website/full_javadoc/index-files/index-19.html

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  40   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A>&nbsp;</TD>\r
  41   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Package</FONT>&nbsp;</TD>\r
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  81 <A HREF="index-1.html">A</A> <A HREF="index-2.html">B</A> <A HREF="index-3.html">C</A> <A HREF="index-4.html">D</A> <A HREF="index-5.html">E</A> <A HREF="index-6.html">F</A> <A HREF="index-7.html">G</A> <A HREF="index-8.html">H</A> <A HREF="index-9.html">I</A> <A HREF="index-10.html">J</A> <A HREF="index-11.html">K</A> <A HREF="index-12.html">L</A> <A HREF="index-13.html">M</A> <A HREF="index-14.html">N</A> <A HREF="index-15.html">O</A> <A HREF="index-16.html">P</A> <A HREF="index-17.html">R</A> <A HREF="index-18.html">S</A> <A HREF="index-19.html">T</A> <A HREF="index-20.html">U</A> <A HREF="index-21.html">V</A> <A HREF="index-22.html">W</A> <A HREF="index-23.html">_</A> <HR>\r
  82 <A NAME="_T_"><!-- --></A><H2>\r
  83 <B>T</B></H2>\r
  84 <DL>\r
  85 <DT><A HREF="../compbio/runner/msa/Tcoffee.html" title="class in compbio.runner.msa"><B>Tcoffee</B></A> - Class in <A HREF="../compbio/runner/msa/package-summary.html">compbio.runner.msa</A><DD>&nbsp;<DT><A HREF="../compbio/runner/msa/Tcoffee.html#Tcoffee()"><B>Tcoffee()</B></A> - \r
  86 Constructor for class compbio.runner.msa.<A HREF="../compbio/runner/msa/Tcoffee.html" title="class in compbio.runner.msa">Tcoffee</A>\r
  87 <DD>&nbsp;\r
  88 <DT><A HREF="../compbio/ws/server/TcoffeeWS.html" title="class in compbio.ws.server"><B>TcoffeeWS</B></A> - Class in <A HREF="../compbio/ws/server/package-summary.html">compbio.ws.server</A><DD>&nbsp;<DT><A HREF="../compbio/ws/server/TcoffeeWS.html#TcoffeeWS()"><B>TcoffeeWS()</B></A> - \r
  89 Constructor for class compbio.ws.server.<A HREF="../compbio/ws/server/TcoffeeWS.html" title="class in compbio.ws.server">TcoffeeWS</A>\r
  90 <DD>&nbsp;\r
  91 <DT><A HREF="../compbio/engine/cluster/drmaa/StatisticManager.html#termSignal()"><B>termSignal()</B></A> - \r
  92 Method in class compbio.engine.cluster.drmaa.<A HREF="../compbio/engine/cluster/drmaa/StatisticManager.html" title="class in compbio.engine.cluster.drmaa">StatisticManager</A>\r
  93 <DD>&nbsp;\r
  94 <DT><A HREF="../compbio/data/msa/jaxws/TestAllServices.html" title="class in compbio.data.msa.jaxws"><B>TestAllServices</B></A> - Class in <A HREF="../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A><DD>&nbsp;<DT><A HREF="../compbio/data/msa/jaxws/TestAllServices.html#TestAllServices()"><B>TestAllServices()</B></A> - \r
  95 Constructor for class compbio.data.msa.jaxws.<A HREF="../compbio/data/msa/jaxws/TestAllServices.html" title="class in compbio.data.msa.jaxws">TestAllServices</A>\r
  96 <DD>&nbsp;\r
  97 <DT><A HREF="../compbio/data/msa/RegistryWS.html#testAllServices()"><B>testAllServices()</B></A> - \r
  98 Method in interface compbio.data.msa.<A HREF="../compbio/data/msa/RegistryWS.html" title="interface in compbio.data.msa">RegistryWS</A>\r
  99 <DD>Test all JABAWS services on the server\r
 100 <DT><A HREF="../compbio/ws/server/RegistryWS.html#testAllServices()"><B>testAllServices()</B></A> - \r
 101 Method in class compbio.ws.server.<A HREF="../compbio/ws/server/RegistryWS.html" title="class in compbio.ws.server">RegistryWS</A>\r
 102 <DD>TODO improve reporting.\r
 103 <DT><A HREF="../compbio/data/msa/jaxws/TestAllServicesResponse.html" title="class in compbio.data.msa.jaxws"><B>TestAllServicesResponse</B></A> - Class in <A HREF="../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A><DD>&nbsp;<DT><A HREF="../compbio/data/msa/jaxws/TestAllServicesResponse.html#TestAllServicesResponse()"><B>TestAllServicesResponse()</B></A> - \r
 104 Constructor for class compbio.data.msa.jaxws.<A HREF="../compbio/data/msa/jaxws/TestAllServicesResponse.html" title="class in compbio.data.msa.jaxws">TestAllServicesResponse</A>\r
