.idea/workspace.xml

   1 <?xml version="1.0" encoding="UTF-8"?>
   2 <project version="4">
   3   <component name="AnalysisUIOptions">
   4     <option name="CUSTOM_SCOPE_NAME" value="Hierarchy of compbio.data.sequence.Alignment" />
   5     <option name="ANALYSIS_IN_BACKGROUND" value="true" />
   6   </component>
   7   <component name="ChangeListManager">
   8     <list default="true" id="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" name="Default" comment="">
   9       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/website/archive/datamodel-2.0.jar" afterPath="$PROJECT_DIR$/website/archive/datamodel-2.0.jar" />
  10       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/website/archive/min-jaba-client-2.0.jar" afterPath="$PROJECT_DIR$/website/archive/min-jaba-client-2.0.jar" />
  11       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/webservices/compbio/ws/client/CmdHelper.java" afterPath="$PROJECT_DIR$/webservices/compbio/ws/client/CmdHelper.java" />
  12       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/webservices/compbio/ws/client/Constraints.java" afterPath="$PROJECT_DIR$/webservices/compbio/ws/client/Constraints.java" />
  13       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/webservices/compbio/ws/server/GenericMetadataService.java" afterPath="$PROJECT_DIR$/webservices/compbio/ws/server/GenericMetadataService.java" />
  14       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/webservices/compbio/ws/client/IOHelper.java" afterPath="$PROJECT_DIR$/webservices/compbio/ws/client/IOHelper.java" />
  15       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/webservices/compbio/data/msa/MsaWS.java" afterPath="$PROJECT_DIR$/webservices/compbio/data/msa/MsaWS.java" />
  16       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/how_to_add_new_webservice.txt" afterPath="$PROJECT_DIR$/how_to_add_new_webservice.txt" />
  17       <change type="MODIFICATION" beforePath="$PROJECT_DIR$/.idea/workspace.xml" afterPath="$PROJECT_DIR$/.idea/workspace.xml" />
  18     </list>
  19     <ignored path="jabaws-dev.iws" />
  20     <ignored path=".idea/workspace.xml" />
  21     <file path="/Dummy.txt" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1366363375133" ignored="false" />
  22     <file path="$PROJECT_DIR$/web/WEB-INF/web.xml" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1364569053673" ignored="false" />
  23     <file path="$PROJECT_DIR$/../../jaba-git2/jabaws-dev/webservices/compbio/ws/server/JronnWS.java" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1364571910193" ignored="false" />
  24     <file path="$PROJECT_DIR$/../../jaba-git2/jabaws-dev/testsrc/compbio/runner/msa/ClustalOTester.java" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1364569115977" ignored="false" />
  25     <file path="/CmdHelper.java" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1364576877598" ignored="false" />
  26     <file path="/IOHelper.java" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1364577189175" ignored="false" />
  27     <file path="/WSUtil.java" changelist="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" time="1364651934576" ignored="false" />
  28     <option name="TRACKING_ENABLED" value="true" />
  29     <option name="SHOW_DIALOG" value="false" />
  30     <option name="HIGHLIGHT_CONFLICTS" value="true" />
  31     <option name="HIGHLIGHT_NON_ACTIVE_CHANGELIST" value="false" />
  32     <option name="LAST_RESOLUTION" value="IGNORE" />
  33   </component>
  34   <component name="ChangesViewManager" flattened_view="true" show_ignored="false" />
  35   <component name="Commander">
  36     <leftPanel />
  37     <rightPanel />
  38     <splitter proportion="0.5" />
  39   </component>
  40   <component name="CreatePatchCommitExecutor">
  41     <option name="PATCH_PATH" value="" />
  42   </component>
  43   <component name="DaemonCodeAnalyzer">
  44     <disable_hints />
  45   </component>
  46   <component name="DatabaseView">
  47     <flatten value="false" />
  48     <groupTables value="false" />
  49     <sortChildren value="false" />
  50   </component>
  51   <component name="DebuggerManager">
  52     <breakpoint_any default_suspend_policy="SuspendAll" default_condition_enabled="true">
  53       <breakpoint>
  54         <option name="NOTIFY_CAUGHT" value="true" />
  55         <option name="NOTIFY_UNCAUGHT" value="true" />
  56         <option name="ENABLED" value="false" />
  57         <option name="LOG_ENABLED" value="false" />
  58         <option name="LOG_EXPRESSION_ENABLED" value="false" />
  59         <option name="SUSPEND_POLICY" value="SuspendAll" />
  60         <option name="SUSPEND" value="true" />
  61         <option name="COUNT_FILTER_ENABLED" value="false" />
  62         <option name="COUNT_FILTER" value="0" />
  63         <option name="CONDITION_ENABLED" value="true" />
  64         <option name="CLASS_FILTERS_ENABLED" value="false" />
  65         <option name="INSTANCE_FILTERS_ENABLED" value="false" />
  66         <option name="CONDITION" value="" />
  67         <option name="LOG_MESSAGE" value="" />
  68       </breakpoint>
  69       <breakpoint>
  70         <option name="NOTIFY_CAUGHT" value="true" />
  71         <option name="NOTIFY_UNCAUGHT" value="true" />
  72         <option name="ENABLED" value="false" />
  73         <option name="LOG_ENABLED" value="false" />
