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5 <!-- Generated by javadoc (build 1.6.0_14) on Wed Feb 17 16:46:50 GMT 2010 -->
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7 Uses of Class compbio.metadata.Limit
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18 parent.document.title="Uses of Class compbio.metadata.Limit";
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42 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata"><FONT CLASS="NavBarFont1"><B>Class</B></FONT></A> </TD>
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84 <B>Uses of Class<br>compbio.metadata.Limit</B></H2>
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87 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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88 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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89 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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90 Packages that use <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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92 <TR BGCOLOR="white" CLASS="TableRowColor">
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93 <TD><A HREF="#compbio.data.msa"><B>compbio.data.msa</B></A></TD>
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94 <TD> </TD>
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96 <TR BGCOLOR="white" CLASS="TableRowColor">
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97 <TD><A HREF="#compbio.data.msa.jaxws"><B>compbio.data.msa.jaxws</B></A></TD>
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98 <TD> </TD>
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100 <TR BGCOLOR="white" CLASS="TableRowColor">
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101 <TD><A HREF="#compbio.engine.client"><B>compbio.engine.client</B></A></TD>
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102 <TD>Classes and interfaces representing an input for engines. </TD>
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104 <TR BGCOLOR="white" CLASS="TableRowColor">
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105 <TD><A HREF="#compbio.metadata"><B>compbio.metadata</B></A></TD>
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106 <TD>A meta-data model for multiple sequence alignment web services
107 Classes in this package have no dependencies to other sources in the project. </TD>
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109 <TR BGCOLOR="white" CLASS="TableRowColor">
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110 <TD><A HREF="#compbio.runner"><B>compbio.runner</B></A></TD>
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111 <TD>Utilities commonly used by all runners. </TD>
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113 <TR BGCOLOR="white" CLASS="TableRowColor">
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114 <TD><A HREF="#compbio.runner._impl"><B>compbio.runner._impl</B></A></TD>
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115 <TD> </TD>
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117 <TR BGCOLOR="white" CLASS="TableRowColor">
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118 <TD><A HREF="#compbio.runner.msa"><B>compbio.runner.msa</B></A></TD>
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119 <TD>Wrappers for native executables for multiple sequence alignment (msa) </TD>
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121 <TR BGCOLOR="white" CLASS="TableRowColor">
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122 <TD><A HREF="#compbio.runner.psiblast"><B>compbio.runner.psiblast</B></A></TD>
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123 <TD> </TD>
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125 <TR BGCOLOR="white" CLASS="TableRowColor">
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126 <TD><A HREF="#compbio.ws.server"><B>compbio.ws.server</B></A></TD>
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127 <TD> </TD>
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132 <A NAME="compbio.data.msa"><!-- --></A>
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133 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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134 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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135 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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136 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/data/msa/package-summary.html">compbio.data.msa</A></FONT></TH>
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142 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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143 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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144 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/data/msa/package-summary.html">compbio.data.msa</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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146 <TR BGCOLOR="white" CLASS="TableRowColor">
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147 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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148 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/data/msa/MsaWS.html" title="type parameter in MsaWS">T</A>></CODE></FONT></TD>
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149 <TD><CODE><B>MsaWS.</B><B><A HREF="../../../compbio/data/msa/MsaWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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152 Get a Limit for a preset.</TD>
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157 <A NAME="compbio.data.msa.jaxws"><!-- --></A>
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158 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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159 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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160 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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161 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A></FONT></TH>
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167 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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168 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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169 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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171 <TR BGCOLOR="white" CLASS="TableRowColor">
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172 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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173 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></CODE></FONT></TD>
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174 <TD><CODE><B>GetLimitResponse.</B><B><A HREF="../../../compbio/data/msa/jaxws/GetLimitResponse.html#getReturn()">getReturn</A></B>()</CODE>
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177 </TD>
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183 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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184 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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185 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/data/msa/jaxws/package-summary.html">compbio.data.msa.jaxws</A> with parameters of type <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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187 <TR BGCOLOR="white" CLASS="TableRowColor">
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188 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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189 <CODE> void</CODE></FONT></TD>
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190 <TD><CODE><B>GetLimitResponse.</B><B><A HREF="../../../compbio/data/msa/jaxws/GetLimitResponse.html#setReturn(compbio.metadata.Limit)">setReturn</A></B>(<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> _return)</CODE>
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193 </TD>
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198 <A NAME="compbio.engine.client"><!-- --></A>