 105 <DD>&nbsp;\r
 106 <DT><A HREF="../compbio/data/msa/jaxws/TestService.html" title="class in compbio.data.msa.jaxws"><B>TestService</B></A> - Class in <A HREF="../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A><DD>&nbsp;<DT><A HREF="../compbio/data/msa/jaxws/TestService.html#TestService()"><B>TestService()</B></A> - \r
 107 Constructor for class compbio.data.msa.jaxws.<A HREF="../compbio/data/msa/jaxws/TestService.html" title="class in compbio.data.msa.jaxws">TestService</A>\r
 108 <DD>&nbsp;\r
 109 <DT><A HREF="../compbio/data/msa/RegistryWS.html#testService(compbio.ws.client.Services)"><B>testService(Services)</B></A> - \r
 110 Method in interface compbio.data.msa.<A HREF="../compbio/data/msa/RegistryWS.html" title="interface in compbio.data.msa">RegistryWS</A>\r
 111 <DD>Test a particular service\r
 112 <DT><A HREF="../compbio/ws/client/Jws2Client.html#testService(java.lang.String, compbio.ws.client.Services, java.io.PrintWriter)"><B>testService(String, Services, PrintWriter)</B></A> - \r
 113 Static method in class compbio.ws.client.<A HREF="../compbio/ws/client/Jws2Client.html" title="class in compbio.ws.client">Jws2Client</A>\r
 114 <DD>Asks registry to test the service on the host hostname\r
 115 <DT><A HREF="../compbio/ws/server/RegistryWS.html#testService(compbio.ws.client.Services)"><B>testService(Services)</B></A> - \r
 116 Method in class compbio.ws.server.<A HREF="../compbio/ws/server/RegistryWS.html" title="class in compbio.ws.server">RegistryWS</A>\r
 117 <DD>&nbsp;\r
 118 <DT><A HREF="../compbio/data/msa/jaxws/TestServiceResponse.html" title="class in compbio.data.msa.jaxws"><B>TestServiceResponse</B></A> - Class in <A HREF="../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A><DD>&nbsp;<DT><A HREF="../compbio/data/msa/jaxws/TestServiceResponse.html#TestServiceResponse()"><B>TestServiceResponse()</B></A> - \r
 119 Constructor for class compbio.data.msa.jaxws.<A HREF="../compbio/data/msa/jaxws/TestServiceResponse.html" title="class in compbio.data.msa.jaxws">TestServiceResponse</A>\r
 120 <DD>&nbsp;\r
 121 <DT><A HREF="../compbio/data/sequence/Range.html#to"><B>to</B></A> - \r
 122 Variable in class compbio.data.sequence.<A HREF="../compbio/data/sequence/Range.html" title="class in compbio.data.sequence">Range</A>\r
 123 <DD>&nbsp;\r
 124 <DT><A HREF="../compbio/metadata/Option.html#toCommand(java.lang.String)"><B>toCommand(String)</B></A> - \r
 125 Method in class compbio.metadata.<A HREF="../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>\r
 126 <DD>Convert the option to the command string.\r
 127 <DT><A HREF="../compbio/metadata/Parameter.html#toCommand(java.lang.String)"><B>toCommand(String)</B></A> - \r
 128 Method in class compbio.metadata.<A HREF="../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>\r
 129 <DD>&nbsp;\r
 130 <DT><A HREF="../compbio/data/sequence/Alignment.html#toString()"><B>toString()</B></A> - \r
 131 Method in class compbio.data.sequence.<A HREF="../compbio/data/sequence/Alignment.html" title="class in compbio.data.sequence">Alignment</A>\r
 132 <DD>&nbsp;\r
 133 <DT><A HREF="../compbio/data/sequence/FastaSequence.html#toString()"><B>toString()</B></A> - \r
 134 Method in class compbio.data.sequence.<A HREF="../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence">FastaSequence</A>\r
 135 <DD>Same as oneLineFasta\r
 136 <DT><A HREF="../compbio/data/sequence/Range.html#toString()"><B>toString()</B></A> - \r
 137 Method in class compbio.data.sequence.<A HREF="../compbio/data/sequence/Range.html" title="class in compbio.data.sequence">Range</A>\r
 138 <DD>&nbsp;\r
 139 <DT><A HREF="../compbio/data/sequence/Score.html#toString()"><B>toString()</B></A> - \r
 140 Method in class compbio.data.sequence.<A HREF="../compbio/data/sequence/Score.html" title="class in compbio.data.sequence">Score</A>\r
 141 <DD>&nbsp;\r
