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3 <title>MayaChemTools:Documentation:TextFilesToSDFiles.pl</title>
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10 <a href="http://www.mayachemtools.org" title="MayaChemTools Home"><img src="../../images/MayaChemToolsLogo.gif" border="0" alt="MayaChemTools"></a>
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12 <br/>
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13 <div class="DocNav">
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14 <table width="100%" border=0 cellpadding=0 cellspacing=2>
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15 <tr align="left" valign="top"><td width="33%" align="left"><a href="./TextFilesToHTML.html" title="TextFilesToHTML.html">Previous</a> <a href="./index.html" title="Table of Contents">TOC</a> <a href="./TopologicalAtomPairsFingerprints.html" title="TopologicalAtomPairsFingerprints.html">Next</a></td><td width="34%" align="middle"><strong>TextFilesToSDFiles.pl</strong></td><td width="33%" align="right"><a href="././code/TextFilesToSDFiles.html" title="View source code">Code</a> | <a href="./../pdf/TextFilesToSDFiles.pdf" title="PDF US Letter Size">PDF</a> | <a href="./../pdfgreen/TextFilesToSDFiles.pdf" title="PDF US Letter Size with narrow margins: www.changethemargins.com">PDFGreen</a> | <a href="./../pdfa4/TextFilesToSDFiles.pdf" title="PDF A4 Size">PDFA4</a> | <a href="./../pdfa4green/TextFilesToSDFiles.pdf" title="PDF A4 Size with narrow margins: www.changethemargins.com">PDFA4Green</a></td></tr>
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16 </table>
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17 </div>
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18 <p>
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19 </p>
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20 <h2>NAME</h2>
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21 <p>TextFilesToSDFiles.pl - Generate SD files from CSV or TSV TextFile(s)</p>
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22 <p>
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23 </p>
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24 <h2>SYNOPSIS</h2>
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25 <p>TextFilesToSDFiles.pl TextFile(s)...</p>
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26 <p>TextFilesToSDFiles.pl [<strong>-h, --help</strong>] [<strong>--indelim</strong> comma | semicolon] [<strong>-l, --label</strong> yes | no]
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27 [<strong>-o, --overwrite</strong>] [<strong>-r, --root</strong> rootname] [<strong>-w, --workingdir</strong> dirname] TextFile(s)...</p>
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28 <p>
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29 </p>
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30 <h2>DESCRIPTION</h2>
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31 <p>Generate SD files from CSV or TSV <em>TextFile(s)</em>. The new SD files contain no structure data
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32 as indicated by empty structure data block; Data fields and values in SD files are generated
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33 using <em>TextFile(s)</em> column labels and corresponding data values.</p>
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34 <p>Multiple <em>TextFile(s)</em> names are separated by space. The valid file extensions are
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35 <em>.csv</em> and <em>.tsv</em> for comma/semicolon and tab delimited text files respectively.
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36 All other file names are ignored. All the text files in a current directory can be specified
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37 by <em>*.csv</em>, <em>*.tsv</em>, or the current directory name. The <strong>--indelim</strong> option
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38 determines the format of <em>TextFile(s)</em>. Any file which doesn't correspond to
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39 the format indicated by <strong>--indelim</strong> option is ignored.</p>
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40 <p>
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41 </p>
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42 <h2>OPTIONS</h2>
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43 <dl>
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44 <dt><strong><strong>-h, --help</strong></strong></dt>
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45 <dd>
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46 <p>Print this help message.</p>
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47 </dd>
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48 <dt><strong><strong>--indelim</strong> <em>comma | semicolon</em></strong></dt>
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49 <dd>
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50 <p>Input delimiter for CSV <em>TextFile(s)</em>. Possible values: <em>comma or semicolon</em>.
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51 Default value: <em>comma</em>. For TSV files, this option is ignored and <em>tab</em> is used as a
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52 delimiter.</p>
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53 </dd>
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54 <dt><strong><strong>-l, --label</strong> <em>yes | no</em></strong></dt>
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55 <dd>
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56 <p>First line contains column labels. Possible values: <em>yes or no</em>. Default value: <em>yes</em>.
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57 Column labels are used to create SD data field labels; otherwise, data field labels look
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58 like Column<colnumber>Data.</p>
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59 </dd>
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60 <dt><strong><strong>-o, --overwrite</strong></strong></dt>
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61 <dd>
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62 <p>Overwrite existing files.</p>
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63 </dd>
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64 <dt><strong><strong>-r, --root</strong> <em>rootname</em></strong></dt>
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65 <dd>
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66 <p>New SD file names are generated using the root: <Root>.sdf. Default new file names:
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67 <TextFileName>WithNoStrData.sdf. This option is ignored for multiple input files.</p>
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68 </dd>
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69 <dt><strong><strong>-w, --workingdir</strong> <em>dirname</em></strong></dt>
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70 <dd>
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71 <p>Location of working directory. Default: current directory.</p>
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72 </dd>
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73 </dl>
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74 <p>
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75 </p>
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76 <h2>EXAMPLES</h2>
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77 <p>To generate NewSample1.sdf file from Sample1.csv file, type:</p>
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78 <div class="ExampleBox">
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79 % TextFilesToSDFiles.pl -o -r NewSample1 Sample1.csv</div>
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80 <p>To generate NewSample1.sdf file from Sample1.tsv file which doesn't
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81 contain column labels line, type:</p>
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82 <div class="ExampleBox">
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83 % TextFilesToSDFiles.pl --label no -o -r NewSample1 Sample1.tsv</div>
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84 <p>
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85 </p>
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86 <h2>AUTHOR</h2>
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87 <p><a href="mailto:msud@san.rr.com">Manish Sud</a></p>
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88 <p>
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89 </p>
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90 <h2>SEE ALSO</h2>
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91 <p><a href="./JoinTextFiles.html">JoinTextFiles.pl</a>, <a href="./MergeTextFiles.html">MergeTextFiles.pl</a>, <a href="./ModifySDFilesDataFields.html">ModifySDFilesDataFields.pl</a>, <a href="./ModifyTextFilesFormat.html">ModifyTextFilesFormat.pl</a>
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92 </p>
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93 <p>
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94 </p>
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95 <h2>COPYRIGHT</h2>
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96 <p>Copyright (C) 2015 Manish Sud. All rights reserved.</p>
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97 <p>This file is part of MayaChemTools.</p>
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98 <p>MayaChemTools is free software; you can redistribute it and/or modify it under
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99 the terms of the GNU Lesser General Public License as published by the Free
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100 Software Foundation; either version 3 of the License, or (at your option)
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101 any later version.</p>
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102 <p> </p><p> </p><div class="DocNav">
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103 <table width="100%" border=0 cellpadding=0 cellspacing=2>
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104 <tr align="left" valign="top"><td width="33%" align="left"><a href="./TextFilesToHTML.html" title="TextFilesToHTML.html">Previous</a> <a href="./index.html" title="Table of Contents">TOC</a> <a href="./TopologicalAtomPairsFingerprints.html" title="TopologicalAtomPairsFingerprints.html">Next</a></td><td width="34%" align="middle"><strong>March 29, 2015</strong></td><td width="33%" align="right"><strong>TextFilesToSDFiles.pl</strong></td></tr>
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105 </table>
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106 </div>
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107 <br />
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108 <center>
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