servlet>\r
 137                 <servlet-name>GLprobsWS</servlet-name>\r
 138                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 139                 <load-on-startup>1</load-on-startup>\r
 140         </servlet>\r
 141 \r
 142         <servlet>\r
 143                 <servlet-name>AAConWS</servlet-name>\r
 144                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 145                 <load-on-startup>1</load-on-startup>\r
 146         </servlet>\r
 147 \r
 148         <servlet>\r
 149                 <servlet-name>JronnWS</servlet-name>\r
 150                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 151                 <load-on-startup>1</load-on-startup>\r
 152         </servlet>\r
 153 \r
 154         <servlet>\r
 155                 <servlet-name>DisemblWS</servlet-name>\r
 156                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 157                 <load-on-startup>1</load-on-startup>\r
 158         </servlet>\r
 159 \r
 160         <servlet>\r
 161                 <servlet-name>GlobPlotWS</servlet-name>\r
 162                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 163                 <load-on-startup>1</load-on-startup>\r
 164         </servlet>\r
 165 \r
 166         <servlet>\r
 167                 <servlet-name>IUPredWS</servlet-name>\r
 168                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 169                 <load-on-startup>1</load-on-startup>\r
 170         </servlet>\r
 171 \r
 172         <servlet>\r
 173                 <servlet-name>JpredWS</servlet-name>\r
 174                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 175                 <load-on-startup>1</load-on-startup>\r
 176         </servlet>\r
 177         <servlet>\r
 178                 <servlet-name>RNAalifoldWS</servlet-name>\r
 179                 <servlet-class>com.sun.xml.ws.transport.http.servlet.WSServlet</servlet-class>\r
 180                 <load-on-startup>1</load-on-startup>\r
 181         </servlet>\r
 182 -->\r
 183 \r
 184 \r
 185 \r
 186         <!-- ProteoCache servlet mappings -->\r
 187 <!--\r
 188         <servlet-mapping>\r
 189                 <servlet-name>listings</servlet-name>\r
 190                 <url-pattern>/</url-pattern>\r
 191         </servlet-mapping>\r
 192 \r
 193         <servlet-mapping>\r
 194                 <servlet-name>DownloadRedirector</servlet-name>\r
 195                 <url-pattern>/download</url-pattern>\r
 196         </servlet-mapping>\r
 197 \r
 198         <servlet-mapping>\r
 199                 <servlet-name>DisplayStat</servlet-name>\r
 200                 <url-pattern>/DisplayStat</url-pattern>\r
 201         </servlet-mapping>\r
 202 \r
 203         <servlet-mapping>\r
 204                 <servlet-name>ServiceStatus</servlet-name>\r
 205                 <url-pattern>/ServiceStatus</url-pattern>\r
 206         </servlet-mapping>\r
 207 \r
 208         <servlet-mapping>\r
 209                 <servlet-name>HttpCodeResponseServiceStatus</servlet-name>\r
 210                 <url-pattern>/HttpCodeResponseServiceStatus/*</url-pattern>\r
 211         </servlet-mapping>\r
 212 \r
 213         <servlet-mapping>\r
 214                 <servlet-name>AnnualStat</servlet-name>\r
 215                 <url-pattern>/AnnualStat</url-pattern>\r
 216         </servlet-mapping>\r
 217 \r
 218         <servlet-mapping>\r
 219                 <servlet-name>PublicAnnualStat</servlet-name>\r
 220                 <url-pattern>/PublicAnnualStat</url-pattern>\r
 221         </servlet-mapping>\r
 222 \r
 223         <servlet-mapping>\r
 224                 <servlet-name>Joblist</servlet-name>\r
 225                 <url-pattern>/Joblist</url-pattern>\r
 226         </servlet-mapping>\r
 227 \r
 228         <servlet-mapping>\r
 229                 <servlet-name>RegistryWS</servlet-name>\r
 230                 <url-pattern>/RegistryWS</url-pattern>\r
 231         </servlet-mapping>\r
 232 \r
 233         <servlet-mapping>\r
 234                 <servlet-name>ClustalWS</servlet-name>\r
 235                 <url-pattern>/ClustalWS</url-pattern>\r
 236         </servlet-mapping>\r
 237 \r
 238         <servlet-mapping>\r
 239                 <servlet-name>ClustalOWS</servlet-name>\r
 240                 <url-pattern>/ClustalOWS</url-pattern>\r
 241         </servlet-mapping>\r
 242 \r
 243         <servlet-mapping>\r
 244                 <servlet-name>MuscleWS</servlet-name>\r
 245                 <url-pattern>/MuscleWS</url-pattern>\r
 246         </servlet-mapping>\r
 247 \r
 248         <servlet-mapping>\r
 249                 <servlet-name>MafftWS</servlet-name>\r
 250                 <url-pattern>/MafftWS</url-pattern>\r
 251         </servlet-mapping>\r
 252 \r
 253         <servlet-mapping>\r
