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+<div class="title">PS_dot.h</div> </div>
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+<div class="contents">
+<a href="PS__dot_8h.html">Go to the documentation of this file.</a><div class="fragment"><div class="line"><a name="l00001"></a><span class="lineno"> 1</span> <span class="preprocessor">#ifndef __VIENNA_RNA_PACKAGE_PS_DOT_H__</span></div>
+<div class="line"><a name="l00002"></a><span class="lineno"> 2</span> <span class="preprocessor"></span><span class="preprocessor">#define __VIENNA_RNA_PACKAGE_PS_DOT_H__</span></div>
+<div class="line"><a name="l00003"></a><span class="lineno"> 3</span> <span class="preprocessor"></span></div>
+<div class="line"><a name="l00004"></a><span class="lineno"> 4</span> <span class="preprocessor">#include "<a class="code" href="data__structures_8h.html" title="All datastructures and typedefs shared among the Vienna RNA Package can be found here.">data_structures.h</a>"</span></div>
+<div class="line"><a name="l00005"></a><span class="lineno"> 5</span> <span class="preprocessor">#include "<a class="code" href="plot__layouts_8h.html" title="Secondary structure plot layout algorithms.">plot_layouts.h</a>"</span></div>
+<div class="line"><a name="l00006"></a><span class="lineno"> 6</span> </div>
+<div class="line"><a name="l00007"></a><span class="lineno"> 7</span> <span class="preprocessor">#ifdef __GNUC__</span></div>
+<div class="line"><a name="l00008"></a><span class="lineno"> 8</span> <span class="preprocessor"></span><span class="preprocessor">#define DEPRECATED(func) func __attribute__ ((deprecated))</span></div>
+<div class="line"><a name="l00009"></a><span class="lineno"> 9</span> <span class="preprocessor"></span><span class="preprocessor">#else</span></div>
+<div class="line"><a name="l00010"></a><span class="lineno"> 10</span> <span class="preprocessor"></span><span class="preprocessor">#define DEPRECATED(func) func</span></div>
+<div class="line"><a name="l00011"></a><span class="lineno"> 11</span> <span class="preprocessor"></span><span class="preprocessor">#endif</span></div>
+<div class="line"><a name="l00012"></a><span class="lineno"> 12</span> <span class="preprocessor"></span></div>
+<div class="line"><a name="l00019"></a><span class="lineno"> 19</span> <span class="comment">/* write PostScript drawing of structure to file with annotation */</span></div>
+<div class="line"><a name="l00020"></a><span class="lineno"> 20</span> <span class="keywordtype">int</span> PS_rna_plot_snoop_a(<span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00021"></a><span class="lineno"> 21</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00022"></a><span class="lineno"> 22</span>  <span class="keywordtype">char</span> *ssfile,</div>
+<div class="line"><a name="l00023"></a><span class="lineno"> 23</span>  <span class="keywordtype">int</span> *relative_access,</div>
+<div class="line"><a name="l00024"></a><span class="lineno"> 24</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *seqs[]);</div>
+<div class="line"><a name="l00025"></a><span class="lineno"> 25</span> </div>
+<div class="line"><a name="l00038"></a><span class="lineno"> 38</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#a0873c7cc4cd7a11c9a2cea19dde7e9c9" title="Produce a secondary structure graph in PostScript and write it to 'filename'.">PS_rna_plot</a>(<span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00039"></a><span class="lineno"> 39</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00040"></a><span class="lineno"> 40</span>  <span class="keywordtype">char</span> *file);</div>
+<div class="line"><a name="l00041"></a><span class="lineno"> 41</span> </div>
+<div class="line"><a name="l00060"></a><span class="lineno"> 60</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#a47856b2504b566588785597b6ebb8271" title="Produce a secondary structure graph in PostScript including additional annotation macros and write it...">PS_rna_plot_a</a>(<span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00061"></a><span class="lineno"> 61</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00062"></a><span class="lineno"> 62</span>  <span class="keywordtype">char</span> *file,</div>
+<div class="line"><a name="l00063"></a><span class="lineno"> 63</span>  <span class="keywordtype">char</span> *pre,</div>
+<div class="line"><a name="l00064"></a><span class="lineno"> 64</span>  <span class="keywordtype">char</span> *post);</div>
+<div class="line"><a name="l00065"></a><span class="lineno"> 65</span> </div>
