<?xml version="1.0" encoding="utf-8" standalone="no"?>
<!DOCTYPE document PUBLIC "-//CNX//DTD CNXML 0.5 plus MathML//EN" "http://cnx.rice.edu/technology/cnxml/schema/dtd/0.5/cnxml_mathml.dtd">
<document xmlns="http://cnx.rice.edu/cnxml" xmlns:md="http://cnx.rice.edu/mdml/0.4" xmlns:bib="http://bibtexml.sf.net/" xmlns:m="http://www.w3.org/1998/Math/MathML" id="new">
  <name>cnxns</name>
  <metadata>
  <md:version>1.5</md:version>
  <md:created>2003/08/19 10:49:19 GMT-5</md:created>
  <md:revised>2008/01/25 11:19:33.136 US/Central</md:revised>
  <md:authorlist>
      <md:author id="cbearden">
      <md:firstname>Charles</md:firstname>
      <md:othername>F.</md:othername>
      <md:surname>Bearden</md:surname>
      <md:email>cbearden@rice.edu</md:email>
    </md:author>
  </md:authorlist>

  <md:maintainerlist>
    <md:maintainer id="cbearden">
      <md:firstname>Charles</md:firstname>
      <md:othername>F.</md:othername>
      <md:surname>Bearden</md:surname>
      <md:email>cbearden@rice.edu</md:email>
    </md:maintainer>
    <md:maintainer id="bantley">
      <md:firstname>Britt</md:firstname>
      
      <md:surname>Antley</md:surname>
      <md:email>antley@rice.edu</md:email>
    </md:maintainer>
  </md:maintainerlist>
  
  <md:keywordlist>
    <md:keyword>Need keywords</md:keyword>
  </md:keywordlist>

  <md:abstract>Need summary</md:abstract>
</metadata>
  <content>
    <section id="s6-lists">
      <name>Gratuitous list-o-mania</name>
      <list id="s6-l1a" type="named-item">
        <name>Named-item list</name>
        <item><name>One name</name> the first item</item>
        <item id="s6-l1a-i2"><name>Two name</name> the second item</item>
        <item><name>Three name</name> the third item</item>
      </list>
      <section id="s6-named-item">
        <name>Named-item list</name>
        <list id="s6-l1b" type="named-item">
          <item><name>One name</name> the first item</item>
          <item id="s6-l1b-i2"><name>Two name</name> the second item</item>
          <item><name>Three name</name> the third item</item>
        </list>
      </section>
      <list id="s6-l2a" type="bulleted">
        <name>Bulleted list</name>
        <item>the first item</item>
        <item id="s6-l2a-i2">the second item</item>
        <item>the third item</item>
      </list>
      <section id="s6-bulleted">
      <name>Bulleted list, no name</name>
        <list id="s6-l2b" type="bulleted">
          <item>the first item</item>
          <item id="s6-l2b-i2">the second item</item>
          <item>the third item</item>
        </list>
      </section>
      <list id="s6-l3a" type="enumerated">
        <name>Enumerated list</name>
        <item>the first item</item>
        <item id="s6-l3a-i2">the second item</item>
        <item>the third item</item>
      </list>
      <section id="s6-enumerated">
      <name>Enumerated list, no name</name>
        <list id="s6-l3b" type="enumerated">
          <item>the first item</item>
          <item id="s6-l3b-i2">the second item</item>
          <item>the third item</item>
        </list>
      </section>
    </section>
<figure orient="horizontal" id="beta_sheets"><name>Secondary Structure: β-sheet</name>
<subfigure id="beta_sheet_cartoon">
   <name> Cartoon representation </name>
   <media type="image/jpg" src="/content/m11614/latest/beta_sheet_cartoon.JPG">
   <param name="height" value="200"/>
   <param name="print-width" value="1.5in"/>
   </media>
   <caption> Different parts of the polypeptide strand align with each other to form a β-sheet. This β-sheet is <term>anti-parallel</term>, because adjacent segments of the protein run in opposite directions.</caption>
   </subfigure>
   <subfigure id="beta_sheet_ribbon">
   <name> Ribbon representation </name>
   <media type="image/jpg" src="/content/m11614/latest/beta_sheet_ribbon.JPG">
