<!--NewPage-->\r
<HTML>\r
<HEAD>\r
-<!-- Generated by javadoc (build 1.6.0_14) on Wed Feb 17 16:46:50 GMT 2010 -->\r
+<!-- Generated by javadoc (build 1.6.0_24) on Fri Aug 12 14:32:36 BST 2011 -->\r
<TITLE>\r
Uses of Package compbio.engine.client\r
</TITLE>\r
\r
-<META NAME="date" CONTENT="2010-02-17">\r
+<META NAME="date" CONTENT="2011-08-12">\r
\r
<LINK REL ="stylesheet" TYPE="text/css" HREF="../../../stylesheet.css" TITLE="Style">\r
\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.engine.client"><B>compbio.engine.client</B></A></TD>\r
-<TD>Classes and interfaces representing an input for engines. </TD>\r
+<TD> </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.engine.cluster.drmaa"><B>compbio.engine.cluster.drmaa</B></A></TD>\r
-<TD>An cluster engine classes responsible for execution of Executables on the clusters. </TD>\r
+<TD> </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.engine.conf"><B>compbio.engine.conf</B></A></TD>\r
-<TD>Classes commonly used by both engines. </TD>\r
+<TD> </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.engine.local"><B>compbio.engine.local</B></A></TD>\r
-<TD>An local engine classes responsible for execution of Executables on the local computer
- (the same machine as JVM running these classes). </TD>\r
+<TD> </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.runner"><B>compbio.runner</B></A></TD>\r
<TD> </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><A HREF="#compbio.runner.conservation"><B>compbio.runner.conservation</B></A></TD>\r
+<TD> </TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><A HREF="#compbio.runner.disorder"><B>compbio.runner.disorder</B></A></TD>\r
+<TD> </TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.runner.msa"><B>compbio.runner.msa</B></A></TD>\r
<TD>Wrappers for native executables for multiple sequence alignment (msa) </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><A HREF="#compbio.runner.psiblast"><B>compbio.runner.psiblast</B></A></TD>\r
-<TD> </TD>\r
+<TD><A HREF="#compbio.ws.client"><B>compbio.ws.client</B></A></TD>\r
+<TD>A command line client and web services testing client for
+ JAva Bioinformatics Analysis Web Services. </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><A HREF="#compbio.ws.server"><B>compbio.ws.server</B></A></TD>\r
</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/ConfiguredExecutable.html#compbio.runner"><B>ConfiguredExecutable</B></A></B>\r
+\r
+<BR>\r
+ </TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.runner"><B>Executable</B></A></B>\r
\r
<BR>\r
</TABLE>\r
\r
<P>\r
-<A NAME="compbio.runner.msa"><!-- --></A>\r
+<A NAME="compbio.runner.conservation"><!-- --></A>\r
<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
<TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
-Classes in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> used by <A HREF="../../../compbio/runner/msa/package-summary.html">compbio.runner.msa</A></FONT></TH>\r
+Classes in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> used by <A HREF="../../../compbio/runner/conservation/package-summary.html">compbio.runner.conservation</A></FONT></TH>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/ClusterNativeSpecExecutable.html#compbio.runner.msa"><B>ClusterNativeSpecExecutable</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/CommandBuilder.html#compbio.runner.conservation"><B>CommandBuilder</B></A></B>\r
\r
<BR>\r
</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/CommandBuilder.html#compbio.runner.msa"><B>CommandBuilder</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.runner.conservation"><B>Executable</B></A></B>\r
+\r
+<BR>\r
+ Interface to a native executable.</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.ExecProvider.html#compbio.runner.conservation"><B>Executable.ExecProvider</B></A></B>\r
\r
<BR>\r
</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.runner.msa"><B>Executable</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/SkeletalExecutable.html#compbio.runner.conservation"><B>SkeletalExecutable</B></A></B>\r
+\r
+<BR>\r
+ </TD>\r
+</TR>\r
+</TABLE>\r
+ \r
+<P>\r
+<A NAME="compbio.runner.disorder"><!-- --></A>\r
