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<html> <head> <title>MayaChemTools:Code:JoinTextFiles.pl</title> <meta http-equiv="content-type" content="text/html;charset=utf-8"> <link rel="stylesheet" type="text/css" href="../../../css/MayaChemToolsCode.css"> </head> <body leftmargin="20" rightmargin="20" topmargin="10" bottommargin="10"> <br/> <center> <a href="http://www.mayachemtools.org" title="MayaChemTools Home"><img src="../../../images/MayaChemToolsLogo.gif" border="0" alt="MayaChemTools"></a> </center> <br/> <pre> 1 #!/usr/bin/perl -w 2 <span class="c">#</span> 3 <span class="c"># $RCSfile: JoinTextFiles.pl,v $</span> 4 <span class="c"># $Date: 2015/02/28 20:46:20 $</span> 5 <span class="c"># $Revision: 1.32 $</span> 6 <span class="c">#</span> 7 <span class="c"># Author: Manish Sud <msud@san.rr.com></span> 8 <span class="c">#</span> 9 <span class="c"># Copyright (C) 2015 Manish Sud. All rights reserved.</span> 10 <span class="c">#</span> 11 <span class="c"># This file is part of MayaChemTools.</span> 12 <span class="c">#</span> 13 <span class="c"># MayaChemTools is free software; you can redistribute it and/or modify it under</span> 14 <span class="c"># the terms of the GNU Lesser General Public License as published by the Free</span> 15 <span class="c"># Software Foundation; either version 3 of the License, or (at your option) any</span> 16 <span class="c"># later version.</span> 17 <span class="c">#</span> 18 <span class="c"># MayaChemTools is distributed in the hope that it will be useful, but without</span> 19 <span class="c"># any warranty; without even the implied warranty of merchantability of fitness</span> 20 <span class="c"># for a particular purpose. See the GNU Lesser General Public License for more</span> 21 <span class="c"># details.</span> 22 <span class="c">#</span> 23 <span class="c"># You should have received a copy of the GNU Lesser General Public License</span> 24 <span class="c"># along with MayaChemTools; if not, see <http://www.gnu.org/licenses/> or</span> 25 <span class="c"># write to the Free Software Foundation Inc., 59 Temple Place, Suite 330,</span> 26 <span class="c"># Boston, MA, 02111-1307, USA.</span> 27 <span class="c">#</span> 28 29 <span class="k">use</span> <span class="w">strict</span><span class="sc">;</span> 30 <span class="k">use</span> <span class="w">FindBin</span><span class="sc">;</span> <span class="k">use</span> <span class="w">lib</span> <span class="q">"$FindBin::Bin/../lib"</span><span class="sc">;</span> 31 <span class="k">use</span> <span class="w">Getopt::Long</span><span class="sc">;</span> 32 <span class="k">use</span> <span class="w">File::Basename</span><span class="sc">;</span> 33 <span class="k">use</span> <span class="w">Text::ParseWords</span><span class="sc">;</span> 34 <span class="k">use</span> <span class="w">Benchmark</span><span class="sc">;</span> 35 <span class="k">use</span> <span class="w">FileUtil</span><span class="sc">;</span> 36 <span class="k">use</span> <span class="w">TextUtil</span><span class="sc">;</span> 37 38 <span class="k">my</span><span class="s">(</span><span class="i">$ScriptName</span><span class="cm">,</span> <span class="i">%Options</span><span class="cm">,</span> <span class="i">$StartTime</span><span class="cm">,</span> <span class="i">$EndTime</span><span class="cm">,</span> <span class="i">$TotalTime</span><span class="s">)</span><span class="sc">;</span> 39 40 <span class="c"># Autoflush STDOUT</span> 41 <span class="i">$|</span> = <span class="n">1</span><span class="sc">;</span> 42 43 <span class="c"># Starting message...</span> 44 <span class="i">$ScriptName</span> = <span class="w">basename</span> <span class="i">$0</span><span class="sc">;</span> 45 <span class="k">print</span> <span class="q">"\n$ScriptName:Starting...\n\n"</span><span class="sc">;</span> 46 <span class="i">$StartTime</span> = <span class="w">new</span> <span class="w">Benchmark</span><span class="sc">;</span> 47 48 <span class="c"># Get the options and setup script...