   <param name="height" value="200"/>
   <param name="print-width" value="1.5in"/>
   </media>
   <caption> β-sheets are sometimes referred to as β pleated sheets, because of the regular zig-zag of the strands evident in this representation. </caption>
   </subfigure>
   <subfigure id="beta_sheet_bond">
   <name> Bond representation </name>
   <media type="image/jpg" src="/content/m11614/latest/beta_sheet_bond.JPG">
   <param name="height" value="200"/>
   <param name="print-width" value="1.5in"/>
   </media>
   <caption> Each segment in this representation represents a bond. Unlike the other two representations, side chains are illustrated.  Note the alignment of oxygen atoms (red) toward nitrogen atoms (blue) on adjacent strands.  This alignment is due to hydrogen bonding, the primary interaction involved in stabilizing secondary structure. </caption>
   </subfigure>
    <caption> Beta-sheets represented in three different rendering modes:  cartoon, ribbon, and bond representations.</caption></figure>


    <example id="ex1">
      <para id="ex1-p1">Umm</para>
    </example>
    <example id="ex2"><name>This is not the Example you were looking for</name>
      <para id="ex2-p1">Move along!</para>
    </example>
    <para id="p1">
      <list id="p1l0">
        <name>Collections</name>
        <item><cnxn document="col10208">external collection</cnxn></item>
        <item><cnxn document="col10208"/></item>
      </list>
      <list id="p1l1">
        <name>Documents</name>
        <item><cnxn document="m12373">external module</cnxn></item>
        <item><cnxn document="m0042">internal module</cnxn></item>
      </list>
      <list id="p1l2">
        <name>Figures</name>
        <item><cnxn document="m12413" target="fig0c">external, with title</cnxn></item>
        <item><cnxn document="m12373" target="fig1a">external, without title</cnxn></item>
        <item>external, with title<cnxn document="m12413" target="fig0c"/></item>
        <item>external, without title<cnxn document="m12373" target="fig1a"/></item>
        <item><cnxn document="m0042" target="periodic">internal, with title</cnxn></item>
        <item><cnxn document="m0042" target="pps">internal, without title</cnxn></item>
        <item>Text before: <cnxn document="m0042" target="periodic"/></item>
        <item>Text before (no title): <cnxn document="m0042" target="pps"/></item>
      </list>
      <list id="p1l3">
        <name>Sections</name>
        <item><cnxn document="m9000" target="namespace_declaration">external, with title</cnxn></item>
        <item><cnxn document="m15151" target="section-3a">external, without title</cnxn></item>
        <item><cnxn document="m10510" target="sec5a">internal, with title</cnxn></item>
        <!-- <item><cnxn document="m0042" target="pps">internal, without title</cnxn></item> -->
        <item>Text before: <cnxn document="m10510" target="sec5a"/></item>
        <!-- <item>Text before (no title): <cnxn document="m0042" target="pps"/></item> -->
      </list>
      <list id="p1l4">
        <name>Equations</name>
        <item><cnxn document="m10235" target="eq04">external, with title</cnxn></item>
        <item><cnxn document="m12058" target="eqn2">external, without title</cnxn></item>
        <item><cnxn target="eqn3">internal, with title</cnxn></item>
        <item><cnxn document="m0042" target="eqn3">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="eqn3"/></item>
        <item>Text before (no title): <cnxn document="m0042" target="eqn3"/></item>
      </list>
      <list id="p1l5">
        <name>Paragraphs</name>
        <item><cnxn document="m12665" target="collezioni_punti">external, with title</cnxn></item>
        <item><cnxn document="m9000" target="namespaces">external, without title</cnxn></item>
        <item><cnxn target="s4paras-p1">internal, with title</cnxn></item>