 142 <DT><A HREF="../compbio/engine/client/CommandBuilder.html#toString()"><B>toString()</B></A> - \r
 143 Method in class compbio.engine.client.<A HREF="../compbio/engine/client/CommandBuilder.html" title="class in compbio.engine.client">CommandBuilder</A>\r
 144 <DD>&nbsp;\r
 145 <DT><A HREF="../compbio/engine/client/ConfExecutable.html#toString()"><B>toString()</B></A> - \r
 146 Method in class compbio.engine.client.<A HREF="../compbio/engine/client/ConfExecutable.html" title="class in compbio.engine.client">ConfExecutable</A>\r
 147 <DD>&nbsp;\r
 148 <DT><A HREF="../compbio/engine/client/RunConfiguration.html#toString()"><B>toString()</B></A> - \r
 149 Method in class compbio.engine.client.<A HREF="../compbio/engine/client/RunConfiguration.html" title="class in compbio.engine.client">RunConfiguration</A>\r
 150 <DD>&nbsp;\r
 151 <DT><A HREF="../compbio/engine/client/SkeletalExecutable.html#toString()"><B>toString()</B></A> - \r
 152 Method in class compbio.engine.client.<A HREF="../compbio/engine/client/SkeletalExecutable.html" title="class in compbio.engine.client">SkeletalExecutable</A>\r
 153 <DD>&nbsp;\r
 154 <DT><A HREF="../compbio/engine/cluster/drmaa/StatisticManager.html#toString()"><B>toString()</B></A> - \r
 155 Method in class compbio.engine.cluster.drmaa.<A HREF="../compbio/engine/cluster/drmaa/StatisticManager.html" title="class in compbio.engine.cluster.drmaa">StatisticManager</A>\r
 156 <DD>&nbsp;\r
 157 <DT><A HREF="../compbio/engine/cluster/dundee/_Queue.html#toString()"><B>toString()</B></A> - \r
 158 Method in enum compbio.engine.cluster.dundee.<A HREF="../compbio/engine/cluster/dundee/_Queue.html" title="enum in compbio.engine.cluster.dundee">_Queue</A>\r
 159 <DD><B>Deprecated.</B>&nbsp;&nbsp;\r
 160 <DT><A HREF="../compbio/engine/conf/_Key.html#toString()"><B>toString()</B></A> - \r
 161 Method in class compbio.engine.conf.<A HREF="../compbio/engine/conf/_Key.html" title="class in compbio.engine.conf">_Key</A>\r
 162 <DD><B>Deprecated.</B>&nbsp;&nbsp;\r
 163 <DT><A HREF="../compbio/engine/FilePuller.html#toString()"><B>toString()</B></A> - \r
 164 Method in class compbio.engine.<A HREF="../compbio/engine/FilePuller.html" title="class in compbio.engine">FilePuller</A>\r
 165 <DD>&nbsp;\r
 166 <DT><A HREF="../compbio/engine/Job.html#toString()"><B>toString()</B></A> - \r
 167 Method in class compbio.engine.<A HREF="../compbio/engine/Job.html" title="class in compbio.engine">Job</A>\r
 168 <DD>&nbsp;\r
 169 <DT><A HREF="../compbio/metadata/ChunkHolder.html#toString()"><B>toString()</B></A> - \r
 170 Method in class compbio.metadata.<A HREF="../compbio/metadata/ChunkHolder.html" title="class in compbio.metadata">ChunkHolder</A>\r
 171 <DD>&nbsp;\r
 172 <DT><A HREF="../compbio/metadata/Limit.html#toString()"><B>toString()</B></A> - \r
 173 Method in class compbio.metadata.<A HREF="../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>\r
 174 <DD>&nbsp;\r
 175 <DT><A HREF="../compbio/metadata/LimitsManager.html#toString()"><B>toString()</B></A> - \r
 176 Method in class compbio.metadata.<A HREF="../compbio/metadata/LimitsManager.html" title="class in compbio.metadata">LimitsManager</A>\r
 177 <DD>&nbsp;\r
 178 <DT><A HREF="../compbio/metadata/Option.html#toString()"><B>toString()</B></A> - \r
 179 Method in class compbio.metadata.<A HREF="../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>\r
 180 <DD>&nbsp;\r
 181 <DT><A HREF="../compbio/metadata/Parameter.html#toString()"><B>toString()</B></A> - \r
 182 Method in class compbio.metadata.<A HREF="../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>\r
 183 <DD>&nbsp;\r
 184 <DT><A HREF="../compbio/metadata/Preset.html#toString()"><B>toString()</B></A> - \r
 185 Method in class compbio.metadata.<A HREF="../compbio/metadata/Preset.html" title="class in compbio.metadata">Preset</A>\r
 186 <DD>&nbsp;\r
 187 <DT><A HREF="../compbio/metadata/PresetManager.html#toString()"><B>toString()</B></A> - \r
