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<div class="fragment"><div class="line"><a id="l00001" name="l00001"></a><span class="lineno"> 1</span><span class="preprocessor">#ifndef BTLLIB_SEQ_WRITER_HPP</span></div>
<div class="line"><a id="l00002" name="l00002"></a><span class="lineno"> 2</span><span class="preprocessor">#define BTLLIB_SEQ_WRITER_HPP</span></div>
<div class="line"><a id="l00003" name="l00003"></a><span class="lineno"> 3</span> </div>
<div class="line"><a id="l00004" name="l00004"></a><span class="lineno"> 4</span><span class="preprocessor">#include "btllib/data_stream.hpp"</span></div>
<div class="line"><a id="l00005" name="l00005"></a><span class="lineno"> 5</span><span class="preprocessor">#include "btllib/seq.hpp"</span></div>
<div class="line"><a id="l00006" name="l00006"></a><span class="lineno"> 6</span> </div>
<div class="line"><a id="l00007" name="l00007"></a><span class="lineno"> 7</span><span class="preprocessor">#include <cstdio></span></div>
<div class="line"><a id="l00008" name="l00008"></a><span class="lineno"> 8</span><span class="preprocessor">#include <mutex></span></div>
<div class="line"><a id="l00009" name="l00009"></a><span class="lineno"> 9</span><span class="preprocessor">#include <string></span></div>
<div class="line"><a id="l00010" name="l00010"></a><span class="lineno"> 10</span> </div>
<div class="line"><a id="l00011" name="l00011"></a><span class="lineno"> 11</span><span class="keyword">namespace </span><a class="code hl_namespace" href="namespacebtllib.html">btllib</a> {</div>
<div class="line"><a id="l00012" name="l00012"></a><span class="lineno"> 12</span> </div>
<div class="foldopen" id="foldopen00022" data-start="{" data-end="};">
<div class="line"><a id="l00022" name="l00022"></a><span class="lineno"><a class="line" href="classbtllib_1_1SeqWriter.html"> 22</a></span><span class="keyword">class </span><a class="code hl_class" href="classbtllib_1_1SeqWriter.html">SeqWriter</a></div>
<div class="line"><a id="l00023" name="l00023"></a><span class="lineno"> 23</span>{</div>
<div class="line"><a id="l00024" name="l00024"></a><span class="lineno"> 24</span> </div>
<div class="line"><a id="l00025" name="l00025"></a><span class="lineno"> 25</span><span class="keyword">public</span>:</div>
<div class="line"><a id="l00026" name="l00026"></a><span class="lineno"> 26</span> <span class="keyword">enum</span> Format</div>
<div class="line"><a id="l00027" name="l00027"></a><span class="lineno"> 27</span> {</div>
<div class="line"><a id="l00028" name="l00028"></a><span class="lineno"> 28</span> FASTA,</div>
<div class="line"><a id="l00029" name="l00029"></a><span class="lineno"> 29</span> FASTQ</div>
<div class="line"><a id="l00030" name="l00030"></a><span class="lineno"> 30</span> };</div>
<div class="line"><a id="l00031" name="l00031"></a><span class="lineno"> 31</span> </div>
<div class="line"><a id="l00039" name="l00039"></a><span class="lineno"><a class="line" href="classbtllib_1_1SeqWriter.html#a6271cffe77701558f0997532a7e58d43"> 39</a></span> <a class="code hl_function" href="classbtllib_1_1SeqWriter.html#a6271cffe77701558f0997532a7e58d43">SeqWriter</a>(<span class="keyword">const</span> std::string& sink_path,</div>
<div class="line"><a id="l00040" name="l00040"></a><span class="lineno"> 40</span> Format format = FASTA,</div>
<div class="line"><a id="l00041" name="l00041"></a><span class="lineno"> 41</span> <span class="keywordtype">bool</span> append = <span class="keyword">false</span>);</div>
<div class="line"><a id="l00042" name="l00042"></a><span class="lineno"> 42</span> </div>