</span> 49 <span class="i">SetupScriptUsage</span><span class="s">(</span><span class="s">)</span><span class="sc">;</span> 50 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">help</span>} || <span class="i">@ARGV</span> < <span class="n">1</span><span class="s">)</span> <span class="s">{</span> 51 <span class="k">die</span> <span class="i">GetUsageFromPod</span><span class="s">(</span><span class="q">"$FindBin::Bin/$ScriptName"</span><span class="s">)</span><span class="sc">;</span> 52 <span class="s">}</span> 53 54 <span class="k">my</span><span class="s">(</span><span class="i">@TextFilesList</span><span class="s">)</span><span class="sc">;</span> 55 <span class="i">@TextFilesList</span> = <span class="i">ExpandFileNames</span><span class="s">(</span>\<span class="i">@ARGV</span><span class="cm">,</span> <span class="q">"csv tsv"</span><span class="s">)</span><span class="sc">;</span> 56 57 <span class="k">if</span> <span class="s">(</span><span class="i">@TextFilesList</span> == <span class="n">1</span><span class="s">)</span> <span class="s">{</span> 58 <span class="k">die</span> <span class="q">"Error: Specify more than one Text file.\n"</span><span class="sc">;</span> 59 <span class="s">}</span> 60 61 <span class="c"># Process options...</span> 62 <span class="k">print</span> <span class="q">"Processing options...\n"</span><span class="sc">;</span> 63 <span class="k">my</span><span class="s">(</span><span class="i">%OptionsInfo</span><span class="s">)</span><span class="sc">;</span> 64 <span class="i">ProcessOptions</span><span class="s">(</span><span class="s">)</span><span class="sc">;</span> 65 66 <span class="c"># Setup information about input files...</span> 67 <span class="k">print</span> <span class="q">"Checking input text files...\n"</span><span class="sc">;</span> 68 <span class="k">my</span><span class="s">(</span><span class="i">%TextFilesInfo</span><span class="s">)</span><span class="sc">;</span> 69 <span class="i">RetrieveTextFilesInfo</span><span class="s">(</span><span class="s">)</span><span class="sc">;</span> 70 71 <span class="c"># Join files...</span> 72 <span class="k">print</span> <span class="q">"\nGenerating new text file $OptionsInfo{NewTextFile}...\n"</span><span class="sc">;</span> 73 <span class="i">JoinTextFiles</span><span class="s">(</span><span class="s">)</span><span class="sc">;</span> 74 75 <span class="k">print</span> <span class="q">"\n$ScriptName:Done...\n\n"</span><span class="sc">;</span> 76 77 <span class="i">$EndTime</span> = <span class="w">new</span> <span class="w">Benchmark</span><span class="sc">;</span> 78 <span class="i">$TotalTime</span> = <span class="w">timediff</span> <span class="s">(</span><span class="i">$EndTime</span><span class="cm">,</span> <span class="i">$StartTime</span><span class="s">)</span><span class="sc">;</span> 79 <span class="k">print</span> <span class="q">"Total time: "</span><span class="cm">,</span> <span class="i">timestr</span><span class="s">(</span><span class="i">$TotalTime</span><span class="s">)</span><span class="cm">,</span> <span class="q">"\n"</span><span class="sc">;</span> 80 81 <span class="c">###############################################################################</span> 82 83 <span class="c"># Join all valid Text files...</span> <a name="JoinTextFiles-"></a> 84 <span class="k">sub </span><span class="m">JoinTextFiles</span> <span class="s">{</span> 85 <span class="k">my</span><span class="s">(</span><span class="i">$FileIndex</span><span class="cm">,</span> <span class="i">$TextFile</span><span class="cm">,</span> <span class="i">$NewTextFile</span><span class="cm">,</span> <span class="i">$Line</span><span class="cm">,</span> <span class="i">$FirstColLabelsLine</span><span class="cm">,</span> <span class="i">$OutDelim</span><span class="cm">,</span> <span class="i">$OutQuote</span><span class="cm">,</span> <span class="i">$InDelim</span><span class="cm">,</span> <span class="i">@Words</span><span class="cm">,</span> <span class="i">@ColLabels</span><span class="s">)</span><span class="sc">;</span> 86 87 <span class="i">$NewTextFile</span> = <span class="i">$OptionsInfo</span>{<span class="w">NewTextFile</span>}<span class="sc">;</span> 88 89 <span class="i">$FirstColLabelsLine</span> = <span class="q">''</span><span class="sc">;</span> 90 91 <span class="i">$OutDelim</span> = <span