 188 Method in class compbio.metadata.<A HREF="../compbio/metadata/PresetManager.html" title="class in compbio.metadata">PresetManager</A>\r
 189 <DD>&nbsp;\r
 190 <DT><A HREF="../compbio/metadata/RunnerConfig.html#toString()"><B>toString()</B></A> - \r
 191 Method in class compbio.metadata.<A HREF="../compbio/metadata/RunnerConfig.html" title="class in compbio.metadata">RunnerConfig</A>\r
 192 <DD>&nbsp;\r
 193 <DT><A HREF="../compbio/metadata/ValueConstrain.html#toString()"><B>toString()</B></A> - \r
 194 Method in class compbio.metadata.<A HREF="../compbio/metadata/ValueConstrain.html" title="class in compbio.metadata">ValueConstrain</A>\r
 195 <DD>&nbsp;\r
 196 <DT><A HREF="../compbio/pipeline/_jpred/Hit.html#toString()"><B>toString()</B></A> - \r
 197 Method in class compbio.pipeline._jpred.<A HREF="../compbio/pipeline/_jpred/Hit.html" title="class in compbio.pipeline._jpred">Hit</A>\r
 198 <DD>&nbsp;\r
 199 <DT><A HREF="../compbio/pipeline/_jpred/PScore.html#toString()"><B>toString()</B></A> - \r
 200 Method in class compbio.pipeline._jpred.<A HREF="../compbio/pipeline/_jpred/PScore.html" title="class in compbio.pipeline._jpred">PScore</A>\r
 201 <DD>&nbsp;\r
 202 <DT><A HREF="../compbio/stat/collector/JobStat.html#toString()"><B>toString()</B></A> - \r
 203 Method in class compbio.stat.collector.<A HREF="../compbio/stat/collector/JobStat.html" title="class in compbio.stat.collector">JobStat</A>\r
 204 <DD>&nbsp;\r
 205 <DT><A HREF="../compbio/stat/collector/StatProcessor.html#toString()"><B>toString()</B></A> - \r
 206 Method in class compbio.stat.collector.<A HREF="../compbio/stat/collector/StatProcessor.html" title="class in compbio.stat.collector">StatProcessor</A>\r
 207 <DD>&nbsp;\r
 208 <DT><A HREF="../compbio/stat/servlet/util/StatCollection.html#toString()"><B>toString()</B></A> - \r
 209 Method in class compbio.stat.servlet.util.<A HREF="../compbio/stat/servlet/util/StatCollection.html" title="class in compbio.stat.servlet.util">StatCollection</A>\r
 210 <DD>&nbsp;\r
 211 <DT><A HREF="../compbio/ws/client/Services.html#toString(java.util.Set)"><B>toString(Set&lt;Services&gt;)</B></A> - \r
 212 Static method in enum compbio.ws.client.<A HREF="../compbio/ws/client/Services.html" title="enum in compbio.ws.client">Services</A>\r
 213 <DD>&nbsp;\r
 214 <DT><A HREF="../compbio/stat/servlet/util/Totals.html" title="class in compbio.stat.servlet.util"><B>Totals</B></A> - Class in <A HREF="../compbio/stat/servlet/util/package-summary.html">compbio.stat.servlet.util</A><DD>&nbsp;<DT><A HREF="../compbio/stat/servlet/util/Totals.html#Totals()"><B>Totals()</B></A> - \r
 215 Constructor for class compbio.stat.servlet.util.<A HREF="../compbio/stat/servlet/util/Totals.html" title="class in compbio.stat.servlet.util">Totals</A>\r
 216 <DD>&nbsp;\r
 217 </DL>\r
 218 <HR>\r
 219 \r
 220 \r
 221 <!-- ======= START OF BOTTOM NAVBAR ====== -->\r
 222 <A NAME="navbar_bottom"><!-- --></A>\r
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 225 <TR>\r
 226 <TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">\r
 227 <A NAME="navbar_bottom_firstrow"><!-- --></A>\r
 228 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">\r
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 230   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A>&nbsp;</TD>\r
 231   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Package</FONT>&nbsp;</TD>\r
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 233   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <FONT CLASS="NavBarFont1">Use</FONT>&nbsp;</TD>\r
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 235   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A>&nbsp;</TD>\r
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 237   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A>&nbsp;</TD>\r
 238   </TR>\r
 239 </TABLE>\r
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