+<div class="line"><a name="l00066"></a><span class="lineno"> 66</span> <span class="keywordtype">int</span> PS_rna_plot_a_gquad(<span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00067"></a><span class="lineno"> 67</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00068"></a><span class="lineno"> 68</span>  <span class="keywordtype">char</span> *ssfile,</div>
+<div class="line"><a name="l00069"></a><span class="lineno"> 69</span>  <span class="keywordtype">char</span> *pre,</div>
+<div class="line"><a name="l00070"></a><span class="lineno"> 70</span>  <span class="keywordtype">char</span> *post);</div>
+<div class="line"><a name="l00071"></a><span class="lineno"> 71</span> </div>
+<div class="line"><a name="l00084"></a><span class="lineno"> 84</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#a70834bc8c0aad4fe6824ff76ccb8f329" title="Produce a secondary structure graph in Graph Meta Language (gml) and write it to a file...">gmlRNA</a>( <span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00085"></a><span class="lineno"> 85</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00086"></a><span class="lineno"> 86</span>  <span class="keywordtype">char</span> *ssfile,</div>
+<div class="line"><a name="l00087"></a><span class="lineno"> 87</span>  <span class="keywordtype">char</span> option);</div>
+<div class="line"><a name="l00088"></a><span class="lineno"> 88</span> </div>
+<div class="line"><a name="l00099"></a><span class="lineno"> 99</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#add368528755f9a830727b680243541df" title="Produce a secondary structure graph in SStructView format.">ssv_rna_plot</a>( <span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00100"></a><span class="lineno"> 100</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00101"></a><span class="lineno"> 101</span>  <span class="keywordtype">char</span> *ssfile);</div>
+<div class="line"><a name="l00102"></a><span class="lineno"> 102</span> </div>
+<div class="line"><a name="l00111"></a><span class="lineno"> 111</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#ae7853539b5df98f294b4af434e979304" title="Produce a secondary structure plot in SVG format and write it to a file.">svg_rna_plot</a>( <span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00112"></a><span class="lineno"> 112</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00113"></a><span class="lineno"> 113</span>  <span class="keywordtype">char</span> *ssfile);</div>
+<div class="line"><a name="l00114"></a><span class="lineno"> 114</span> </div>
+<div class="line"><a name="l00123"></a><span class="lineno"> 123</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#a2f6d5953e6a323df898896b8d6614483" title="Produce a secondary structure plot for further editing in XRNA.">xrna_plot</a>(<span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00124"></a><span class="lineno"> 124</span>  <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00125"></a><span class="lineno"> 125</span>  <span class="keywordtype">char</span> *ssfile);</div>
+<div class="line"><a name="l00126"></a><span class="lineno"> 126</span> </div>
+<div class="line"><a name="l00127"></a><span class="lineno"> 127</span> <span class="keywordtype">int</span> PS_color_dot_plot(<span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00128"></a><span class="lineno"> 128</span>  <a class="code" href="structcpair.html" title="this datastructure is used as input parameter in functions of PS_dot.c">cpair</a> *pi,</div>
+<div class="line"><a name="l00129"></a><span class="lineno"> 129</span>  <span class="keywordtype">char</span> *filename);</div>
+<div class="line"><a name="l00130"></a><span class="lineno"> 130</span> </div>
+<div class="line"><a name="l00131"></a><span class="lineno"> 131</span> <span class="keywordtype">int</span> PS_color_dot_plot_turn( <span class="keywordtype">char</span> *seq,</div>
+<div class="line"><a name="l00132"></a><span class="lineno"> 132</span>  <a class="code" href="structcpair.html" title="this datastructure is used as input parameter in functions of PS_dot.c">cpair</a> *pi,</div>
+<div class="line"><a name="l00133"></a><span class="lineno"> 133</span>  <span class="keywordtype">char</span> *filename,</div>
+<div class="line"><a name="l00134"></a><span class="lineno"> 134</span>  <span class="keywordtype">int</span> winSize);</div>
+<div class="line"><a name="l00135"></a><span class="lineno"> 135</span> </div>