        <item><cnxn document="m0042" target="rule1para2">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="s4paras-p1"/>.</item>
        <item>Text before (no title): <cnxn document="m0042" target="rule1para2"/>.</item>
      </list>
      <list id="p1l6">
        <name>Definitions</name>
        <item><cnxn document="m15194" target="definition-62">external</cnxn></item>
        <item><cnxn document="m10510" target="wiki">internal</cnxn></item>
        <item>Text before: <cnxn document="m10510" target="wiki"/>.</item>
      </list>
      <list id="p1l7">
        <name>Tables</name>
        <item><cnxn document="m10715" target="table1" version="2.45">external, with title</cnxn></item>
        <item><cnxn document="m10717" target="proof2" version="2.31">external, without title</cnxn></item>
        <item><cnxn document="m15431" target="table03">internal, with title</cnxn></item>
        <item><cnxn document="m12077" target="proof1">internal, without title</cnxn></item>
        <item>Text before: <cnxn document="m15431" target="table03"/>.</item>
        <item>Text before (no title): <cnxn document="m12077" target="proof1"/>.</item>
      </list>
      <list id="p1l8">
        <name>Examples</name>
        <item><cnxn document="m12565" target="ex23423" version="1.9">external, with title</cnxn></item>
        <item><cnxn document="m10717" target="example2" version="2.31">external, without title</cnxn></item>
        <item><cnxn target="ex2">internal, with title</cnxn></item>
        <item><cnxn document="m12077" target="example3">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="ex2"/>.</item>
        <item>Text before (no title): <cnxn document="m12077" target="example3"/>.</item>
      </list>
      <list id="p1l9">
        <name>Lists</name>
        <item><cnxn document="m14468" target="element-686" version="">external, with title</cnxn></item>
        <item><cnxn document="m14468" target="element-34" version="">external, without title</cnxn></item>
        <item><cnxn target="p1l0">internal, with title</cnxn></item>
        <item><cnxn document="m0039" target="triglist">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="p1l0"/>.</item>
        <item>Text before (no title): <cnxn document="m0039" target="triglist"/>.</item>
      </list>
      <list id="p1l10">
        <name>Subfigures</name>
        <item><cnxn document="m11614" target="beta_sheet_ribbon" version="">external, with title</cnxn></item>
        <item><cnxn document="m12072" target="board-snippet1" version="">external, without title</cnxn></item>
        <item><cnxn target="beta_sheet_ribbon">internal, with title</cnxn></item>
        <item><cnxn document="m10250" target="oneoneohtwo">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="beta_sheet_ribbon"/>.</item>
        <item>Text before (no title): <cnxn document="m10250" target="oneoneohtwo"/>.</item>
      </list>
      <list id="p1l11">
        <name>Exercises</name>
        <item><cnxn document="m11795" target="one" version="">external, with title</cnxn></item>
        <item><cnxn document="m11633" target="ex6a" version="">external, without title</cnxn></item>
        <item><cnxn target="one">internal, with title</cnxn></item>
        <item><cnxn document="m10250" target="exer1">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="one"/>.</item>
        <item>Text before (no title): <cnxn document="m10250" target="exer1"/>.</item>
      </list>
      <list id="p1l12">
        <name>List items (bulleted lists)</name>
        <!-- <item><cnxn document="" target="" version="">external, with title</cnxn></item> -->
        <item><cnxn document="m14003" target="id2811131" version="">external, without title</cnxn></item>
        <item><cnxn target="s6-l2a-i2">internal, with title</cnxn></item>
