website/full_javadoc/compbio/runner/OptionCombinator.html

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  79   SUMMARY:&nbsp;NESTED&nbsp;|&nbsp;FIELD&nbsp;|&nbsp;<A HREF="#constructor_summary">CONSTR</A>&nbsp;|&nbsp;<A HREF="#method_summary">METHOD</A></FONT></TD>\r
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  91 compbio.runner</FONT>\r
  92 <BR>\r
  93 Class OptionCombinator</H2>\r
  94 <PRE>\r
  95 <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">java.lang.Object</A>\r
  96   <IMG SRC="../../resources/inherit.gif" ALT="extended by "><B>compbio.runner.OptionCombinator</B>\r
  97 </PRE>\r
  98 <HR>\r
  99 <DL>\r
 100 <DT><PRE><FONT SIZE="-1">@Immutable\r
 101 </FONT>public final class <B>OptionCombinator</B><DT>extends <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">Object</A></DL>\r
 102 </PRE>\r
 103 \r
 104 <P>\r
 105 This class solve the following problems. Given the RunnerConfig
 106
 107  1) generate a valid option string with all options and parameters in it
 108
 109  2) Permute all possible combinations of options order and parameters values\r
 110 <P>\r
 111 \r
 112 <P>\r
 113 <DL>\r
 114 <DT><B>Author:</B></DT>\r
 115   <DD>pvtroshin</DD>\r
 116 </DL>\r
 117 <HR>\r
 118 \r
 119 <P>\r
 120 \r
 121 <!-- ======== CONSTRUCTOR SUMMARY ======== -->\r
 122 \r
 123 <A NAME="constructor_summary"><!-- --></A>\r
 124 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 125 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 126 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 127 <B>Constructor Summary</B></FONT></TH>\r
 128 </TR>\r
 129 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 130 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#OptionCombinator(compbio.metadata.RunnerConfig)">OptionCombinator</A></B>(<A HREF="../../compbio/metadata/RunnerConfig.html" title="class in compbio.metadata">RunnerConfig</A>&lt;? extends <A HREF="../../compbio/engine/client/Executable.html" title="interface in compbio.engine.client">Executable</A>&lt;?&gt;&gt;&nbsp;rconfig)</CODE>\r
 131 \r
 132 <BR>\r
 133 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 134 </TR>\r
 135 </TABLE>\r
 136 &nbsp;\r
 137 <!-- ========== METHOD SUMMARY =========== -->\r
 138 \r
 139 <A NAME="method_summary"><!-- --></A>\r
 140 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 141 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 142 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
 143 <B>Method Summary</B></FONT></TH>\r
 144 </TR>\r
 145 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 146 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 147 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 148 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#argumentsToCommandString(java.util.List)">argumentsToCommandString</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;? extends <A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;&nbsp;arguments)</CODE>\r
 149 \r
 150 <BR>\r
 151 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 152 </TR>\r
 153 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 154 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 155 <CODE>static&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 156 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#argumentsToCommandString(java.util.List, compbio.metadata.RunnerConfig)">argumentsToCommandString</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;? extends <A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;&nbsp;arguments,\r
 157                          <A HREF="../../compbio/metadata/RunnerConfig.html" title="class in compbio.metadata">RunnerConfig</A>&lt;? extends <A HREF="../../compbio/engine/client/Executable.html" title="interface in compbio.engine.client">Executable</A>&lt;?&gt;&gt;&nbsp;rconfig)</CODE>\r
 158 \r
 159 <BR>\r
 160 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 161 </TR>\r
 162 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 163 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 164 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/Map.html?is-external=true" title="class or interface in java.util">Map</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;,<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 165 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#getAllConstrainedParametersWithBorderValues(boolean)">getAllConstrainedParametersWithBorderValues</A></B>(boolean&nbsp;minValue)</CODE>\r
 166 \r
 167 <BR>\r
 168 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 169 </TR>\r
 170 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 171 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 172 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/Map.html?is-external=true" title="class or interface in java.util">Map</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;,<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 173 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#getAllConstrainedParametersWithRandomValues()">getAllConstrainedParametersWithRandomValues</A></B>()</CODE>\r