  74         <option name="LOG_EXPRESSION_ENABLED" value="false" />
  75         <option name="SUSPEND_POLICY" value="SuspendAll" />
  76         <option name="SUSPEND" value="true" />
  77         <option name="COUNT_FILTER_ENABLED" value="false" />
  78         <option name="COUNT_FILTER" value="0" />
  79         <option name="CONDITION_ENABLED" value="true" />
  80         <option name="CLASS_FILTERS_ENABLED" value="false" />
  81         <option name="INSTANCE_FILTERS_ENABLED" value="false" />
  82         <option name="CONDITION" value="" />
  83         <option name="LOG_MESSAGE" value="" />
  84       </breakpoint>
  85     </breakpoint_any>
  86     <ui_properties default_suspend_policy="SuspendAll" default_condition_enabled="true" />
  87     <breakpoint_rules />
  88     <ui_properties />
  89   </component>
  90   <component name="ExecutionTargetManager" SELECTED_TARGET="default_target" />
  91   <component name="FavoritesManager">
  92     <favorites_list name="jabaws-dev" />
  93   </component>
  94   <component name="FileEditorManager">
  95     <leaf>
  96       <file leaf-file-name="CmdHelper.java" pinned="false" current="true" current-in-tab="true">
  97         <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/client/CmdHelper.java">
  98           <provider selected="true" editor-type-id="text-editor">
  99             <state line="149" column="5" selection-start="4013" selection-end="4013" vertical-scroll-proportion="0.8697271">
 100               <folding>
 101                 <element signature="e#0#4016#0" expanded="true" />
 102               </folding>
 103             </state>
 104           </provider>
 105         </entry>
 106       </file>
 107     </leaf>
 108   </component>
 109   <component name="FindManager">
 110     <FindUsagesManager>
 111       <setting name="OPEN_NEW_TAB" value="false" />
 112     </FindUsagesManager>
 113   </component>
 114   <component name="Git.Settings">
 115     <option name="RECENT_GIT_ROOT_PATH" value="$PROJECT_DIR$" />
 116   </component>
 117   <component name="GitLogSettings">
 118     <option name="myStructureFilterPaths" />
 119     <option name="myDateState">
 120       <MyDateState />
 121     </option>
 122   </component>
 123   <component name="IdeDocumentHistory">
 124     <option name="changedFiles">
 125       <list>
 126         <option value="$PROJECT_DIR$/webservices/compbio/ws/server/GenericMetadataService.java" />
 127         <option value="$PROJECT_DIR$/webservices/compbio/ws/client/Constraints.java" />
 128         <option value="$PROJECT_DIR$/webservices/compbio/ws/client/IOHelper.java" />
 129         <option value="$PROJECT_DIR$/webservices/compbio/ws/client/Jws2Client.java" />
 130         <option value="$PROJECT_DIR$/webservices/compbio/data/msa/MsaWS.java" />
 131         <option value="$PROJECT_DIR$/webservices/compbio/ws/server/WSUtil.java" />
 132         <option value="$PROJECT_DIR$/webservices/compbio/ws/client/CmdHelper.java" />
 133       </list>
 134     </option>
 135   </component>
 136   <component name="ProjectFrameBounds">
 137     <option name="x" value="24" />
 138     <option name="y" value="24" />
 139     <option name="width" value="1896" />
 140     <option name="height" value="1153" />
 141   </component>
 142   <component name="ProjectInspectionProfilesVisibleTreeState">
 143     <entry key="Project Default">
 144       <profile-state>
 145         <expanded-state>
 146           <State>
 147             <id />
 148           </State>
 149         </expanded-state>
 150         <selected-state>
 151           <State>
 152             <id>Abstraction issues</id>
 153           </State>
 154         </selected-state>
 155       </profile-state>
 156     </entry>
 157   </component>
 158   <component name="ProjectLevelVcsManager" settingsEditedManually="false">
 159     <OptionsSetting value="true" id="Add" />
 160     <OptionsSetting value="true" id="Remove" />
 161     <OptionsSetting value="true" id="Checkout" />
 162     <OptionsSetting value="true" id="Update" />
 163     <OptionsSetting value="true" id="Status" />
 164     <OptionsSetting value="true" id="Edit" />
 165     <OptionsSetting value="true" id="Undo Check Out" />
 166     <OptionsSetting value="true" id="Get Latest Version" />
 167     <ConfirmationsSetting value="1" id="Add" />
 168     <ConfirmationsSetting value="0" id="Remove" />
 169   </component>
 170   <component name="ProjectReloadState">
 171     <option name="STATE" value="0" />
 172   </component>
 173   <component name="ProjectView">
 174     <navigator currentView="ProjectPane" proportions="" version="1" splitterProportion="0.5">
 175       <flattenPackages />
 176       <showMembers />
 177       <showModules />
 178       <showLibraryContents />
 179       <hideEmptyPackages />
 180       <abbreviatePackageNames />
 181       <autoscrollToSource />
 182       <autoscrollFromSource />
 183       <sortByType />
 184     </navigator>
 185     <panes>
 186       <pane id="PackagesPane" />
 187       <pane id="ProjectPane">
 188         <subPane>
 189           <PATH>
 190             <PATH_ELEMENT>
 191               <option name="myItemId" value="jabaws-dev" />
 192               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ProjectViewProjectNode" />
 193             </PATH_ELEMENT>
 194             <PATH_ELEMENT>
 195               <option name="myItemId" value="External Libraries" />