+<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
+<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
+<TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
+Classes in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> used by <A HREF="../../../compbio/runner/disorder/package-summary.html">compbio.runner.disorder</A></FONT></TH>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/CommandBuilder.html#compbio.runner.disorder"><B>CommandBuilder</B></A></B>\r
+\r
+<BR>\r
+ </TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.runner.disorder"><B>Executable</B></A></B>\r
\r
<BR>\r
Interface to a native executable.</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.ExecProvider.html#compbio.runner.msa"><B>Executable.ExecProvider</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.ExecProvider.html#compbio.runner.disorder"><B>Executable.ExecProvider</B></A></B>\r
\r
<BR>\r
</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/PipedExecutable.html#compbio.runner.msa"><B>PipedExecutable</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/PipedExecutable.html#compbio.runner.disorder"><B>PipedExecutable</B></A></B>\r
\r
<BR>\r
This is a marker interface to indicate that the output of the process must be
captured.</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/SkeletalExecutable.html#compbio.runner.msa"><B>SkeletalExecutable</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/SkeletalExecutable.html#compbio.runner.disorder"><B>SkeletalExecutable</B></A></B>\r
\r
<BR>\r
</TD>\r
</TABLE>\r
\r
<P>\r
-<A NAME="compbio.runner.psiblast"><!-- --></A>\r
+<A NAME="compbio.runner.msa"><!-- --></A>\r
<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
<TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
-Classes in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> used by <A HREF="../../../compbio/runner/psiblast/package-summary.html">compbio.runner.psiblast</A></FONT></TH>\r
+Classes in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> used by <A HREF="../../../compbio/runner/msa/package-summary.html">compbio.runner.msa</A></FONT></TH>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/CommandBuilder.html#compbio.runner.msa"><B>CommandBuilder</B></A></B>\r
+\r
+<BR>\r
+ </TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.runner.psiblast"><B>Executable</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.runner.msa"><B>Executable</B></A></B>\r
\r
<BR>\r
Interface to a native executable.</TD>\r
</TR>\r
<TR BGCOLOR="white" CLASS="TableRowColor">\r
-<TD><B><A HREF="../../../compbio/engine/client/class-use/SkeletalExecutable.html#compbio.runner.psiblast"><B>SkeletalExecutable</B></A></B>\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.ExecProvider.html#compbio.runner.msa"><B>Executable.ExecProvider</B></A></B>\r
+\r
+<BR>\r
+ </TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/PipedExecutable.html#compbio.runner.msa"><B>PipedExecutable</B></A></B>\r
+\r
+<BR>\r
+ This is a marker interface to indicate that the output of the process must be
+ captured.</TD>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/SkeletalExecutable.html#compbio.runner.msa"><B>SkeletalExecutable</B></A></B>\r
\r
<BR>\r
</TD>\r
</TABLE>\r
\r
<P>\r
+<A NAME="compbio.ws.client"><!-- --></A>\r
+<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
+<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
+<TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">\r
+Classes in <A HREF="../../../compbio/engine/client/package-summary.html">compbio.engine.client</A> used by <A HREF="../../../compbio/ws/client/package-summary.html">compbio.ws.client</A></FONT></TH>\r
+</TR>\r
+<TR BGCOLOR="white" CLASS="TableRowColor">\r
+<TD><B><A HREF="../../../compbio/engine/client/class-use/Executable.html#compbio.ws.client"><B>Executable</B></A></B>\r
+\r
+<BR>\r
+ Interface to a native executable.</TD>\r
+</TR>\r
+</TABLE>\r
+ \r
+<P>\r
<A NAME="compbio.ws.server"><!-- --></A>\r
<TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">\r
<TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">\r
git://source.jalview.org / jabaws.git / blobdiff