class="i">$OptionsInfo</span>{<span class="w">OutDelim</span>}<span class="sc">;</span> <span class="i">$OutQuote</span> = <span class="i">$OptionsInfo</span>{<span class="w">OutQuote</span>}<span class="sc">;</span> 92 93 <span class="k">open</span> <span class="w">NEWTEXTFILE</span><span class="cm">,</span> <span class="q">">$NewTextFile"</span> <span class="k">or</span> <span class="k">die</span> <span class="q">"Error: Couldn't open $NewTextFile: $! \n"</span><span class="sc">;</span> 94 <span class="j">FILELIST:</span> <span class="k">for</span> <span class="i">$FileIndex</span> <span class="s">(</span><span class="n">0</span> .. <span class="i">$#TextFilesList</span><span class="s">)</span> <span class="s">{</span> 95 <span class="k">if</span> <span class="s">(</span>!<span class="i">$TextFilesInfo</span>{<span class="w">FileOkay</span>}[<span class="i">$FileIndex</span>]<span class="s">)</span> <span class="s">{</span> 96 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 97 <span class="s">}</span> 98 99 <span class="i">$TextFile</span> = <span class="i">$TextFilesList</span>[<span class="i">$FileIndex</span>]<span class="sc">;</span> 100 <span class="i">$InDelim</span> = <span class="i">$TextFilesInfo</span>{<span class="w">InDelim</span>}[<span class="i">$FileIndex</span>]<span class="sc">;</span> 101 102 <span class="k">print</span> <span class="q">"\nProcessing file $TextFile...\n"</span><span class="sc">;</span> 103 104 <span class="k">open</span> <span class="w">TEXTFILE</span><span class="cm">,</span> <span class="q">"$TextFile"</span> <span class="k">or</span> <span class="k">die</span> <span class="q">"Error: Couldn't open $TextFile: $! \n"</span><span class="sc">;</span> 105 106 <span class="k">if</span> <span class="s">(</span><span class="i">$OptionsInfo</span>{<span class="w">Label</span>}<span class="s">)</span> <span class="s">{</span> 107 <span class="k">if</span> <span class="s">(</span><span class="i">$OptionsInfo</span>{<span class="w">Fast</span>}<span class="s">)</span> <span class="s">{</span> 108 <span class="i">$Line</span> = <span class="i">GetTextLine</span><span class="s">(</span>\<span class="i">*TEXTFILE</span><span class="s">)</span><span class="sc">;</span> 109 <span class="k">if</span> <span class="s">(</span>!<span class="i">$FirstColLabelsLine</span><span class="s">)</span> <span class="s">{</span> 110 <span class="i">$FirstColLabelsLine</span> = <span class="i">$Line</span><span class="sc">;</span> 111 <span class="k">print</span> <span class="i">NEWTEXTFILE</span> <span class="q">"$FirstColLabelsLine\n"</span><span class="sc">;</span> 112 <span class="s">}</span> 113 <span class="s">}</span> 114 <span class="k">else</span> <span class="s">{</span> 115 <span class="i">$Line</span> = <span class="i">GetTextLine</span><span class="s">(</span>\<span class="i">*TEXTFILE</span><span class="s">)</span><span class="sc">;</span> 116 <span class="k">if</span> <span class="s">(</span>!<span class="i">$FirstColLabelsLine</span><span class="s">)</span> <span class="s">{</span> 117 <span class="i">@ColLabels</span> = <span class="i">quotewords</span><span class="s">(</span><span class="i">$InDelim</span><span class="cm">,</span> <span class="n">0</span><span class="cm">,</span> <span class="i">$Line</span><span class="s">)</span><span class="sc">;</span> 118 <span class="i">$FirstColLabelsLine</span> = <span class="i">JoinWords</span><span class="s">(</span>\<span class="i">@ColLabels</span><span class="cm">,</span> <span class="i">$OutDelim</span><span class="cm">,</span> <span class="i">$OutQuote</span><span class="s">)</span><span class="sc">;</span> 119 <span class="k">print</span> <span class="i">NEWTEXTFILE</span> <span class="q">"$FirstColLabelsLine\n"</span><span class="sc">;</span> 120 <span class="s">}</span> 121 <span class="s">}</span> 122 <span class="s">}</span> 123 124 <span class="k">while</span> <span class="s">(</span><span class="i">$Line</span> = <span class="i">GetTextLine</span><span class="s">(</span>\<span class="i">*TEXTFILE</span><span class="s">)</span><span class="s">)</span> <span class="s">{</span> 125 <span class="k">if</span> <span class="s">(</span>!