        <item><cnxn document="m15432" target="s6-l2b-i2">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="s6-l2a-i2"/>.</item>
        <item>Text before (no title): <cnxn document="m15432" target="s6-l2b-i2"/>.</item>
      </list>
      <list id="p1l13">
        <name>List items (enumerated lists)</name>
        <item><cnxn document="m10367" target="prob3" version="">external, with title</cnxn></item>
        <item><cnxn document="m12273" target="step4" version="">external, without title</cnxn></item>
        <item><cnxn target="s6-l3a-i2">internal, with title</cnxn></item>
        <item><cnxn document="m15432" target="s6-l3b-i2">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="s6-l3a-i2"/>.</item>
        <item>Text before (no title): <cnxn document="m15432" target="s6-l3b-i2"/>.</item>
      </list>
      <list id="p1l14">
        <name>List items (named-item lists)</name>
        <!-- <item><cnxn document="" target="" version="">external, with title</cnxn></item> -->
        <item><cnxn document="m13949" target="id2912580" version="">external, without title</cnxn></item>
        <item><cnxn target="s6-l1a-i2">internal, with title</cnxn></item>
        <item><cnxn document="m15432" target="s6-l1b-i2">internal, without title</cnxn></item>
        <item>Text before: <cnxn target="s6-l1a-i2"/>.</item>
        <item>Text before (no title): <cnxn document="m15432" target="s6-l1b-i2"/>.</item>
      </list>
      <list id="p1l15">
        <name>Media</name>
        <item><cnxn document="m12204" target="m1" version="">external</cnxn></item>
        <item><cnxn document="m12205" target="p8">internal, with common ancestor para (see this para)</cnxn></item>
        <item><cnxn document="m12200" target="list5">internal, with common ancestor item (see this list, item 4)</cnxn></item>
        <item><cnxn document="m12258" target="s1f1">internal, without common ancestor</cnxn></item>
        <!-- <item>Text before: <cnxn target=""/>.</item>
        <item>Text before (no common ancestor): <cnxn document="" target=""/>.</item> -->
      </list>
      <list id="p1l16">
        <name>Problem</name>
        <item><cnxn document="m15433" target="ex1-prob" version="">external, with title</cnxn></item>
        <item><cnxn document="m15433" target="ex2-prob" version="">external, without title</cnxn></item>
        <item><cnxn document="m15434" target="ex1-prob">internal, with title</cnxn></item>
        <item><cnxn document="m15434" target="ex2-prob">internal, without title</cnxn></item>
        <item>Text before: <cnxn document="m15434" target="ex1-prob"/>.</item>
        <item>Text before (no title): <cnxn document="m15434" target="ex2-prob"/>.</item>
      </list>
      <list id="p1l17">
        <name>Rule</name>
        <item><cnxn document="m15433" target="rule1" version="">external, with title</cnxn></item>
        <item><cnxn document="m15433" target="rule2" version="">external, with special type</cnxn></item>
        <item><cnxn document="m15434" target="rule1">internal, with title</cnxn></item>
        <item><cnxn document="m15434" target="rule2">internal, with special type</cnxn></item>
        <item>Text before: <cnxn document="m15434" target="rule1"/>.</item>
        <item>Text before (no title): <cnxn document="m15434" target="rule2"/>.</item>
      </list>
      <list id="p1l18">
        <name>Code</name>
        <item><cnxn document="m15433" target="s4-code2" version="">external</cnxn></item>
        <item><cnxn document="m15433" target="s4-code1" version="">external</cnxn></item>
        <item><cnxn document="m15434" target="s4-code2">internal</cnxn></item>
        <item><cnxn document="m15434" target="s4-code1">internal</cnxn></item>
        <item>Text before: <cnxn document="m15434" target="s4-code2"/>.</item>
        <item>Text before (no title): <cnxn document="m15434" target="s4-code1"/>.</item>