 196               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ExternalLibrariesNode" />
 197             </PATH_ELEMENT>
 198           </PATH>
 199           <PATH>
 200             <PATH_ELEMENT>
 201               <option name="myItemId" value="jabaws-dev" />
 202               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ProjectViewProjectNode" />
 203             </PATH_ELEMENT>
 204             <PATH_ELEMENT>
 205               <option name="myItemId" value="jabaws-dev" />
 206               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 207             </PATH_ELEMENT>
 208           </PATH>
 209           <PATH>
 210             <PATH_ELEMENT>
 211               <option name="myItemId" value="jabaws-dev" />
 212               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ProjectViewProjectNode" />
 213             </PATH_ELEMENT>
 214             <PATH_ELEMENT>
 215               <option name="myItemId" value="jabaws-dev" />
 216               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 217             </PATH_ELEMENT>
 218             <PATH_ELEMENT>
 219               <option name="myItemId" value="webservices" />
 220               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 221             </PATH_ELEMENT>
 222             <PATH_ELEMENT>
 223               <option name="myItemId" value="compbio" />
 224               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 225             </PATH_ELEMENT>
 226             <PATH_ELEMENT>
 227               <option name="myItemId" value="ws" />
 228               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 229             </PATH_ELEMENT>
 230           </PATH>
 231           <PATH>
 232             <PATH_ELEMENT>
 233               <option name="myItemId" value="jabaws-dev" />
 234               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ProjectViewProjectNode" />
 235             </PATH_ELEMENT>
 236             <PATH_ELEMENT>
 237               <option name="myItemId" value="jabaws-dev" />
 238               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 239             </PATH_ELEMENT>
 240             <PATH_ELEMENT>
 241               <option name="myItemId" value="webservices" />
 242               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 243             </PATH_ELEMENT>
 244             <PATH_ELEMENT>
 245               <option name="myItemId" value="compbio" />
 246               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 247             </PATH_ELEMENT>
 248             <PATH_ELEMENT>
 249               <option name="myItemId" value="ws" />
 250               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 251             </PATH_ELEMENT>
 252             <PATH_ELEMENT>
 253               <option name="myItemId" value="client" />
 254               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 255             </PATH_ELEMENT>
 256           </PATH>
 257           <PATH>
 258             <PATH_ELEMENT>
 259               <option name="myItemId" value="jabaws-dev" />
 260               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ProjectViewProjectNode" />
 261             </PATH_ELEMENT>
 262             <PATH_ELEMENT>
 263               <option name="myItemId" value="jabaws-dev" />
 264               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 265             </PATH_ELEMENT>
 266             <PATH_ELEMENT>
 267               <option name="myItemId" value="webservices" />
 268               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 269             </PATH_ELEMENT>
 270             <PATH_ELEMENT>
 271               <option name="myItemId" value="compbio" />
 272               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 273             </PATH_ELEMENT>
 274             <PATH_ELEMENT>
 275               <option name="myItemId" value="stat" />
 276               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 277             </PATH_ELEMENT>
 278           </PATH>
 279           <PATH>
 280             <PATH_ELEMENT>
 281               <option name="myItemId" value="jabaws-dev" />
 282               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.ProjectViewProjectNode" />
 283             </PATH_ELEMENT>
 284             <PATH_ELEMENT>
 285               <option name="myItemId" value="jabaws-dev" />
 286               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 287             </PATH_ELEMENT>
 288             <PATH_ELEMENT>
 289               <option name="myItemId" value="webservices" />
 290               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 291             </PATH_ELEMENT>
 292             <PATH_ELEMENT>
 293               <option name="myItemId" value="compbio" />
 294               <option name="myItemType" value="com.intellij.ide.projectView.impl.nodes.PsiDirectoryNode" />
 295             </PATH_ELEMENT>
 296           </PATH>
 297         </subPane>
 298       </pane>
 299       <pane id="Scope" />
 300     </panes>
 301   </component>
 302   <component name="PropertiesComponent">
 303     <property name="project.structure.last.edited" value="Modules" />
 304     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatWidth0" value="214" />
 305     <property name="project.structure.proportion" value="0.15" />
 306     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatWidth1" value="233" />