<span class="i">$OptionsInfo</span>{<span class="w">Fast</span>}<span class="s">)</span> <span class="s">{</span> 126 <span class="i">@Words</span> = <span class="i">quotewords</span><span class="s">(</span><span class="i">$InDelim</span><span class="cm">,</span> <span class="n">0</span><span class="cm">,</span> <span class="i">$Line</span><span class="s">)</span><span class="sc">;</span> 127 <span class="i">$Line</span> = <span class="i">JoinWords</span><span class="s">(</span>\<span class="i">@Words</span><span class="cm">,</span> <span class="i">$OutDelim</span><span class="cm">,</span> <span class="i">$OutQuote</span><span class="s">)</span><span class="sc">;</span> 128 <span class="s">}</span> 129 <span class="k">print</span> <span class="i">NEWTEXTFILE</span> <span class="q">"$Line\n"</span><span class="sc">;</span> 130 <span class="s">}</span> 131 <span class="k">close</span> <span class="w">TEXTFILE</span><span class="sc">;</span> 132 <span class="s">}</span> 133 134 <span class="k">close</span> <span class="w">NEWTEXTFILE</span><span class="sc">;</span> 135 <span class="s">}</span> 136 137 <span class="c"># Retrieve information about Text files...</span> <a name="RetrieveTextFilesInfo-"></a> 138 <span class="k">sub </span><span class="m">RetrieveTextFilesInfo</span> <span class="s">{</span> 139 <span class="k">my</span><span class="s">(</span><span class="i">$Index</span><span class="cm">,</span> <span class="i">$TextFile</span><span class="cm">,</span> <span class="i">$InDelim</span><span class="cm">,</span> <span class="i">$Line</span><span class="cm">,</span> <span class="i">$FirstColLabelsLine</span><span class="cm">,</span> <span class="i">$ColLabelsLine</span><span class="cm">,</span> <span class="i">$FileDir</span><span class="cm">,</span> <span class="i">$FileName</span><span class="cm">,</span> <span class="i">$FileExt</span><span class="cm">,</span> <span class="i">@FirstColLabels</span><span class="cm">,</span> <span class="i">@ColLabels</span><span class="s">)</span><span class="sc">;</span> 140 141 <span class="i">%TextFilesInfo</span> = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> 142 <span class="i">@</span>{<span class="i">$TextFilesInfo</span>{<span class="w">FileOkay</span>}} = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> 143 <span class="i">@</span>{<span class="i">$TextFilesInfo</span>{<span class="w">InDelim</span>}} = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> 144 145 <span class="i">$FirstColLabelsLine</span> = <span class="q">''</span><span class="sc">;</span> <span class="i">$ColLabelsLine</span> = <span class="q">''</span><span class="sc">;</span> 146 <span class="i">@FirstColLabels</span> = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> <span class="i">@ColLabels</span> = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> 147 148 <span class="j">FILELIST:</span> <span class="k">for</span> <span class="i">$Index</span> <span class="s">(</span><span class="n">0</span> .. <span class="i">$#TextFilesList</span><span class="s">)</span> <span class="s">{</span> 149 <span class="i">$TextFilesInfo</span>{<span class="w">FileOkay</span>}[<span class="i">$Index</span>] = <span class="n">0</span><span class="sc">;</span> 150 <span class="i">$TextFilesInfo</span>{<span class="w">InDelim</span>}[<span class="i">$Index</span>] = <span class="q">""</span><span class="sc">;</span> 151 152 <span class="i">$TextFile</span> = <span class="i">$TextFilesList</span>[<span class="i">$Index</span>]<span class="sc">;</span> 153 <span class="k">if</span> <span class="s">(</span>!<span class="s">(</span><span class="k">-e</span> <span class="i">$TextFile</span><span class="s">)</span><span class="s">)</span> <span class="s">{</span> 154 <span class="k">warn</span> <span class="q">"Warning: Ignoring file $TextFile: It doesn't exist\n"</span><span class="sc">;</span> 155 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 156 <span class="s">}</span> 157 <span class="k">if</span> <span class="s">(</span>!