website/full_javadoc/compbio/metadata/class-use/Limit.html

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   7 Uses of Class compbio.metadata.Limit\r
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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>&nbsp;</TD>\r
  43   <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> &nbsp;<FONT CLASS="NavBarFont1Rev"><B>Use</B></FONT>&nbsp;</TD>\r
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  83 <H2>\r
  84 <B>Uses of Class<br>compbio.metadata.Limit</B></H2>\r
  85 </CENTER>\r
  86 \r
  87 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
  88 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
  89 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
  90 Packages that use <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></FONT></TH>\r
  91 </TR>\r
  92 <TR BGCOLOR="white" CLASS="TableRowColor">\r
  93 <TD><A HREF="#compbio.data.msa"><B>compbio.data.msa</B></A></TD>\r
  94 <TD>&nbsp;&nbsp;</TD>\r
  95 </TR>\r
  96 <TR BGCOLOR="white" CLASS="TableRowColor">\r
  97 <TD><A HREF="#compbio.data.msa.jaxws"><B>compbio.data.msa.jaxws</B></A></TD>\r
  98 <TD>&nbsp;&nbsp;</TD>\r
  99 </TR>\r
 100 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 101 <TD><A HREF="#compbio.engine.client"><B>compbio.engine.client</B></A></TD>\r
 102 <TD>Classes and interfaces representing an input for engines.&nbsp;</TD>\r
 103 </TR>\r
 104 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 105 <TD><A HREF="#compbio.metadata"><B>compbio.metadata</B></A></TD>\r
 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.&nbsp;</TD>\r
 108 </TR>\r
 109 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 110 <TD><A HREF="#compbio.runner"><B>compbio.runner</B></A></TD>\r
 111 <TD>Utilities commonly used by all runners.&nbsp;</TD>\r
 112 </TR>\r
 113 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 114 <TD><A HREF="#compbio.runner._impl"><B>compbio.runner._impl</B></A></TD>\r
 115 <TD>&nbsp;&nbsp;</TD>\r
 116 </TR>\r
 117 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 118 <TD><A HREF="#compbio.runner.msa"><B>compbio.runner.msa</B></A></TD>\r
 119 <TD>Wrappers for native executables for multiple sequence alignment (msa)&nbsp;</TD>\r
 120 </TR>\r
 121 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 122 <TD><A HREF="#compbio.runner.psiblast"><B>compbio.runner.psiblast</B></A></TD>\r
 123 <TD>&nbsp;&nbsp;</TD>\r
 124 </TR>\r
 125 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 126 <TD><A HREF="#compbio.ws.server"><B>compbio.ws.server</B></A></TD>\r
 127 <TD>&nbsp;&nbsp;</TD>\r
 128 </TR>\r
 129 </TABLE>\r
 130 &nbsp;\r
 131 <P>\r
 132 <A NAME="compbio.data.msa"><!-- --></A>\r
 133 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 134 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 135 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 137 </TR>\r
 138 </TABLE>\r
 139 &nbsp;\r
 140 <P>\r
 141 \r
 142 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 143 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 145 </TR>\r
 146 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 147 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 148 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/data/msa/MsaWS.html" title="type parameter in MsaWS">T</A>&gt;</CODE></FONT></TD>\r
 149 <TD><CODE><B>MsaWS.</B><B><A HREF="../../../compbio/data/msa/MsaWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 150 \r
 151 <BR>\r
 152 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;Get a Limit for a preset.</TD>\r
 153 </TR>\r
 154 </TABLE>\r
 155 &nbsp;\r
 156 <P>\r
 157 <A NAME="compbio.data.msa.jaxws"><!-- --></A>\r
 158 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 159 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 160 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 162 </TR>\r
 163 </TABLE>\r
 164 &nbsp;\r
 165 <P>\r
 166 \r
 167 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 168 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 170 </TR>\r
 171 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 172 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 173 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A></CODE></FONT></TD>\r
 174 <TD><CODE><B>GetLimitResponse.</B><B><A HREF="../../../compbio/data/msa/jaxws/GetLimitResponse.html#getReturn()">getReturn</A></B>()</CODE>\r
 175 \r
 176 <BR>\r
 177 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 178 </TR>\r
 179 </TABLE>\r
 180 &nbsp;\r