 307     <property name="options.splitter.main.proportions" value="0.3" />
 308     <property name="MemberChooser.sorted" value="false" />
 309     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatOrder1" value="1" />
 310     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeWidth0" value="214" />
 311     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatOrder0" value="0" />
 312     <property name="last_opened_file_path" value="$PROJECT_DIR$/../../jaba-git2" />
 313     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatWidth2" value="240" />
 314     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeWidth3" value="1138" />
 315     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatWidth3" value="1138" />
 316     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeWidth2" value="240" />
 317     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeWidth1" value="233" />
 318     <property name="GoToClass.toSaveIncludeLibraries" value="false" />
 319     <property name="WebServerToolWindowFactoryState" value="false" />
 320     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatOrder2" value="2" />
 321     <property name="FileHistory.git4idea.history.GitHistoryProvider_flatOrder3" value="3" />
 322     <property name="MemberChooser.showClasses" value="true" />
 323     <property name="GoToClass.includeLibraries" value="false" />
 324     <property name="options.splitter.details.proportions" value="0.2" />
 325     <property name="GoToFile.includeJavaFiles" value="false" />
 326     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeOrder0" value="0" />
 327     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeOrder3" value="3" />
 328     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeOrder1" value="1" />
 329     <property name="FileHistory.git4idea.history.GitHistoryProvider_treeOrder2" value="2" />
 330     <property name="options.lastSelected" value="project.propVCSSupport.Mappings" />
 331     <property name="project.structure.side.proportion" value="0.2" />
 332     <property name="MemberChooser.copyJavadoc" value="false" />
 333     <property name="options.searchVisible" value="true" />
 334   </component>
 335   <component name="RunManager">
 336     <configuration default="true" type="#org.jetbrains.idea.devkit.run.PluginConfigurationType" factoryName="Plugin">
 337       <module name="" />
 338       <option name="VM_PARAMETERS" value="-Xmx512m -Xms256m -XX:MaxPermSize=250m" />
 339       <option name="PROGRAM_PARAMETERS" />
 340       <method />
 341     </configuration>
 342     <configuration default="true" type="Remote" factoryName="Remote">
 343       <option name="USE_SOCKET_TRANSPORT" value="true" />
 344       <option name="SERVER_MODE" value="false" />
 345       <option name="SHMEM_ADDRESS" value="javadebug" />
 346       <option name="HOST" value="localhost" />
 347       <option name="PORT" value="5005" />
 348       <method />
 349     </configuration>
 350     <configuration default="true" type="TestNG" factoryName="TestNG">
 351       <extension name="coverage" enabled="false" merge="false" sample_coverage="true" runner="idea" />
 352       <module name="" />
 353       <option name="ALTERNATIVE_JRE_PATH_ENABLED" value="false" />
 354       <option name="ALTERNATIVE_JRE_PATH" />
 355       <option name="SUITE_NAME" />
 356       <option name="PACKAGE_NAME" />
 357       <option name="MAIN_CLASS_NAME" />
 358       <option name="METHOD_NAME" />
 359       <option name="GROUP_NAME" />
 360       <option name="TEST_OBJECT" value="CLASS" />
 361       <option name="VM_PARAMETERS" value="-ea" />
 362       <option name="PARAMETERS" />
 363       <option name="WORKING_DIRECTORY" value="$PROJECT_DIR$" />
 364       <option name="OUTPUT_DIRECTORY" />
 365       <option name="ANNOTATION_TYPE" />
 366       <option name="ENV_VARIABLES" />
 367       <option name="PASS_PARENT_ENVS" value="true" />
 368       <option name="TEST_SEARCH_SCOPE">
 369         <value defaultName="moduleWithDependencies" />
 370       </option>
 371       <option name="USE_DEFAULT_REPORTERS" value="false" />
 372       <option name="PROPERTIES_FILE" />
 373       <envs />
 374       <properties />
 375       <listeners />
 376       <method />
 377     </configuration>
 378     <configuration default="true" type="Applet" factoryName="Applet">
 379       <module name="" />
 380       <option name="MAIN_CLASS_NAME" />
 381       <option name="HTML_FILE_NAME" />
 382       <option name="HTML_USED" value="false" />
 383       <option name="WIDTH" value="400" />
 384       <option name="HEIGHT" value="300" />
 385       <option name="POLICY_FILE" value="$APPLICATION_HOME_DIR$/bin/appletviewer.policy" />
 386       <option name="VM_PARAMETERS" />
 387       <option name="ALTERNATIVE_JRE_PATH_ENABLED" value="false" />
 388       <option name="ALTERNATIVE_JRE_PATH" />
 389       <method />
 390     </configuration>
 391     <configuration default="true" type="Application" factoryName="Application">
 392       <extension name="coverage" enabled="false" merge="false" sample_coverage="true" runner="idea" />
 393       <option name="MAIN_CLASS_NAME" />
 394       <option name="VM_PARAMETERS" />
 395       <option name="PROGRAM_PARAMETERS" />
 396       <option name="WORKING_DIRECTORY" value="$PROJECT_DIR$" />
 397       <option name="ALTERNATIVE_JRE_PATH_ENABLED" value="false" />