 254                 <servlet-name>TcoffeeWS</servlet-name>\r
 255                 <url-pattern>/TcoffeeWS</url-pattern>\r
 256         </servlet-mapping>\r
 257 \r
 258         <servlet-mapping>\r
 259                 <servlet-name>ProbconsWS</servlet-name>\r
 260                 <url-pattern>/ProbconsWS</url-pattern>\r
 261         </servlet-mapping>\r
 262 \r
 263         <servlet-mapping>\r
 264                 <servlet-name>MSAprobsWS</servlet-name>\r
 265                 <url-pattern>/MSAprobsWS</url-pattern>\r
 266         </servlet-mapping>\r
 267 \r
 268         <servlet-mapping>\r
 269                 <servlet-name>GLprobsWS</servlet-name>\r
 270                 <url-pattern>/GLprobsWS</url-pattern>\r
 271         </servlet-mapping>\r
 272 \r
 273         <servlet-mapping>\r
 274                 <servlet-name>AAConWS</servlet-name>\r
 275                 <url-pattern>/AAConWS</url-pattern>\r
 276         </servlet-mapping>\r
 277 \r
 278         <servlet-mapping>\r
 279                 <servlet-name>JronnWS</servlet-name>\r
 280                 <url-pattern>/JronnWS</url-pattern>\r
 281         </servlet-mapping>\r
 282 \r
 283         <servlet-mapping>\r
 284                 <servlet-name>DisemblWS</servlet-name>\r
 285                 <url-pattern>/DisemblWS</url-pattern>\r
 286         </servlet-mapping>\r
 287 \r
 288         <servlet-mapping>\r
 289                 <servlet-name>GlobPlotWS</servlet-name>\r
 290                 <url-pattern>/GlobPlotWS</url-pattern>\r
 291         </servlet-mapping>\r
 292 \r
 293         <servlet-mapping>\r
 294                 <servlet-name>IUPredWS</servlet-name>\r
 295                 <url-pattern>/IUPredWS</url-pattern>\r
 296         </servlet-mapping>\r
 297 \r
 298         <servlet-mapping>\r
 299                 <servlet-name>JpredWS</servlet-name>\r
 300                 <url-pattern>/JpredWS</url-pattern>\r
 301         </servlet-mapping>\r
 302 \r
 303         <servlet-mapping>\r
 304                 <servlet-name>RNAalifoldWS</servlet-name>\r
 305                 <url-pattern>/RNAalifoldWS</url-pattern>\r
 306         </servlet-mapping>\r
 307 -->\r
 308 \r
 309 \r
 310         <!-- ProteoCache security constraints -->\r
 311         <security-constraint>\r
 312                 <web-resource-collection>\r
 313                 <web-resource-name>Administrator pages</web-resource-name>\r
 314                         <!-- Prohibit access to any resources -->\r
 315                         <url-pattern>/DisplayStat</url-pattern>\r
 316                         <url-pattern>/Joblist</url-pattern>\r
 317                         <url-pattern>/AnnualStat</url-pattern>\r
 318                         <url-pattern>/conf/*</url-pattern>\r
 319                         <url-pattern>/binaries/*</url-pattern>\r
 320                         <url-pattern>/testsrc/*</url-pattern>\r
 321                         <url-pattern>/lib/*</url-pattern>\r
 322                         <!-- Uncomment this to secure services status checker \r
 323                         <url-pattern>/HttpCodeResponseServiceStatus/*</url-pattern>\r
 324                         <url-pattern>/ServiceStatus</url-pattern>\r
 325                         -->\r
 326                         <!-- No http-method means all methods are constrained -->\r
 327                 </web-resource-collection>\r
 328                 <auth-constraint>\r
 329                         <role-name>admin</role-name>\r
 330                 </auth-constraint>\r
 331         </security-constraint>\r
 332 \r
 333 \r
 334         <!-- unsupported HTTP methods -->\r
 335         <security-constraint>\r
 336                 <web-resource-collection>\r
 337                         <web-resource-name>unsupported HTTP methods</web-resource-name>\r
 338                         <url-pattern>/*</url-pattern>\r
 339                         <http-method>PUT</http-method>\r
 340                         <http-method>DELETE</http-method>\r
 341                         <http-method>TRACE</http-method>\r
 342                         <http-method>OPTIONS</http-method>\r
 343                 </web-resource-collection>\r
 344                 <auth-constraint/>\r
 345         </security-constraint>\r
 346 \r
 347         <!-- Define the Login Configuration for this Application -->\r
 348         <login-config>\r
 349                 <auth-method>BASIC</auth-method>\r
 350                 <realm-name>ProteCache administrators</realm-name>\r
 351         </login-config>\r
 352 \r
 353 \r
 354         <!-- Security roles referenced by this web application -->\r
 355         <security-role>\r
 356                 <description>The role that is required to log in and view ProteCache internals</description>\r
 357                 <role-name>admin</role-name>\r
 358         </security-role>\r
 359 \r
 360 </web-app>\r