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199 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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200 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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201 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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202 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A></FONT></TH>
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208 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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209 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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210 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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212 <TR BGCOLOR="white" CLASS="TableRowColor">
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213 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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214 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/engine/client/Executable.html" title="type parameter in Executable">T</A>></CODE></FONT></TD>
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215 <TD><CODE><B>Executable.</B><B><A HREF="../../../compbio/engine/client/Executable.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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218 </TD>
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220 <TR BGCOLOR="white" CLASS="TableRowColor">
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221 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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222 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/engine/client/ConfExecutable.html" title="type parameter in ConfExecutable">T</A>></CODE></FONT></TD>
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223 <TD><CODE><B>ConfExecutable.</B><B><A HREF="../../../compbio/engine/client/ConfExecutable.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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226 </TD>
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231 <A NAME="compbio.metadata"><!-- --></A>
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232 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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233 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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234 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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235 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/metadata/package-summary.html">compbio.metadata</A></FONT></TH>
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241 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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242 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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243 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/metadata/package-summary.html">compbio.metadata</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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245 <TR BGCOLOR="white" CLASS="TableRowColor">
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246 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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247 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/metadata/LimitsManager.html" title="type parameter in LimitsManager">T</A>></CODE></FONT></TD>
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248 <TD><CODE><B>LimitsManager.</B><B><A HREF="../../../compbio/metadata/LimitsManager.html#getDefaultLimit()">getDefaultLimit</A></B>()</CODE>
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251 </TD>
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253 <TR BGCOLOR="white" CLASS="TableRowColor">
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254 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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255 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/metadata/LimitsManager.html" title="type parameter in LimitsManager">T</A>></CODE></FONT></TD>
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256 <TD><CODE><B>LimitsManager.</B><B><A HREF="../../../compbio/metadata/LimitsManager.html#getLimitByName(java.lang.String)">getLimitByName</A></B>(java.lang.String presetName)</CODE>
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259 </TD>
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265 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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266 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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267 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/metadata/package-summary.html">compbio.metadata</A> that return types with arguments of type <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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269 <TR BGCOLOR="white" CLASS="TableRowColor">
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270 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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271 <CODE> java.util.List<<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/metadata/LimitsManager.html" title="type parameter in LimitsManager">T</A>>></CODE></FONT></TD>
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272 <TD><CODE><B>LimitsManager.</B><B><A HREF="../../../compbio/metadata/LimitsManager.html#getLimits()">getLimits</A></B>()</CODE>
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275 </TD>
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281 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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282 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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283 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/metadata/package-summary.html">compbio.metadata</A> with parameters of type <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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285 <TR BGCOLOR="white" CLASS="TableRowColor">
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286 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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287 <CODE>static <A HREF="../../../compbio/metadata/LimitExceededException.html" title="class in compbio.metadata">LimitExceededException</A></CODE></FONT></TD>
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288 <TD><CODE><B>LimitExceededException.</B><B><A HREF="../../../compbio/metadata/LimitExceededException.html#newLimitExceeded(compbio.metadata.Limit, java.util.List)">newLimitExceeded</A></B>(<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><?> limit,
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289 java.util.List<<A HREF="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence">FastaSequence</A>> seqs)</CODE>
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292 </TD>
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297 <A NAME="compbio.runner"><!-- --></A>
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298 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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299 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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300 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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301 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/runner/package-summary.html">compbio.runner</A></FONT></TH>
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307 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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308 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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309 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/runner/package-summary.html">compbio.runner</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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311 <TR BGCOLOR="white" CLASS="TableRowColor">
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312 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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313 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/_SkeletalCommandBuilder.html" title="class in compbio.runner">_SkeletalCommandBuilder</A>></CODE></FONT></TD>
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314 <TD><CODE><B>_SkeletalCommandBuilder.</B><B><A HREF="../../../compbio/runner/_SkeletalCommandBuilder.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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317 </TD>