 398       <option name="ALTERNATIVE_JRE_PATH" />
 399       <option name="ENABLE_SWING_INSPECTOR" value="false" />
 400       <option name="ENV_VARIABLES" />
 401       <option name="PASS_PARENT_ENVS" value="true" />
 402       <module name="" />
 403       <envs />
 404       <method />
 405     </configuration>
 406     <configuration default="true" type="JUnit" factoryName="JUnit">
 407       <extension name="coverage" enabled="false" merge="false" sample_coverage="true" runner="idea" />
 408       <module name="" />
 409       <option name="ALTERNATIVE_JRE_PATH_ENABLED" value="false" />
 410       <option name="ALTERNATIVE_JRE_PATH" />
 411       <option name="PACKAGE_NAME" />
 412       <option name="MAIN_CLASS_NAME" />
 413       <option name="METHOD_NAME" />
 414       <option name="TEST_OBJECT" value="class" />
 415       <option name="VM_PARAMETERS" value="-ea" />
 416       <option name="PARAMETERS" />
 417       <option name="WORKING_DIRECTORY" value="$PROJECT_DIR$" />
 418       <option name="ENV_VARIABLES" />
 419       <option name="PASS_PARENT_ENVS" value="true" />
 420       <option name="TEST_SEARCH_SCOPE">
 421         <value defaultName="moduleWithDependencies" />
 422       </option>
 423       <envs />
 424       <patterns />
 425       <method />
 426     </configuration>
 427     <list size="0" />
 428     <configuration name="&lt;template&gt;" type="WebApp" default="true" selected="false">
 429       <Host>localhost</Host>
 430       <Port>5050</Port>
 431     </configuration>
 432   </component>
 433   <component name="ShelveChangesManager" show_recycled="false" />
 434   <component name="SliceManager">
 435     <option name="analysisUIOptions">
 436       <AnalysisUIOptions />
 437     </option>
 438   </component>
 439   <component name="SvnConfiguration" maxAnnotateRevisions="500" myUseAcceleration="nothing" myAutoUpdateAfterCommit="false" cleanupOnStartRun="false">
 440     <option name="USER" value="" />
 441     <option name="PASSWORD" value="" />
 442     <option name="mySSHConnectionTimeout" value="30000" />
 443     <option name="mySSHReadTimeout" value="30000" />
 444     <option name="LAST_MERGED_REVISION" />
 445     <option name="MERGE_DRY_RUN" value="false" />
 446     <option name="MERGE_DIFF_USE_ANCESTRY" value="true" />
 447     <option name="UPDATE_LOCK_ON_DEMAND" value="false" />
 448     <option name="IGNORE_SPACES_IN_MERGE" value="false" />
 449     <option name="DETECT_NESTED_COPIES" value="true" />
 450     <option name="CHECK_NESTED_FOR_QUICK_MERGE" value="false" />
 451     <option name="IGNORE_SPACES_IN_ANNOTATE" value="true" />
 452     <option name="SHOW_MERGE_SOURCES_IN_ANNOTATE" value="true" />
 453     <option name="FORCE_UPDATE" value="false" />
 454     <option name="IGNORE_EXTERNALS" value="false" />
 455     <myIsUseDefaultProxy>false</myIsUseDefaultProxy>
 456   </component>
 457   <component name="TaskManager">
 458     <task active="true" id="Default" summary="Default task">
 459       <changelist id="e8b4b79e-8aed-4386-9e7f-8dda0becf4dd" name="Default" comment="" />
 460       <created>1364568968761</created>
 461       <updated>1364568968761</updated>
 462     </task>
 463     <servers />
 464   </component>
 465   <component name="TodoView" selected-index="0">
 466     <todo-panel id="selected-file">
 467       <are-packages-shown value="false" />
 468       <are-modules-shown value="false" />
 469       <flatten-packages value="false" />
 470       <is-autoscroll-to-source value="true" />
 471     </todo-panel>
 472     <todo-panel id="all">
 473       <are-packages-shown value="true" />
 474       <are-modules-shown value="false" />
 475       <flatten-packages value="false" />
 476       <is-autoscroll-to-source value="true" />
 477     </todo-panel>
 478     <todo-panel id="default-changelist">
 479       <are-packages-shown value="false" />
 480       <are-modules-shown value="false" />
 481       <flatten-packages value="false" />
 482       <is-autoscroll-to-source value="false" />
 483     </todo-panel>
 484   </component>
 485   <component name="ToolWindowManager">
 486     <frame x="24" y="24" width="1896" height="1153" extended-state="0" />
 487     <editor active="true" />
 488     <layout>
 489       <window_info id="Changes" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.32685512" sideWeight="0.4939117" order="7" side_tool="false" content_ui="tabs" />
 490       <window_info id="JetGradle" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="3" side_tool="false" content_ui="tabs" />
 491       <window_info id="Palette" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="3" side_tool="false" content_ui="tabs" />
 492       <window_info id="Database" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.32994652" sideWeight="0.6556557" order="3" side_tool="false" content_ui="tabs" />
 493       <window_info id="Ant Build" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.24919786" sideWeight="0.6556557" order="1" side_tool="false" content_ui="tabs" />
 494       <window_info id="Debug" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.4" sideWeight="0.5" order="3" side_tool="false" content_ui="tabs" />
 495       <window_info id="IDEtalk Messages" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="7" side_tool="false" content_ui="tabs" />
 496       <window_info id="Event Log" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="true" weight="0.16316317" sideWeight="0.18569255" order="7" side_tool="true" content_ui="tabs" />