 174 \r
 175 <BR>\r
 176 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 177 </TR>\r
 178 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 179 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 180 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;</CODE></FONT></TD>\r
 181 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#getAllOptions()">getAllOptions</A></B>()</CODE>\r
 182 \r
 183 <BR>\r
 184 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 185 </TR>\r
 186 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 187 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 188 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;&gt;</CODE></FONT></TD>\r
 189 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#getAllParameters()">getAllParameters</A></B>()</CODE>\r
 190 \r
 191 <BR>\r
 192 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 193 </TR>\r
 194 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 195 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 196 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 197 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#getOptionsAtRandom()">getOptionsAtRandom</A></B>()</CODE>\r
 198 \r
 199 <BR>\r
 200 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 201 </TR>\r
 202 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 203 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 204 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 205 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#optionsToCommandString(java.util.List)">optionsToCommandString</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;&nbsp;options)</CODE>\r
 206 \r
 207 <BR>\r
 208 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 209 </TR>\r
 210 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 211 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">\r
 212 <CODE>&nbsp;<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;</CODE></FONT></TD>\r
 213 <TD><CODE><B><A HREF="../../compbio/runner/OptionCombinator.html#parametersToCommandString(java.util.List, java.util.Map)">parametersToCommandString</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;&gt;&nbsp;orderedList,\r
 214                           <A HREF="http://java.sun.com/javase/6/docs/api/java/util/Map.html?is-external=true" title="class or interface in java.util">Map</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;,<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;&nbsp;prmValue)</CODE>\r
 215 \r
 216 <BR>\r
 217 &nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;</TD>\r
 218 </TR>\r
 219 </TABLE>\r
 220 &nbsp;<A NAME="methods_inherited_from_class_java.lang.Object"><!-- --></A>\r
 221 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 222 <TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">\r
 223 <TH ALIGN="left"><B>Methods inherited from class java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">Object</A></B></TH>\r
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 225 <TR BGCOLOR="white" CLASS="TableRowColor">\r
 226 <TD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#equals(java.lang.Object)" title="class or interface in java.lang">equals</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#getClass()" title="class or interface in java.lang">getClass</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#hashCode()" title="class or interface in java.lang">hashCode</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#notify()" title="class or interface in java.lang">notify</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#notifyAll()" title="class or interface in java.lang">notifyAll</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#toString()" title="class or interface in java.lang">toString</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait()" title="class or interface in java.lang">wait</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait(long)" title="class or interface in java.lang">wait</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait(long, int)" title="class or interface in java.lang">wait</A></CODE></TD>\r
 227 </TR>\r
 228 </TABLE>\r
 229 &nbsp;\r
 230 <P>\r
 231 \r
 232 <!-- ========= CONSTRUCTOR DETAIL ======== -->\r
 233 \r
 234 <A NAME="constructor_detail"><!-- --></A>\r
 235 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 236 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 237 <TH ALIGN="left" COLSPAN="1"><FONT SIZE="+2">\r
 238 <B>Constructor Detail</B></FONT></TH>\r
 239 </TR>\r
 240 </TABLE>\r
 241 \r
 242 <A NAME="OptionCombinator(compbio.metadata.RunnerConfig)"><!-- --></A><H3>\r
 243 OptionCombinator</H3>\r
 244 <PRE>\r
 245 public <B>OptionCombinator</B>(<A HREF="../../compbio/metadata/RunnerConfig.html" title="class in compbio.metadata">RunnerConfig</A>&lt;? extends <A HREF="../../compbio/engine/client/Executable.html" title="interface in compbio.engine.client">Executable</A>&lt;?&gt;&gt;&nbsp;rconfig)</PRE>\r
 246 <DL>\r
 247 </DL>\r
 248 \r
 249 <!-- ============ METHOD DETAIL ========== -->\r
 250 \r