 181 <P>\r
 182 \r
 183 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 184 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 186 </TR>\r
 187 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 188 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 189 <CODE>&nbsp;void</CODE></FONT></TD>\r
 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>&nbsp;_return)</CODE>\r
 191 \r
 192 <BR>\r
 193 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 194 </TR>\r
 195 </TABLE>\r
 196 &nbsp;\r
 197 <P>\r
 198 <A NAME="compbio.engine.client"><!-- --></A>\r
 199 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 200 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 201 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 203 </TR>\r
 204 </TABLE>\r
 205 &nbsp;\r
 206 <P>\r
 207 \r
 208 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 209 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 211 </TR>\r
 212 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 213 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 214 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/engine/client/Executable.html" title="type parameter in Executable">T</A>&gt;</CODE></FONT></TD>\r
 215 <TD><CODE><B>Executable.</B><B><A HREF="../../../compbio/engine/client/Executable.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 216 \r
 217 <BR>\r
 218 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 219 </TR>\r
 220 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 221 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 222 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/engine/client/ConfExecutable.html" title="type parameter in ConfExecutable">T</A>&gt;</CODE></FONT></TD>\r
 223 <TD><CODE><B>ConfExecutable.</B><B><A HREF="../../../compbio/engine/client/ConfExecutable.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 224 \r
 225 <BR>\r
 226 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 227 </TR>\r
 228 </TABLE>\r
 229 &nbsp;\r
 230 <P>\r
 231 <A NAME="compbio.metadata"><!-- --></A>\r
 232 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 233 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 234 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 236 </TR>\r
 237 </TABLE>\r
 238 &nbsp;\r
 239 <P>\r
 240 \r
 241 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 242 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 244 </TR>\r
 245 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 246 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 247 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/metadata/LimitsManager.html" title="type parameter in LimitsManager">T</A>&gt;</CODE></FONT></TD>\r
 248 <TD><CODE><B>LimitsManager.</B><B><A HREF="../../../compbio/metadata/LimitsManager.html#getDefaultLimit()">getDefaultLimit</A></B>()</CODE>\r
 249 \r
 250 <BR>\r
 251 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 252 </TR>\r
 253 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 254 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 255 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/metadata/LimitsManager.html" title="type parameter in LimitsManager">T</A>&gt;</CODE></FONT></TD>\r
 256 <TD><CODE><B>LimitsManager.</B><B><A HREF="../../../compbio/metadata/LimitsManager.html#getLimitByName(java.lang.String)">getLimitByName</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 257 \r
 258 <BR>\r
 259 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 260 </TR>\r
 261 </TABLE>\r
 262 &nbsp;\r
 263 <P>\r
 264 \r
 265 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 266 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 268 </TR>\r
 269 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 270 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 271 <CODE>&nbsp;java.util.List&lt;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/metadata/LimitsManager.html" title="type parameter in LimitsManager">T</A>&gt;&gt;</CODE></FONT></TD>\r
 272 <TD><CODE><B>LimitsManager.</B><B><A HREF="../../../compbio/metadata/LimitsManager.html#getLimits()">getLimits</A></B>()</CODE>\r
 273 \r
 274 <BR>\r
 275 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 276 </TR>\r
 277 </TABLE>\r
 278 &nbsp;\r
 279 <P>\r
 280 \r
 281 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 282 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 284 </TR>\r