 497       <window_info id="Favorites" active="false" anchor="left" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.24544074" sideWeight="0.19223987" order="2" side_tool="true" content_ui="tabs" />
 498       <window_info id="IDEtalk" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.32978722" sideWeight="0.7918871" order="3" side_tool="false" content_ui="tabs" />
 499       <window_info id="Version Control" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.32804233" sideWeight="0.4969605" order="7" side_tool="false" content_ui="tabs" />
 500       <window_info id="Web" active="false" anchor="left" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="2" side_tool="true" content_ui="tabs" />
 501       <window_info id="TODO" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.32804233" sideWeight="0.4969605" order="6" side_tool="false" content_ui="tabs" />
 502       <window_info id="Structure" active="false" anchor="left" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.25" sideWeight="0.5" order="1" side_tool="true" content_ui="tabs" />
 503       <window_info id="Maven Projects" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="3" side_tool="false" content_ui="tabs" />
 504       <window_info id="Commander" active="false" anchor="right" auto_hide="false" internal_type="SLIDING" type="SLIDING" visible="false" weight="0.4" sideWeight="0.5" order="0" side_tool="false" content_ui="tabs" />
 505       <window_info id="Application Servers" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="7" side_tool="false" content_ui="tabs" />
 506       <window_info id="Project" active="false" anchor="left" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="true" weight="0.1719089" sideWeight="0.8368368" order="0" side_tool="false" content_ui="combo" />
 507       <window_info id="Run" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="2" side_tool="false" content_ui="tabs" />
 508       <window_info id="Hierarchy" active="false" anchor="right" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.25" sideWeight="0.5" order="2" side_tool="false" content_ui="combo" />
 509       <window_info id="Cvs" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.25" sideWeight="0.5" order="4" side_tool="false" content_ui="tabs" />
 510       <window_info id="Message" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="0" side_tool="false" content_ui="tabs" />
 511       <window_info id="Find" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.33" sideWeight="0.5" order="1" side_tool="false" content_ui="tabs" />
 512       <window_info id="Messages" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.21621622" sideWeight="0.5" order="7" side_tool="false" content_ui="tabs" />
 513       <window_info id="Dependency Viewer" active="true" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="true" weight="1.0" sideWeight="0.8089802" order="7" side_tool="false" content_ui="tabs" />
 514       <window_info id="Inspection" active="false" anchor="bottom" auto_hide="false" internal_type="DOCKED" type="DOCKED" visible="false" weight="0.26631394" sideWeight="0.4969605" order="5" side_tool="false" content_ui="tabs" />
 515     </layout>
 516   </component>
 517   <component name="VcsContentAnnotationSettings">
 518     <option name="myLimit" value="2678400000" />
 519   </component>
 520   <component name="VcsManagerConfiguration">
 521     <option name="OFFER_MOVE_TO_ANOTHER_CHANGELIST_ON_PARTIAL_COMMIT" value="true" />
 522     <option name="CHECK_CODE_SMELLS_BEFORE_PROJECT_COMMIT" value="true" />
 523     <option name="CHECK_NEW_TODO" value="true" />
 524     <option name="myTodoPanelSettings">
 525       <value>
 526         <are-packages-shown value="false" />
 527         <are-modules-shown value="false" />
 528         <flatten-packages value="false" />
 529         <is-autoscroll-to-source value="false" />
 530       </value>
 531     </option>
 532     <option name="PERFORM_UPDATE_IN_BACKGROUND" value="true" />
 533     <option name="PERFORM_COMMIT_IN_BACKGROUND" value="true" />
 534     <option name="PERFORM_EDIT_IN_BACKGROUND" value="true" />
 535     <option name="PERFORM_CHECKOUT_IN_BACKGROUND" value="true" />
 536     <option name="PERFORM_ADD_REMOVE_IN_BACKGROUND" value="true" />
 537     <option name="PERFORM_ROLLBACK_IN_BACKGROUND" value="false" />
 538     <option name="CHECK_LOCALLY_CHANGED_CONFLICTS_IN_BACKGROUND" value="false" />
 539     <option name="CHANGED_ON_SERVER_INTERVAL" value="60" />
 540     <option name="SHOW_ONLY_CHANGED_IN_SELECTION_DIFF" value="true" />
 541     <option name="CHECK_COMMIT_MESSAGE_SPELLING" value="true" />
 542     <option name="DEFAULT_PATCH_EXTENSION" value="patch" />
 543     <option name="SHORT_DIFF_HORISONTALLY" value="true" />
 544     <option name="SHORT_DIFF_EXTRA_LINES" value="2" />
 545     <option name="SOFT_WRAPS_IN_SHORT_DIFF" value="true" />
 546     <option name="INCLUDE_TEXT_INTO_PATCH" value="false" />
 547     <option name="INCLUDE_TEXT_INTO_SHELF" value="false" />
 548     <option name="SHOW_FILE_HISTORY_DETAILS" value="true" />
 549     <option name="SHOW_VCS_ERROR_NOTIFICATIONS" value="true" />
 550     <option name="SHOW_DIRTY_RECURSIVELY" value="false" />
 551     <option name="LIMIT_HISTORY" value="true" />
 552     <option name="MAXIMUM_HISTORY_ROWS" value="1000" />