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322 <A NAME="compbio.runner._impl"><!-- --></A>
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323 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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324 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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325 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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326 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/runner/_impl/package-summary.html">compbio.runner._impl</A></FONT></TH>
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332 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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333 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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334 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/runner/_impl/package-summary.html">compbio.runner._impl</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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336 <TR BGCOLOR="white" CLASS="TableRowColor">
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337 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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338 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/_impl/NetNglyc.html" title="class in compbio.runner._impl">NetNglyc</A>></CODE></FONT></TD>
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339 <TD><CODE><B>NetNglyc.</B><B><A HREF="../../../compbio/runner/_impl/NetNglyc.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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342 </TD>
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347 <A NAME="compbio.runner.msa"><!-- --></A>
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348 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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349 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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350 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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351 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/runner/msa/package-summary.html">compbio.runner.msa</A></FONT></TH>
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357 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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358 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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359 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/runner/msa/package-summary.html">compbio.runner.msa</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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361 <TR BGCOLOR="white" CLASS="TableRowColor">
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362 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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363 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Tcoffee.html" title="class in compbio.runner.msa">Tcoffee</A>></CODE></FONT></TD>
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364 <TD><CODE><B>Tcoffee.</B><B><A HREF="../../../compbio/runner/msa/Tcoffee.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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367 </TD>
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369 <TR BGCOLOR="white" CLASS="TableRowColor">
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370 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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371 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/ClustalW.html" title="class in compbio.runner.msa">ClustalW</A>></CODE></FONT></TD>
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372 <TD><CODE><B>ClustalW.</B><B><A HREF="../../../compbio/runner/msa/ClustalW.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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375 </TD>
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377 <TR BGCOLOR="white" CLASS="TableRowColor">
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378 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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379 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Probcons.html" title="class in compbio.runner.msa">Probcons</A>></CODE></FONT></TD>
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380 <TD><CODE><B>Probcons.</B><B><A HREF="../../../compbio/runner/msa/Probcons.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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383 </TD>
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385 <TR BGCOLOR="white" CLASS="TableRowColor">
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386 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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387 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Muscle.html" title="class in compbio.runner.msa">Muscle</A>></CODE></FONT></TD>
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388 <TD><CODE><B>Muscle.</B><B><A HREF="../../../compbio/runner/msa/Muscle.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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391 </TD>
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393 <TR BGCOLOR="white" CLASS="TableRowColor">
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394 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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395 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Mafft.html" title="class in compbio.runner.msa">Mafft</A>></CODE></FONT></TD>
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396 <TD><CODE><B>Mafft.</B><B><A HREF="../../../compbio/runner/msa/Mafft.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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399 </TD>
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404 <A NAME="compbio.runner.psiblast"><!-- --></A>
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405 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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406 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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407 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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408 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/runner/psiblast/package-summary.html">compbio.runner.psiblast</A></FONT></TH>
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414 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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415 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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416 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/runner/psiblast/package-summary.html">compbio.runner.psiblast</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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418 <TR BGCOLOR="white" CLASS="TableRowColor">
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419 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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420 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/psiblast/PsiBlast.html" title="class in compbio.runner.psiblast">PsiBlast</A>></CODE></FONT></TD>
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421 <TD><CODE><B>PsiBlast.</B><B><A HREF="../../../compbio/runner/psiblast/PsiBlast.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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424 </TD>
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429 <A NAME="compbio.ws.server"><!-- --></A>
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430 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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431 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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432 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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433 Uses of <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A> in <A HREF="../../../compbio/ws/server/package-summary.html">compbio.ws.server</A></FONT></TH>