 285 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 286 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 287 <CODE>static&nbsp;<A HREF="../../../compbio/metadata/LimitExceededException.html" title="class in compbio.metadata">LimitExceededException</A></CODE></FONT></TD>\r
 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>&lt;?&gt;&nbsp;limit,\r
 289                  java.util.List&lt;<A HREF="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence">FastaSequence</A>&gt;&nbsp;seqs)</CODE>\r
 290 \r
 291 <BR>\r
 292 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 293 </TR>\r
 294 </TABLE>\r
 295 &nbsp;\r
 296 <P>\r
 297 <A NAME="compbio.runner"><!-- --></A>\r
 298 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 299 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 300 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 302 </TR>\r
 303 </TABLE>\r
 304 &nbsp;\r
 305 <P>\r
 306 \r
 307 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 308 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 310 </TR>\r
 311 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 312 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 313 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/_SkeletalCommandBuilder.html" title="class in compbio.runner">_SkeletalCommandBuilder</A>&gt;</CODE></FONT></TD>\r
 314 <TD><CODE><B>_SkeletalCommandBuilder.</B><B><A HREF="../../../compbio/runner/_SkeletalCommandBuilder.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 315 \r
 316 <BR>\r
 317 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 318 </TR>\r
 319 </TABLE>\r
 320 &nbsp;\r
 321 <P>\r
 322 <A NAME="compbio.runner._impl"><!-- --></A>\r
 323 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 324 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 325 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 327 </TR>\r
 328 </TABLE>\r
 329 &nbsp;\r
 330 <P>\r
 331 \r
 332 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 333 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 335 </TR>\r
 336 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 337 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 338 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/_impl/NetNglyc.html" title="class in compbio.runner._impl">NetNglyc</A>&gt;</CODE></FONT></TD>\r
 339 <TD><CODE><B>NetNglyc.</B><B><A HREF="../../../compbio/runner/_impl/NetNglyc.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 340 \r
 341 <BR>\r
 342 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 343 </TR>\r
 344 </TABLE>\r
 345 &nbsp;\r
 346 <P>\r
 347 <A NAME="compbio.runner.msa"><!-- --></A>\r
 348 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 349 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 350 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 352 </TR>\r
 353 </TABLE>\r
 354 &nbsp;\r
 355 <P>\r
 356 \r
 357 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 358 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 360 </TR>\r
 361 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 362 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 363 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Tcoffee.html" title="class in compbio.runner.msa">Tcoffee</A>&gt;</CODE></FONT></TD>\r
 364 <TD><CODE><B>Tcoffee.</B><B><A HREF="../../../compbio/runner/msa/Tcoffee.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 365 \r
 366 <BR>\r
 367 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 368 </TR>\r
 369 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 370 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 371 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/ClustalW.html" title="class in compbio.runner.msa">ClustalW</A>&gt;</CODE></FONT></TD>\r
 372 <TD><CODE><B>ClustalW.</B><B><A HREF="../../../compbio/runner/msa/ClustalW.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 373 \r
 374 <BR>\r
 375 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 376 </TR>\r
 377 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 378 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 379 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Probcons.html" title="class in compbio.runner.msa">Probcons</A>&gt;</CODE></FONT></TD>\r
 380 <TD><CODE><B>Probcons.</B><B><A HREF="../../../compbio/runner/msa/Probcons.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 381 \r
 382 <BR>\r
 383 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 384 </TR>\r