+<div class="line"><a name="l00155"></a><span class="lineno"> 155</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#a00ea223b5cf02eb2faae5ff29f0d5e12" title="Produce a postscript dot-plot from two pair lists.">PS_dot_plot_list</a>( <span class="keywordtype">char</span> *seq,</div>
+<div class="line"><a name="l00156"></a><span class="lineno"> 156</span>  <span class="keywordtype">char</span> *filename,</div>
+<div class="line"><a name="l00157"></a><span class="lineno"> 157</span>  <a class="code" href="structplist.html" title="this datastructure is used as input parameter in functions of PS_dot.h and others">plist</a> *pl,</div>
+<div class="line"><a name="l00158"></a><span class="lineno"> 158</span>  <a class="code" href="structplist.html" title="this datastructure is used as input parameter in functions of PS_dot.h and others">plist</a> *mf,</div>
+<div class="line"><a name="l00159"></a><span class="lineno"> 159</span>  <span class="keywordtype">char</span> *comment);</div>
+<div class="line"><a name="l00160"></a><span class="lineno"> 160</span> </div>
+<div class="line"><a name="l00161"></a><span class="lineno"> 161</span> <span class="keywordtype">int</span> PS_dot_plot_turn( <span class="keywordtype">char</span> *seq,</div>
+<div class="line"><a name="l00162"></a><span class="lineno"> 162</span>  <span class="keyword">struct</span> <a class="code" href="structplist.html" title="this datastructure is used as input parameter in functions of PS_dot.h and others">plist</a> *pl,</div>
+<div class="line"><a name="l00163"></a><span class="lineno"> 163</span>  <span class="keywordtype">char</span> *filename,</div>
+<div class="line"><a name="l00164"></a><span class="lineno"> 164</span>  <span class="keywordtype">int</span> winSize);</div>
+<div class="line"><a name="l00165"></a><span class="lineno"> 165</span> </div>
+<div class="line"><a name="l00166"></a><span class="lineno"> 166</span> <span class="keywordtype">int</span> PS_color_aln( <span class="keyword">const</span> <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00167"></a><span class="lineno"> 167</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *filename,</div>
+<div class="line"><a name="l00168"></a><span class="lineno"> 168</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *seqs[],</div>
+<div class="line"><a name="l00169"></a><span class="lineno"> 169</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *names[]);</div>
+<div class="line"><a name="l00170"></a><span class="lineno"> 170</span> </div>
+<div class="line"><a name="l00174"></a><span class="lineno"> 174</span> <span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#aab48d4dac655d688abe921389ac2847c">aliPS_color_aln</a>(<span class="keyword">const</span> <span class="keywordtype">char</span> *structure,</div>
+<div class="line"><a name="l00175"></a><span class="lineno"> 175</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *filename, </div>
+<div class="line"><a name="l00176"></a><span class="lineno"> 176</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *seqs[],</div>
+<div class="line"><a name="l00177"></a><span class="lineno"> 177</span>  <span class="keyword">const</span> <span class="keywordtype">char</span> *names[]); </div>
+<div class="line"><a name="l00178"></a><span class="lineno"> 178</span> </div>
+<div class="line"><a name="l00179"></a><span class="lineno"> 179</span> </div>
+<div class="line"><a name="l00195"></a><span class="lineno"> 195</span> DEPRECATED(<span class="keywordtype">int</span> <a class="code" href="PS__dot_8h.html#a689a97a7e3b8a2df14728b8204d9d57b" title="Produce postscript dot-plot.">PS_dot_plot</a>( <span class="keywordtype">char</span> *<span class="keywordtype">string</span>,</div>
+<div class="line"><a name="l00196"></a><span class="lineno"> 196</span>  <span class="keywordtype">char</span> *file));</div>
+<div class="line"><a name="l00197"></a><span class="lineno"> 197</span> <span class="preprocessor">#endif</span></div>
+</div><!-- fragment --></div><!-- contents -->
+</div><!-- doc-content -->
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+<div id="nav-path" class="navpath"><!-- id is needed for treeview function! -->
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+ <li class="navelem"><a class="el" href="dir_d72344b28b4f2089ce25682c4e6eba22.html">H</a></li><li class="navelem"><a class="el" href="PS__dot_8h.html">PS_dot.h</a></li>
+ <li class="footer">Generated on Wed Jul 24 2013 13:38:56 for RNAlib-2.1.2 by
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+ <img class="footer" src="doxygen.png" alt="doxygen"/></a> 1.8.1.1 </li>
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