      </list>
      <list id="p1l19">
        <name>Bib entries</name>
        <item><cnxn document="m15433" target="roberts" version="">external</cnxn></item>
        <item><cnxn document="m15433" target="meffe" version="">external</cnxn></item>
        <item><cnxn document="m15434" target="roberts">internal</cnxn></item>
        <item><cnxn document="m15434" target="meffe">internal</cnxn></item>
        <item>Text before: <cnxn document="m15434" target="roberts"/>.</item>
        <item>Text before (no title): <cnxn document="m15434" target="meffe"/>.</item>
      </list>
    </para>   


    <section id="s1">
      <name>Equations?</name>
      <equation id="eqn3">
        <name>Complex Fourier Series (Square Wave)</name>
	<m:math display="block">
	  <m:apply>
	    <m:eq/>
	    <m:apply>
	      <m:ci type="fn">sq</m:ci>
	      <m:ci>t</m:ci>
	    </m:apply>
	    <m:apply>
	      <m:sum/>
	      <m:bvar>
		<m:ci>k</m:ci>
	      </m:bvar>
	      <m:condition>
		<m:apply>
		  <m:in/>
		  <m:ci>k</m:ci>
		  <m:set>
		    <m:ci>…</m:ci>
		    <m:cn>-3</m:cn>
		    <m:cn>-1</m:cn>
		    <m:cn>1</m:cn>
		    <m:cn>3</m:cn>
		    <m:ci>…</m:ci>
		  </m:set>
		</m:apply>
	      </m:condition>
	      <m:apply>
		<m:times/>
		<m:apply>
		  <m:divide/>
		  <m:cn>2</m:cn>
		  <m:apply>
		    <m:times/>
		    <m:imaginaryi/>
		    <m:pi/>
		    <m:ci>k</m:ci>
		  </m:apply>
		</m:apply>
		<m:apply>
		  <m:exp/>
		  <m:apply>
		    <m:times/>
		    <m:apply>
		      <m:plus/>
		      <m:imaginaryi/>
		    </m:apply>
		    <m:apply>
		      <m:divide/>
		      <m:apply>
			<m:times/>
			<m:cn>2</m:cn>
			<m:pi/>
			<m:ci>k</m:ci>
			<m:ci>t</m:ci>
		      </m:apply>
		      <m:ci>T</m:ci>
		    </m:apply>
		  </m:apply>
		</m:apply>
	      </m:apply>
	    </m:apply>
	  </m:apply>
	</m:math>
      </equation>
    </section>
    <section id="s4paras">
      <name>Gratuitous para with a name inside the collection</name>
      <para id="s4paras-p1">
        <name>A para with a name</name>
        There are many paras to choose from in the world.  We are glad you chose this one.
      </para>
    </section>
    <section id="s5exer">
      <name>Gratuitous exercise with a name inside the collection</name>
      <exercise id="one">
        <name>Math Problem.</name>
        <problem>
          <para id="prob1">I write this module today, and I live to the year 2066 (hallelujah!).  When can you make use of it?</para>
        </problem>
        <solution>
        <para id="prob2">It's a trick question, this text is available under a license that allows you to use it now.  Nonethless, the copyright on this text will last until Jan 20. 2136.  That's 132 years from now.  
        </para>
        </solution>
      </exercise>
    </section>
    <section id="s6table">
      <table id="s6-t1">
        <name>Table with footnotes</name>
        <tgroup cols="3">
          <tbody>
            <row>
              <entry> </entry>
              <entry> </entry>
              <entry>Presently, you can't put a <code>note[@type="footnote"]</code> in a table cell.
              </entry>
            </row>
            <row>
              <entry> </entry>
              <entry>This cell contains a <link src="http://linkage.net/"><code>link</code> footnote.</link>
              </entry>
              <entry> </entry>
            </row>
            <row>
              <entry>This cell contains a <code>cnxn</code> that shouldn't become a footnote.  See <cnxn target="beta_sheets"/>.
              </entry>
              <entry>This cell contains a <code>cnxn</code> that should become a footnote.  See <cnxn document="m15433" target="ex2-prob"/>.
              </entry>
              <entry> </entry>
            </row>
          </tbody>
        </tgroup>
      </table>
    </section>
  </content>
  
</document>