 251 <A NAME="method_detail"><!-- --></A>\r
 252 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
 253 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
 254 <TH ALIGN="left" COLSPAN="1"><FONT SIZE="+2">\r
 255 <B>Method Detail</B></FONT></TH>\r
 256 </TR>\r
 257 </TABLE>\r
 258 \r
 259 <A NAME="optionsToCommandString(java.util.List)"><!-- --></A><H3>\r
 260 optionsToCommandString</H3>\r
 261 <PRE>\r
 262 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>optionsToCommandString</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;&nbsp;options)</PRE>\r
 263 <DL>\r
 264 <DD><DL>\r
 265 </DL>\r
 266 </DD>\r
 267 </DL>\r
 268 <HR>\r
 269 \r
 270 <A NAME="getOptionsAtRandom()"><!-- --></A><H3>\r
 271 getOptionsAtRandom</H3>\r
 272 <PRE>\r
 273 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>getOptionsAtRandom</B>()</PRE>\r
 274 <DL>\r
 275 <DD><DL>\r
 276 </DL>\r
 277 </DD>\r
 278 </DL>\r
 279 <HR>\r
 280 \r
 281 <A NAME="getAllOptions()"><!-- --></A><H3>\r
 282 getAllOptions</H3>\r
 283 <PRE>\r
 284 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt; <B>getAllOptions</B>()</PRE>\r
 285 <DL>\r
 286 <DD><DL>\r
 287 </DL>\r
 288 </DD>\r
 289 </DL>\r
 290 <HR>\r
 291 \r
 292 <A NAME="getAllParameters()"><!-- --></A><H3>\r
 293 getAllParameters</H3>\r
 294 <PRE>\r
 295 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;&gt; <B>getAllParameters</B>()</PRE>\r
 296 <DL>\r
 297 <DD><DL>\r
 298 </DL>\r
 299 </DD>\r
 300 </DL>\r
 301 <HR>\r
 302 \r
 303 <A NAME="argumentsToCommandString(java.util.List)"><!-- --></A><H3>\r
 304 argumentsToCommandString</H3>\r
 305 <PRE>\r
 306 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>argumentsToCommandString</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;? extends <A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;&nbsp;arguments)</PRE>\r
 307 <DL>\r
 308 <DD><DL>\r
 309 </DL>\r
 310 </DD>\r
 311 </DL>\r
 312 <HR>\r
 313 \r
 314 <A NAME="argumentsToCommandString(java.util.List, compbio.metadata.RunnerConfig)"><!-- --></A><H3>\r
 315 argumentsToCommandString</H3>\r
 316 <PRE>\r
 317 public static <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>argumentsToCommandString</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;? extends <A HREF="../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A>&lt;?&gt;&gt;&nbsp;arguments,\r
 318                                                     <A HREF="../../compbio/metadata/RunnerConfig.html" title="class in compbio.metadata">RunnerConfig</A>&lt;? extends <A HREF="../../compbio/engine/client/Executable.html" title="interface in compbio.engine.client">Executable</A>&lt;?&gt;&gt;&nbsp;rconfig)</PRE>\r
 319 <DL>\r
 320 <DD><DL>\r
 321 </DL>\r
 322 </DD>\r
 323 </DL>\r
 324 <HR>\r
 325 \r
 326 <A NAME="parametersToCommandString(java.util.List, java.util.Map)"><!-- --></A><H3>\r
 327 parametersToCommandString</H3>\r
 328 <PRE>\r
 329 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>parametersToCommandString</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/util/List.html?is-external=true" title="class or interface in java.util">List</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;&gt;&nbsp;orderedList,\r
 330                                               <A HREF="http://java.sun.com/javase/6/docs/api/java/util/Map.html?is-external=true" title="class or interface in java.util">Map</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;,<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt;&nbsp;prmValue)</PRE>\r
 331 <DL>\r
 332 <DD><DL>\r
 333 </DL>\r
 334 </DD>\r
 335 </DL>\r
 336 <HR>\r
 337 \r
 338 <A NAME="getAllConstrainedParametersWithBorderValues(boolean)"><!-- --></A><H3>\r
 339 getAllConstrainedParametersWithBorderValues</H3>\r
 340 <PRE>\r
 341 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/Map.html?is-external=true" title="class or interface in java.util">Map</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;,<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>getAllConstrainedParametersWithBorderValues</B>(boolean&nbsp;minValue)</PRE>\r
 342 <DL>\r
 343 <DD><DL>\r
 344 </DL>\r
 345 </DD>\r
 346 </DL>\r
 347 <HR>\r
 348 \r
 349 <A NAME="getAllConstrainedParametersWithRandomValues()"><!-- --></A><H3>\r
 350 getAllConstrainedParametersWithRandomValues</H3>\r
 351 <PRE>\r
 352 public <A HREF="http://java.sun.com/javase/6/docs/api/java/util/Map.html?is-external=true" title="class or interface in java.util">Map</A>&lt;<A HREF="../../compbio/metadata/Parameter.html" title="class in compbio.metadata">Parameter</A>&lt;?&gt;,<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A>&gt; <B>getAllConstrainedParametersWithRandomValues</B>()</PRE>\r
 353 <DL>\r
 354 <DD><DL>\r
 355 </DL>\r
 356 </DD>\r
 357 </DL>\r
 358 <!-- ========= END OF CLASS DATA ========= -->\r
 359 <HR>\r
 360 \r
 361 \r
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 395   <!--\r
 396   if(window==top) {\r
 397     document.writeln('<A HREF="../../allclasses-noframe.html"><B>All Classes</B></A>');\r
 398   }\r
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