<div class="line"><a id="l00043" name="l00043"></a><span class="lineno"> 43</span> <span class="keywordtype">void</span> close();</div>
<div class="line"><a id="l00044" name="l00044"></a><span class="lineno"> 44</span> </div>
<div class="line"><a id="l00053" name="l00053"></a><span class="lineno"><a class="line" href="classbtllib_1_1SeqWriter.html#ad1202d19b9934405fa0cfa7ee165ccc3"> 53</a></span> <span class="keywordtype">void</span> <a class="code hl_function" href="classbtllib_1_1SeqWriter.html#ad1202d19b9934405fa0cfa7ee165ccc3">write</a>(<span class="keyword">const</span> std::string& <span class="keywordtype">id</span>,</div>
<div class="line"><a id="l00054" name="l00054"></a><span class="lineno"> 54</span> <span class="keyword">const</span> std::string& comment,</div>
<div class="line"><a id="l00055" name="l00055"></a><span class="lineno"> 55</span> <span class="keyword">const</span> std::string& seq,</div>
<div class="line"><a id="l00056" name="l00056"></a><span class="lineno"> 56</span> <span class="keyword">const</span> std::string& qual = <span class="stringliteral">""</span>);</div>
<div class="line"><a id="l00057" name="l00057"></a><span class="lineno"> 57</span> </div>
<div class="line"><a id="l00058" name="l00058"></a><span class="lineno"> 58</span><span class="keyword">private</span>:</div>
<div class="line"><a id="l00059" name="l00059"></a><span class="lineno"> 59</span> <span class="keyword">const</span> std::string sink_path;</div>
<div class="line"><a id="l00060" name="l00060"></a><span class="lineno"> 60</span> DataSink sink;</div>
<div class="line"><a id="l00061" name="l00061"></a><span class="lineno"> 61</span> <span class="keywordtype">bool</span> closed;</div>
<div class="line"><a id="l00062" name="l00062"></a><span class="lineno"> 62</span> Format format;</div>
<div class="line"><a id="l00063" name="l00063"></a><span class="lineno"> 63</span> <span class="keywordtype">char</span> headerchar;</div>
<div class="line"><a id="l00064" name="l00064"></a><span class="lineno"> 64</span> std::mutex mutex;</div>
<div class="line"><a id="l00065" name="l00065"></a><span class="lineno"> 65</span>};</div>
</div>
<div class="line"><a id="l00066" name="l00066"></a><span class="lineno"> 66</span> </div>
<div class="line"><a id="l00067" name="l00067"></a><span class="lineno"> 67</span>} <span class="comment">// namespace btllib</span></div>
<div class="line"><a id="l00068" name="l00068"></a><span class="lineno"> 68</span> </div>
<div class="line"><a id="l00069" name="l00069"></a><span class="lineno"> 69</span><span class="preprocessor">#endif</span></div>
<div class="ttc" id="aclassbtllib_1_1SeqWriter_html"><div class="ttname"><a href="classbtllib_1_1SeqWriter.html">btllib::SeqWriter</a></div><div class="ttdef"><b>Definition</b> seq_writer.hpp:23</div></div>
<div class="ttc" id="aclassbtllib_1_1SeqWriter_html_a6271cffe77701558f0997532a7e58d43"><div class="ttname"><a href="classbtllib_1_1SeqWriter.html#a6271cffe77701558f0997532a7e58d43">btllib::SeqWriter::SeqWriter</a></div><div class="ttdeci">SeqWriter(const std::string &sink_path, Format format=FASTA, bool append=false)</div></div>
<div class="ttc" id="aclassbtllib_1_1SeqWriter_html_ad1202d19b9934405fa0cfa7ee165ccc3"><div class="ttname"><a href="classbtllib_1_1SeqWriter.html#ad1202d19b9934405fa0cfa7ee165ccc3">btllib::SeqWriter::write</a></div><div class="ttdeci">void write(const std::string &id, const std::string &comment, const std::string &seq, const std::string &qual="")</div></div>
<div class="ttc" id="anamespacebtllib_html"><div class="ttname"><a href="namespacebtllib.html">btllib</a></div><div class="ttdef"><b>Definition</b> aahash.hpp:12</div></div>
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