 553     <option name="FORCE_NON_EMPTY_COMMENT" value="false" />
 554     <option name="CLEAR_INITIAL_COMMIT_MESSAGE" value="false" />
 555     <option name="LAST_COMMIT_MESSAGE" />
 556     <option name="MAKE_NEW_CHANGELIST_ACTIVE" value="false" />
 557     <option name="OPTIMIZE_IMPORTS_BEFORE_PROJECT_COMMIT" value="false" />
 558     <option name="CHECK_FILES_UP_TO_DATE_BEFORE_COMMIT" value="false" />
 559     <option name="REFORMAT_BEFORE_PROJECT_COMMIT" value="false" />
 560     <option name="REFORMAT_BEFORE_FILE_COMMIT" value="false" />
 561     <option name="FILE_HISTORY_DIALOG_COMMENTS_SPLITTER_PROPORTION" value="0.8" />
 562     <option name="FILE_HISTORY_DIALOG_SPLITTER_PROPORTION" value="0.5" />
 563     <option name="ACTIVE_VCS_NAME" />
 564     <option name="UPDATE_GROUP_BY_PACKAGES" value="false" />
 565     <option name="UPDATE_GROUP_BY_CHANGELIST" value="false" />
 566     <option name="SHOW_FILE_HISTORY_AS_TREE" value="false" />
 567     <option name="FILE_HISTORY_SPLITTER_PROPORTION" value="0.6" />
 568   </component>
 569   <component name="XDebuggerManager">
 570     <breakpoint-manager />
 571   </component>
 572   <component name="antWorkspaceConfiguration">
 573     <option name="IS_AUTOSCROLL_TO_SOURCE" value="false" />
 574     <option name="FILTER_TARGETS" value="false" />
 575     <buildFile url="file://$PROJECT_DIR$/build.xml">
 576       <antCommandLine value="" />
 577       <runInBackground value="true" />
 578       <targetFilters />
 579       <treeView value="true" />
 580       <verbose value="true" />
 581       <viewClosedWhenNoErrors value="false" />
 582       <expanded value="true" />
 583     </buildFile>
 584   </component>
 585   <component name="editorHistoryManager">
 586     <entry file="file://$PROJECT_DIR$/webservices/compbio/data/msa/MsaWS.java">
 587       <provider selected="true" editor-type-id="text-editor">
 588         <state line="42" column="96" selection-start="1482" selection-end="1482" vertical-scroll-proportion="0.0" />
 589       </provider>
 590     </entry>
 591     <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/server/WSUtil.java">
 592       <provider selected="true" editor-type-id="text-editor">
 593         <state line="54" column="71" selection-start="1995" selection-end="1995" vertical-scroll-proportion="0.0" />
 594       </provider>
 595     </entry>
 596     <entry file="file://$PROJECT_DIR$/engine/compbio/engine/client/SkeletalExecutable.java">
 597       <provider selected="true" editor-type-id="text-editor">
 598         <state line="34" column="22" selection-start="1243" selection-end="1243" vertical-scroll-proportion="0.0" />
 599       </provider>
 600     </entry>
 601     <entry file="file://$PROJECT_DIR$/webservices/compbio/data/msa/jaxws/WrongParameterExceptionBean.java">
 602       <provider selected="true" editor-type-id="text-editor">
 603         <state line="18" column="13" selection-start="588" selection-end="588" vertical-scroll-proportion="0.0" />
 604       </provider>
 605     </entry>
 606     <entry file="file://$PROJECT_DIR$/engine/compbio/engine/ClusterJobId.java">
 607       <provider selected="true" editor-type-id="text-editor">
 608         <state line="24" column="13" selection-start="918" selection-end="918" vertical-scroll-proportion="0.025423728" />
 609       </provider>
 610     </entry>
 611     <entry file="file://$PROJECT_DIR$/datamodel/compbio/data/sequence/Alignment.java">
 612       <provider selected="true" editor-type-id="text-editor">
 613         <state line="39" column="30" selection-start="1355" selection-end="1355" vertical-scroll-proportion="0.025423728">
 614           <folding />
 615         </state>
 616       </provider>
 617     </entry>
 618     <entry file="file://$PROJECT_DIR$/testsrc/compbio/data/sequence/ClustalAlignmentUtilTester.java">
 619       <provider selected="true" editor-type-id="text-editor">
 620         <state line="35" column="13" selection-start="1265" selection-end="1265" vertical-scroll-proportion="0.025423728" />
 621       </provider>
 622     </entry>
 623     <entry file="jar://$PROJECT_DIR$/website/archive/full-jaba-client-2.0.jar!/compbio/data/sequence/UnknownFileFormatException.class">
 624       <provider selected="true" editor-type-id="text-editor">
 625         <state line="6" column="13" selection-start="164" selection-end="164" vertical-scroll-proportion="0.11523688" />
 626       </provider>
 627     </entry>
 628     <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/server/SequenceAnnotationService.java">
 629       <provider selected="true" editor-type-id="text-editor">
 630         <state line="59" column="88" selection-start="2026" selection-end="2026" vertical-scroll-proportion="0.08808933" />
 631       </provider>
 632     </entry>
 633     <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/server/DisemblWS.java">
 634       <provider selected="true" editor-type-id="text-editor">
 635         <state line="21" column="19" selection-start="870" selection-end="870" vertical-scroll-proportion="0.0" />
 636       </provider>
 637     </entry>
 638     <entry file="file://$PROJECT_DIR$/runner/compbio/runner/disorder/Disembl.java">
 639       <provider selected="true" editor-type-id="text-editor">
 640         <state line="102" column="37" selection-start="3854" selection-end="3854" vertical-scroll-proportion="0.55334985" />
 641       </provider>
 642     </entry>