 385 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 386 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 387 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Muscle.html" title="class in compbio.runner.msa">Muscle</A>&gt;</CODE></FONT></TD>\r
 388 <TD><CODE><B>Muscle.</B><B><A HREF="../../../compbio/runner/msa/Muscle.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 389 \r
 390 <BR>\r
 391 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 392 </TR>\r
 393 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 394 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 395 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Mafft.html" title="class in compbio.runner.msa">Mafft</A>&gt;</CODE></FONT></TD>\r
 396 <TD><CODE><B>Mafft.</B><B><A HREF="../../../compbio/runner/msa/Mafft.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 397 \r
 398 <BR>\r
 399 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 400 </TR>\r
 401 </TABLE>\r
 402 &nbsp;\r
 403 <P>\r
 404 <A NAME="compbio.runner.psiblast"><!-- --></A>\r
 405 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 406 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 407 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 409 </TR>\r
 410 </TABLE>\r
 411 &nbsp;\r
 412 <P>\r
 413 \r
 414 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 415 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 417 </TR>\r
 418 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 419 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 420 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/psiblast/PsiBlast.html" title="class in compbio.runner.psiblast">PsiBlast</A>&gt;</CODE></FONT></TD>\r
 421 <TD><CODE><B>PsiBlast.</B><B><A HREF="../../../compbio/runner/psiblast/PsiBlast.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 422 \r
 423 <BR>\r
 424 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 425 </TR>\r
 426 </TABLE>\r
 427 &nbsp;\r
 428 <P>\r
 429 <A NAME="compbio.ws.server"><!-- --></A>\r
 430 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 431 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 432 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 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>\r
 434 </TR>\r
 435 </TABLE>\r
 436 &nbsp;\r
 437 <P>\r
 438 \r
 439 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 440 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 442 </TR>\r
 443 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 444 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 445 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Tcoffee.html" title="class in compbio.runner.msa">Tcoffee</A>&gt;</CODE></FONT></TD>\r
 446 <TD><CODE><B>TcoffeeWS.</B><B><A HREF="../../../compbio/ws/server/TcoffeeWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 447 \r
 448 <BR>\r
 449 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 450 </TR>\r
 451 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 452 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 453 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Probcons.html" title="class in compbio.runner.msa">Probcons</A>&gt;</CODE></FONT></TD>\r
 454 <TD><CODE><B>ProbconsWS.</B><B><A HREF="../../../compbio/ws/server/ProbconsWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 455 \r
 456 <BR>\r
 457 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 458 </TR>\r
 459 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 460 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 461 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Muscle.html" title="class in compbio.runner.msa">Muscle</A>&gt;</CODE></FONT></TD>\r
 462 <TD><CODE><B>MuscleWS.</B><B><A HREF="../../../compbio/ws/server/MuscleWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 463 \r
 464 <BR>\r
 465 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 466 </TR>\r
 467 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 468 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 469 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/Mafft.html" title="class in compbio.runner.msa">Mafft</A>&gt;</CODE></FONT></TD>\r
 470 <TD><CODE><B>MafftWS.</B><B><A HREF="../../../compbio/ws/server/MafftWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 471 \r
 472 <BR>\r
 473 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 474 </TR>\r
 475 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 476 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 477 <CODE>&nbsp;<A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;<A HREF="../../../compbio/runner/msa/ClustalW.html" title="class in compbio.runner.msa">ClustalW</A>&gt;</CODE></FONT></TD>\r