<span class="i">CheckFileType</span><span class="s">(</span><span class="i">$TextFile</span><span class="cm">,</span> <span class="q">"csv tsv"</span><span class="s">)</span><span class="s">)</span> <span class="s">{</span> 158 <span class="k">warn</span> <span class="q">"Warning: Ignoring file $TextFile: It's not a Text file\n"</span><span class="sc">;</span> 159 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 160 <span class="s">}</span> 161 162 <span class="s">(</span><span class="i">$FileDir</span><span class="cm">,</span> <span class="i">$FileName</span><span class="cm">,</span> <span class="i">$FileExt</span><span class="s">)</span> = <span class="i">ParseFileName</span><span class="s">(</span><span class="i">$TextFile</span><span class="s">)</span><span class="sc">;</span> 163 <span class="k">if</span> <span class="s">(</span><span class="i">$FileExt</span> =~ <span class="q">/^tsv$/i</span><span class="s">)</span> <span class="s">{</span> 164 <span class="i">$InDelim</span> = <span class="q">"\t"</span><span class="sc">;</span> 165 <span class="s">}</span> 166 <span class="k">else</span> <span class="s">{</span> 167 <span class="i">$InDelim</span> = <span class="q">"\,"</span><span class="sc">;</span> 168 <span class="k">if</span> <span class="s">(</span><span class="i">$OptionsInfo</span>{<span class="w">InDelim</span>} !~ <span class="q">/^(comma|semicolon)$/i</span><span class="s">)</span> <span class="s">{</span> 169 <span class="k">warn</span> <span class="q">"Warning: Ignoring file $TextFile: The value specified, $OptionsInfo{InDelim}, for option \"--indelim\" is not valid for csv files\n"</span><span class="sc">;</span> 170 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 171 <span class="s">}</span> 172 <span class="k">if</span> <span class="s">(</span><span class="i">$OptionsInfo</span>{<span class="w">InDelim</span>} =~ <span class="q">/^semicolon$/i</span><span class="s">)</span> <span class="s">{</span> 173 <span class="i">$InDelim</span> = <span class="q">"\;"</span><span class="sc">;</span> 174 <span class="s">}</span> 175 <span class="s">}</span> 176 177 <span class="k">if</span> <span class="s">(</span>! <span class="k">open</span> <span class="w">TEXTFILE</span><span class="cm">,</span> <span class="q">"$TextFile"</span><span class="s">)</span> <span class="s">{</span> 178 <span class="k">warn</span> <span class="q">"Warning: Ignoring file $TextFile: Couldn't open it: $! \n"</span><span class="sc">;</span> 179 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 180 <span class="s">}</span> 181 <span class="i">$Line</span> = <span class="i">GetTextLine</span><span class="s">(</span>\<span class="i">*TEXTFILE</span><span class="s">)</span><span class="sc">;</span> 182 <span class="k">close</span> <span class="w">TEXTFILE</span><span class="sc">;</span> 183 184 <span class="k">if</span> <span class="s">(</span><span class="i">$OptionsInfo</span>{<span class="w">Label</span>}<span class="s">)</span> <span class="s">{</span> 185 <span class="k">if</span> <span class="s">(</span>!<span class="i">$OptionsInfo</span>{<span class="w">Fast</span>}<span class="s">)</span> <span class="s">{</span> 186 <span class="i">@ColLabels</span> = <span class="i">quotewords</span><span class="s">(</span><span class="i">$InDelim</span><span class="cm">,</span> <span class="n">0</span><span class="cm">,</span> <span class="i">$Line</span><span class="s">)</span><span class="sc">;</span> 187 <span class="k">if</span> <span class="s">(</span><span class="i">$FirstColLabelsLine</span><span class="s">)</span> <span class="s">{</span> 188 <span class="k">if</span> <span class="s">(</span><span class="i">@ColLabels</span> != <span class="i">@FirstColLabels</span><span class="s">)</span> <span class="s">{</span> 189 <span class="k">warn</span> <span class="q">"Warning: Ignoring file $TextFile: The number of columns in this file, "</span><span class="cm">,</span> <span class="k">scalar</span><span class="s">(</span><span class="i">@ColLabels</span><span class="s">)</span><span class="cm">,</span> <span class="q">", is different from the number of columns, "</span><span class="cm">,</span> <span class="k">scalar</span><span class="s">(</span><span class="i">@FirstColLabels</span><span class="s">)</span><span class="cm">,</span> <span class="q">", in the first valid text file. \n"</span><span class="sc">;</span> 