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439 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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440 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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441 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/ws/server/package-summary.html">compbio.ws.server</A> that return <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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443 <TR BGCOLOR="white" CLASS="TableRowColor">
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444 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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445 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Tcoffee.html" title="class in compbio.runner.msa">Tcoffee</A>></CODE></FONT></TD>
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446 <TD><CODE><B>TcoffeeWS.</B><B><A HREF="../../../compbio/ws/server/TcoffeeWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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449 </TD>
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451 <TR BGCOLOR="white" CLASS="TableRowColor">
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452 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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453 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Probcons.html" title="class in compbio.runner.msa">Probcons</A>></CODE></FONT></TD>
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454 <TD><CODE><B>ProbconsWS.</B><B><A HREF="../../../compbio/ws/server/ProbconsWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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457 </TD>
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459 <TR BGCOLOR="white" CLASS="TableRowColor">
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460 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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461 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Muscle.html" title="class in compbio.runner.msa">Muscle</A>></CODE></FONT></TD>
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462 <TD><CODE><B>MuscleWS.</B><B><A HREF="../../../compbio/ws/server/MuscleWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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465 </TD>
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467 <TR BGCOLOR="white" CLASS="TableRowColor">
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468 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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469 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/Mafft.html" title="class in compbio.runner.msa">Mafft</A>></CODE></FONT></TD>
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470 <TD><CODE><B>MafftWS.</B><B><A HREF="../../../compbio/ws/server/MafftWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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473 </TD>
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475 <TR BGCOLOR="white" CLASS="TableRowColor">
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476 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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477 <CODE> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><<A HREF="../../../compbio/runner/msa/ClustalW.html" title="class in compbio.runner.msa">ClustalW</A>></CODE></FONT></TD>
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478 <TD><CODE><B>ClustalWS.</B><B><A HREF="../../../compbio/ws/server/ClustalWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String presetName)</CODE>
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481 </TD>
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487 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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488 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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489 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/ws/server/package-summary.html">compbio.ws.server</A> with parameters of type <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>
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491 <TR BGCOLOR="white" CLASS="TableRowColor">
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492 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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494 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="0" SUMMARY="">
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495 <TR ALIGN="right" VALIGN="">
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496 <TD NOWRAP><FONT SIZE="-1">
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497 <CODE><T> java.lang.String</CODE></FONT></TD>
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500 </CODE></FONT></TD>
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501 <TD><CODE><B>WSUtil.</B><B><A HREF="../../../compbio/ws/server/WSUtil.html#align(java.util.List, compbio.engine.client.ConfiguredExecutable, org.apache.log4j.Logger, javax.xml.ws.WebServiceContext, java.lang.String, compbio.metadata.Limit)">align</A></B>(java.util.List<<A HREF="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence">FastaSequence</A>> sequences,
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502 <A HREF="../../../compbio/engine/client/ConfiguredExecutable.html" title="interface in compbio.engine.client">ConfiguredExecutable</A><T> confExec,
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503 org.apache.log4j.Logger statLog,
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504 javax.xml.ws.WebServiceContext wsContext,
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505 java.lang.String callingMethod,
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506 <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A><T> limit)</CODE>
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509 </TD>
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517 <!-- ======= START OF BOTTOM NAVBAR ====== -->
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518 <A NAME="navbar_bottom"><!-- --></A>
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519 <A HREF="#skip-navbar_bottom" title="Skip navigation links"></A>
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520 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">
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523 <A NAME="navbar_bottom_firstrow"><!-- --></A>
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524 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">
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525 <TR ALIGN="center" VALIGN="top">
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526 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A> </TD>
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527 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../package-summary.html"><FONT CLASS="NavBarFont1"><B>Package</B></FONT></A> </TD>
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528 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata"><FONT CLASS="NavBarFont1"><B>Class</B></FONT></A> </TD>
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529 <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> <FONT CLASS="NavBarFont1Rev"><B>Use</B></FONT> </TD>
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530 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../overview-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A> </TD>
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531 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A> </TD>
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532 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A> </TD>
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537 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>
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543 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
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545 NEXT</FONT></TD>
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546 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">
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547 <A HREF="../../../index.html?compbio/metadata/\class-useLimit.html" target="_top"><B>FRAMES</B></A>
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548 <A HREF="Limit.html" target="_top"><B>NO FRAMES</B></A>
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549 <SCRIPT type="text/javascript">
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552 document.writeln('<A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>');
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557 <A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>
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