 478 <TD><CODE><B>ClustalWS.</B><B><A HREF="../../../compbio/ws/server/ClustalWS.html#getLimit(java.lang.String)">getLimit</A></B>(java.lang.String&nbsp;presetName)</CODE>\r
 479 \r
 480 <BR>\r
 481 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 482 </TR>\r
 483 </TABLE>\r
 484 &nbsp;\r
 485 <P>\r
 486 \r
 487 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 488 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">\r
 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>\r
 490 </TR>\r
 491 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 492 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 493 <CODE>static\r
 494 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="0" SUMMARY="">\r
 495 <TR ALIGN="right" VALIGN="">\r
 496 <TD NOWRAP><FONT SIZE="-1">\r
 497 <CODE>&lt;T&gt; java.lang.String</CODE></FONT></TD>\r
 498 </TR>\r
 499 </TABLE>\r
 500 </CODE></FONT></TD>\r
 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&lt;<A HREF="../../../compbio/data/sequence/FastaSequence.html" title="class in compbio.data.sequence">FastaSequence</A>&gt;&nbsp;sequences,\r
 502       <A HREF="../../../compbio/engine/client/ConfiguredExecutable.html" title="interface in compbio.engine.client">ConfiguredExecutable</A>&lt;T&gt;&nbsp;confExec,\r
 503       org.apache.log4j.Logger&nbsp;statLog,\r
 504       javax.xml.ws.WebServiceContext&nbsp;wsContext,\r
 505       java.lang.String&nbsp;callingMethod,\r
 506       <A HREF="../../../compbio/metadata/Limit.html" title="class in compbio.metadata">Limit</A>&lt;T&gt;&nbsp;limit)</CODE>\r
 507 \r
 508 <BR>\r
 509 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 510 </TR>\r
 511 </TABLE>\r
 512 &nbsp;\r
 513 <P>\r
 514 <HR>\r
 515 \r
 516 \r
 517 <!-- ======= START OF BOTTOM NAVBAR ====== -->\r
 518 <A NAME="navbar_bottom"><!-- --></A>\r
 519 <A HREF="#skip-navbar_bottom" title="Skip navigation links"></A>\r
 520 <TABLE BORDER="0" WIDTH="100%" CELLPADDING="1" CELLSPACING="0" SUMMARY="">\r
 521 <TR>\r
 522 <TD COLSPAN=2 BGCOLOR="#EEEEFF" CLASS="NavBarCell1">\r
 523 <A NAME="navbar_bottom_firstrow"><!-- --></A>\r
 524 <TABLE BORDER="0" CELLPADDING="0" CELLSPACING="3" SUMMARY="">\r
 525   <TR ALIGN="center" VALIGN="top">\r
 526   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../overview-summary.html"><FONT CLASS="NavBarFont1"><B>Overview</B></FONT></A>&nbsp;</TD>\r
 527   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../package-summary.html"><FONT CLASS="NavBarFont1"><B>Package</B></FONT></A>&nbsp;</TD>\r
 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>&nbsp;</TD>\r
 529   <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> &nbsp;<FONT CLASS="NavBarFont1Rev"><B>Use</B></FONT>&nbsp;</TD>\r
 530   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../overview-tree.html"><FONT CLASS="NavBarFont1"><B>Tree</B></FONT></A>&nbsp;</TD>\r
 531   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../deprecated-list.html"><FONT CLASS="NavBarFont1"><B>Deprecated</B></FONT></A>&nbsp;</TD>\r
 532   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../index-files/index-1.html"><FONT CLASS="NavBarFont1"><B>Index</B></FONT></A>&nbsp;</TD>\r
 533   <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1">    <A HREF="../../../help-doc.html"><FONT CLASS="NavBarFont1"><B>Help</B></FONT></A>&nbsp;</TD>\r
 534   </TR>\r
 535 </TABLE>\r
 536 </TD>\r
 537 <TD ALIGN="right" VALIGN="top" ROWSPAN=3><EM>\r
 538 </EM>\r
 539 </TD>\r
 540 </TR>\r
 541 \r
 542 <TR>\r
 543 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
 544 &nbsp;PREV&nbsp;\r
 545 &nbsp;NEXT</FONT></TD>\r
 546 <TD BGCOLOR="white" CLASS="NavBarCell2"><FONT SIZE="-2">\r
 547   <A HREF="../../../index.html?compbio/metadata/\class-useLimit.html" target="_top"><B>FRAMES</B></A>  &nbsp;\r
 548 &nbsp;<A HREF="Limit.html" target="_top"><B>NO FRAMES</B></A>  &nbsp;\r
 549 &nbsp;<SCRIPT type="text/javascript">\r
 550   <!--\r
 551   if(window==top) {\r
 552     document.writeln('<A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>');\r
 553   }\r
 554   //-->\r
 555 </SCRIPT>\r
 556 <NOSCRIPT>\r
 557   <A HREF="../../../allclasses-noframe.html"><B>All Classes</B></A>\r
 558 </NOSCRIPT>\r
 559 \r
 560 \r
 561 </FONT></TD>\r
 562 </TR>\r
 563 </TABLE>\r
 564 <A NAME="skip-navbar_bottom"></A>\r
 565 <!-- ======== END OF BOTTOM NAVBAR ======= -->\r
 566 \r
 567 <HR>\r
 568 \r
 569 </BODY>\r
 570 </HTML>\r