 643     <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/client/WSTester.java">
 644       <provider selected="true" editor-type-id="text-editor">
 645         <state line="217" column="71" selection-start="6468" selection-end="6468" vertical-scroll-proportion="-2.8287842">
 646           <folding />
 647         </state>
 648       </provider>
 649     </entry>
 650     <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/client/Services.java">
 651       <provider selected="true" editor-type-id="text-editor">
 652         <state line="59" column="53" selection-start="2017" selection-end="2017" vertical-scroll-proportion="-0.3215637">
 653           <folding />
 654         </state>
 655       </provider>
 656     </entry>
 657     <entry file="file://$PROJECT_DIR$/datamodel/compbio/data/sequence/FastaReader.java">
 658       <provider selected="true" editor-type-id="text-editor">
 659         <state line="142" column="80" selection-start="4861" selection-end="4861" vertical-scroll-proportion="0.23455234">
 660           <folding>
 661             <element signature="e#0#6325#0" expanded="true" />
 662           </folding>
 663         </state>
 664       </provider>
 665     </entry>
 666     <entry file="file://$PROJECT_DIR$/datamodel/compbio/data/sequence/FastaSequence.java">
 667       <provider selected="true" editor-type-id="text-editor">
 668         <state line="43" column="13" selection-start="1519" selection-end="1519" vertical-scroll-proportion="0.018610422">
 669           <folding />
 670         </state>
 671       </provider>
 672     </entry>
 673     <entry file="file://$PROJECT_DIR$/webservices/compbio/ws/client/CmdHelper.java">
 674       <provider selected="true" editor-type-id="text-editor">
 675         <state line="149" column="5" selection-start="4013" selection-end="4013" vertical-scroll-proportion="0.8697271">
 676           <folding>
 677             <element signature="e#0#4016#0" expanded="true" />
 678           </folding>
 679         </state>
 680       </provider>
 681     </entry>
 682   </component>
 683   <component name="masterDetails">
 684     <states>
 685       <state key="ArtifactsStructureConfigurable.UI">
 686         <settings>
 687           <artifact-editor />
 688           <splitter-proportions>
 689             <option name="proportions">
 690               <list>
 691                 <option value="0.2" />
 692               </list>
 693             </option>
 694           </splitter-proportions>
 695         </settings>
 696       </state>
 697       <state key="FacetStructureConfigurable.UI">
 698         <settings>
 699           <last-edited>Web</last-edited>
 700           <splitter-proportions>
 701             <option name="proportions">
 702               <list>
 703                 <option value="0.2" />
 704               </list>
 705             </option>
 706           </splitter-proportions>
 707         </settings>
 708       </state>
 709       <state key="GlobalLibrariesConfigurable.UI">
 710         <settings>
 711           <splitter-proportions>
 712             <option name="proportions">
 713               <list>
 714                 <option value="0.2" />
 715               </list>
 716             </option>
 717           </splitter-proportions>
 718         </settings>
 719       </state>
 720       <state key="JdkListConfigurable.UI">
 721         <settings>
 722           <last-edited>1.6</last-edited>
 723           <splitter-proportions>
 724             <option name="proportions">
 725               <list>
 726                 <option value="0.2" />
 727               </list>
 728             </option>
 729           </splitter-proportions>
 730         </settings>
 731       </state>
 732       <state key="ModuleStructureConfigurable.UI">
 733         <settings>
 734           <last-edited>jabaws-dev</last-edited>
 735           <splitter-proportions>
 736             <option name="proportions">
 737               <list>
 738                 <option value="0.2" />
 739               </list>
 740             </option>
 741           </splitter-proportions>
 742         </settings>
 743       </state>
 744       <state key="ProjectJDKs.UI">
 745         <settings>
 746           <last-edited>1.6</last-edited>
 747           <splitter-proportions>
 748             <option name="proportions">
 749               <list>
 750                 <option value="0.2" />
 751               </list>
 752             </option>
 753           </splitter-proportions>
 754         </settings>
 755       </state>
 756       <state key="ProjectLibrariesConfigurable.UI">
 757         <settings>
 758           <last-edited>lib</last-edited>
 759           <splitter-proportions>
 760             <option name="proportions">
 761               <list>
 762                 <option value="0.2" />
 763               </list>
 764             </option>
 765           </splitter-proportions>
 766         </settings>
 767       </state>
 768       <state key="ScopeChooserConfigurable.UI">
 769         <settings>
 770           <splitter-proportions>
 771             <option name="proportions">
 772               <list>
 773                 <option value="0.27700832" />
 774               </list>
 775             </option>
 776           </splitter-proportions>
 777         </settings>
 778       </state>
 779     </states>
 780   </component>
 781 </project>
 782