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7 Uses of Class compbio.metadata.WrongParameterException
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84 <B>Uses of Class<br>compbio.metadata.WrongParameterException</B></H2>
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87 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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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/WrongParameterException.html" title="class in compbio.metadata">WrongParameterException</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>Web Service interfaces for JAva Bioinformatics Analysis Web Services. </TD>
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96 <TR BGCOLOR="white" CLASS="TableRowColor">
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97 <TD><A HREF="#compbio.metadata"><B>compbio.metadata</B></A></TD>
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98 <TD>A meta-data model for multiple sequence alignment web services
99 Classes in this package have no dependencies to other sources in the project. </TD>
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104 <A NAME="compbio.data.msa"><!-- --></A>
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105 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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106 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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107 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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108 Uses of <A HREF="../../../compbio/metadata/WrongParameterException.html" title="class in compbio.metadata">WrongParameterException</A> in <A HREF="../../../compbio/data/msa/package-summary.html">compbio.data.msa</A></FONT></TH>
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114 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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116 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/data/msa/package-summary.html">compbio.data.msa</A> that throw <A HREF="../../../compbio/metadata/WrongParameterException.html" title="class in compbio.metadata">WrongParameterException</A></FONT></TH>
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118 <TR BGCOLOR="white" CLASS="TableRowColor">
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119 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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120 <CODE> java.lang.String</CODE></FONT></TD>
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121 <TD><CODE><B>MsaWS.</B><B><A HREF="../../../compbio/data/msa/MsaWS.html#customAlign(java.util.List, java.util.List)">customAlign</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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122 java.util.List<<A HREF="../../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A><<A HREF="../../../compbio/data/msa/MsaWS.html" title="type parameter in MsaWS">T</A>>> options)</CODE>
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125 Align a list of sequences with options.</TD>
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127 <TR BGCOLOR="white" CLASS="TableRowColor">
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128 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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129 <CODE> java.lang.String</CODE></FONT></TD>
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130 <TD><CODE><B>SequenceAnnotation.</B><B><A HREF="../../../compbio/data/msa/SequenceAnnotation.html#customAnalize(java.util.List, java.util.List)">customAnalize</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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131 java.util.List<<A HREF="../../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A><<A HREF="../../../compbio/data/msa/SequenceAnnotation.html" title="type parameter in SequenceAnnotation">T</A>>> options)</CODE>
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134 Analyse the sequences according to custom settings defined in options
137 <TR BGCOLOR="white" CLASS="TableRowColor">
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138 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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139 <CODE> java.lang.String</CODE></FONT></TD>
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140 <TD><CODE><B>MsaWS.</B><B><A HREF="../../../compbio/data/msa/MsaWS.html#presetAlign(java.util.List, compbio.metadata.Preset)">presetAlign</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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141 <A HREF="../../../compbio/metadata/Preset.html" title="class in compbio.metadata">Preset</A><<A HREF="../../../compbio/data/msa/MsaWS.html" title="type parameter in MsaWS">T</A>> preset)</CODE>
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144 Align a list of sequences with preset.</TD>
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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> java.lang.String</CODE></FONT></TD>
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149 <TD><CODE><B>SequenceAnnotation.</B><B><A HREF="../../../compbio/data/msa/SequenceAnnotation.html#presetAnalize(java.util.List, compbio.metadata.Preset)">presetAnalize</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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150 <A HREF="../../../compbio/metadata/Preset.html" title="class in compbio.metadata">Preset</A><<A HREF="../../../compbio/data/msa/SequenceAnnotation.html" title="type parameter in SequenceAnnotation">T</A>> preset)</CODE>
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153 Analyse the sequences according to the preset settings.</TD>
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158 <A NAME="compbio.metadata"><!-- --></A>
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159 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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160 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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161 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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162 Uses of <A HREF="../../../compbio/metadata/WrongParameterException.html" title="class in compbio.metadata">WrongParameterException</A> in <A HREF="../../../compbio/metadata/package-summary.html">compbio.metadata</A></FONT></TH>
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168 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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169 <TR BGCOLOR="#CCCCFF" CLASS="TableSubHeadingColor">
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170 <TH ALIGN="left" COLSPAN="2">Methods in <A HREF="../../../compbio/metadata/package-summary.html">compbio.metadata</A> that throw <A HREF="../../../compbio/metadata/WrongParameterException.html" title="class in compbio.metadata">WrongParameterException</A></FONT></TH>
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172 <TR BGCOLOR="white" CLASS="TableRowColor">
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173 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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174 <CODE> java.util.List<<A HREF="../../../compbio/metadata/Option.html" title="class in compbio.metadata">Option</A><<A HREF="../../../compbio/metadata/Preset.html" title="type parameter in Preset">T</A>>></CODE></FONT></TD>
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175 <TD><CODE><B>Preset.</B><B><A HREF="../../../compbio/metadata/Preset.html#getArguments(compbio.metadata.RunnerConfig)">getArguments</A></B>(<A HREF="../../../compbio/metadata/RunnerConfig.html" title="class in compbio.metadata">RunnerConfig</A><<A HREF="../../../compbio/metadata/Preset.html" title="type parameter in Preset">T</A>> rconfig)</CODE>
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178 Converts list of options as String to type Option</TD>
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180 <TR BGCOLOR="white" CLASS="TableRowColor">
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181 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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182 <CODE> void</CODE></FONT></TD>
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183 <TD><CODE><B>Parameter.</B><B><A HREF="../../../compbio/metadata/Parameter.html#setDefaultValue(java.lang.String)">setDefaultValue</A></B>(java.lang.String defaultVal)</CODE>
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186 </TD>
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188 <TR BGCOLOR="white" CLASS="TableRowColor">
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189 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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190 <CODE> void</CODE></FONT></TD>
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191 <TD><CODE><B>Option.</B><B><A HREF="../../../compbio/metadata/Option.html#setDefaultValue(java.lang.String)">setDefaultValue</A></B>(java.lang.String defaultVal)</CODE>
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194 Sets one of the values defined in optionList as default.</TD>
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196 <TR BGCOLOR="white" CLASS="TableRowColor">
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197 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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198 <CODE> void</CODE></FONT></TD>
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199 <TD><CODE><B>Argument.</B><B><A HREF="../../../compbio/metadata/Argument.html#setValue(java.lang.String)">setValue</A></B>(java.lang.String defaultValue)</CODE>
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202 Set default values for the parameter or an option</TD>
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204 <TR BGCOLOR="white" CLASS="TableRowColor">
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205 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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206 <CODE> void</CODE></FONT></TD>
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207 <TD><CODE><B>Option.</B><B><A HREF="../../../compbio/metadata/Option.html#setValue(java.lang.String)">setValue</A></B>(java.lang.String dValue)</CODE>
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229 <TD BGCOLOR="#EEEEFF" CLASS="NavBarCell1"> <A HREF="../../../compbio/metadata/WrongParameterException.html" title="class in compbio.metadata"><FONT CLASS="NavBarFont1"><B>Class</B></FONT></A> </TD>
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230 <TD BGCOLOR="#FFFFFF" CLASS="NavBarCell1Rev"> <FONT CLASS="NavBarFont1Rev"><B>Use</B></FONT> </TD>
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