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JPRED-2 Add alscript to the Git repository
[jpred.git] / sources / alscript / doc / alscript / subsection3_16_1.html
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+<HEAD>
+<TITLE> ALSCRIPT Command Summary</TITLE>
+</HEAD>
+<BODY><P>
+ <HR> <A NAME=tex2html347 HREF=subsubsection3_16_1_1.html><IMG ALIGN=MIDDLE SRC="http://geoff.biop.ox.ac.uk/latex2html/next_motif.gif"></A> <A NAME=tex2html345 HREF=section3_16.html><IMG ALIGN=MIDDLE SRC="http://geoff.biop.ox.ac.uk/latex2html/up_motif.gif"></A> <A NAME=tex2html339 HREF=section3_16.html><IMG ALIGN=MIDDLE SRC="http://geoff.biop.ox.ac.uk/latex2html/previous_motif.gif"></A> <A NAME=tex2html349 HREF=tableofcontents3_1.html><IMG ALIGN=MIDDLE SRC="http://geoff.biop.ox.ac.uk/latex2html/contents_motif.gif"></A> <BR>
+<B> Next:</B> <A NAME=tex2html348 HREF=subsubsection3_16_1_1.html> STEP 1 COMMANDS</A>
+<B>Up:</B> <A NAME=tex2html346 HREF=section3_16.html> Appendices</A>
+<B> Previous:</B> <A NAME=tex2html340 HREF=section3_16.html> Appendices</A>
+<HR> <P>
+<H2><A NAME=SECTION00016100000000000000> ALSCRIPT Command Summary</A></H2>
+<P>
+<A NAME=app1><IMG ALIGN=MIDDLE SRC="http://geoff.biop.ox.ac.uk/latex2html/invis_anchor.xbm"></A>
+<P>
+WARNING:  Very little error checking is performed on command input.  If
+you give the wrong number of arguments to a command, then unexpected
+things may happen, or the program will crash very inelegantly.  I hope
+to fix this in the next version of the program, in the meantime, make sure
+you give the correct number of arguments to each command.
+<P>
+All commands up to the first space character may be entered in UPPER
+or lower case or MiXEd case.  Qualifiers for commands (e.g. REL) must
+be written in UPPER case.
+<P>
+Command Reference:
+<P>
+<PRE><TT>
+&lt;int&gt;  = enter an integer  (e.g. 240)
+&lt;float&gt; = enter a floating point number (e.g. 0.45)
+&lt;string&gt; = enter a string (e.g.  ARNDql)
+&lt;qstring&gt; = enter a quoted string (e.g. &quot;Active Site&quot;)
+&lt;char&gt;    = enter a single character.</TT></PRE>
+<P>
+<HR>
+<UL> 
+<LI> <A NAME=tex2html350 HREF=subsubsection3_16_1_1.html#SECTION00016110000000000000> STEP 1 COMMANDS</A>
+<LI> <A NAME=tex2html351 HREF=subsubsection3_16_1_2.html#SECTION00016120000000000000> REQUIRED STEP 1 COMMANDS</A>
+<LI> <A NAME=tex2html352 HREF=subsubsection3_16_1_3.html#SECTION00016130000000000000> OPTIONAL STEP 1 COMMANDS</A>
+<LI> <A NAME=tex2html353 HREF=subsubsection3_16_1_4.html#SECTION00016140000000000000> STEP 2 COMMANDS</A>
+</UL>
+<HR>
+
+</BODY>
+<P><ADDRESS>
+gjb@bioch.ox.ac.uk
+</ADDRESS>
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