190 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 191 <span class="s">}</span> 192 <span class="i">$ColLabelsLine</span> = <span class="i">JoinWords</span><span class="s">(</span>\<span class="i">@ColLabels</span><span class="cm">,</span> <span class="i">$OptionsInfo</span>{<span class="w">OutDelim</span>}<span class="cm">,</span> <span class="i">$OptionsInfo</span>{<span class="w">OutQuote</span>}<span class="s">)</span><span class="sc">;</span> 193 <span class="k">if</span> <span class="s">(</span><span class="i">$ColLabelsLine</span> <span class="k">ne</span> <span class="i">$FirstColLabelsLine</span><span class="s">)</span> <span class="s">{</span> 194 <span class="k">warn</span> <span class="q">"Warning: Ignoring file $TextFile: The column names in this file are different from those in first valid text file.\nColumnlabels in first valid text file: $FirstColLabelsLine \nColumnlabels in current text file: $ColLabelsLine\n"</span><span class="sc">;</span> 195 <span class="k">next</span> <span class="j">FILELIST</span><span class="sc">;</span> 196 <span class="s">}</span> 197 <span class="s">}</span> 198 <span class="k">else</span> <span class="s">{</span> 199 <span class="i">@FirstColLabels</span> = <span class="i">@ColLabels</span><span class="sc">;</span> 200 <span class="i">$FirstColLabelsLine</span> = <span class="i">JoinWords</span><span class="s">(</span>\<span class="i">@FirstColLabels</span><span class="cm">,</span> <span class="i">$OptionsInfo</span>{<span class="w">OutDelim</span>}<span class="cm">,</span> <span class="i">$OptionsInfo</span>{<span class="w">OutQuote</span>}<span class="s">)</span><span class="sc">;</span> 201 <span class="s">}</span> 202 <span class="s">}</span> 203 <span class="s">}</span> 204 205 <span class="i">$TextFilesInfo</span>{<span class="w">FileOkay</span>}[<span class="i">$Index</span>] = <span class="n">1</span><span class="sc">;</span> 206 <span class="i">$TextFilesInfo</span>{<span class="w">InDelim</span>}[<span class="i">$Index</span>] = <span class="i">$InDelim</span><span class="sc">;</span> 207 <span class="s">}</span> 208 <span class="s">}</span> 209 210 <span class="c"># Process option values...</span> <a name="ProcessOptions-"></a> 211 <span class="k">sub </span><span class="m">ProcessOptions</span> <span class="s">{</span> 212 <span class="k">my</span><span class="s">(</span><span class="i">$FileDir</span><span class="cm">,</span> <span class="i">$FileName</span><span class="cm">,</span> <span class="i">$FileExt</span><span class="cm">,</span> <span class="i">$NewTextFile</span><span class="cm">,</span> <span class="i">$Index</span><span class="s">)</span><span class="sc">;</span> 213 214 <span class="i">%OptionsInfo</span> = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> 215 216 <span class="i">$OptionsInfo</span>{<span class="w">Fast</span>} = <span class="i">$Options</span>{<span class="w">fast</span>} ? <span class="i">$Options</span>{<span class="w">fast</span>} <span class="co">:</span> <span class="n">0</span><span class="sc">;</span> 217 218 <span class="i">$OptionsInfo</span>{<span class="w">InDelim</span>} = <span class="i">$Options</span>{<span class="w">indelim</span>}<span class="sc">;</span> 219 <span class="i">$OptionsInfo</span>{<span class="w">Label</span>} = <span class="s">(</span><span class="i">$Options</span>{<span class="w">label</span>} =~ <span class="q">/^yes$/i</span><span class="s">)</span> ? <span class="n">1</span> <span class="co">:</span> <span class="n">0</span><span class="sc">;</span> 220 221 <span class="i">$OptionsInfo</span>{<span class="w">OutFileRoot</span>} = <span class="i">$Options</span>{<span class="w">root</span>} ? <span class="i">$Options</span>{<span class="w">root</span>} <span class="co">:</span> <span class="k">undef</span><span class="sc">;</span> 222 <span class="i">$OptionsInfo</span>{<span class="w">Overwrite</span>} = <span class="i">$Options</span>{<span class="w">overwrite</span>} ? <span class="i">$Options</span>{<span class="w">overwrite</span>} <span class="co">:</span> <span class="k">undef</span><span class="sc">;</span> 223 224 <span class="i">$OptionsInfo</span>{<span class="w">OutDelim</span>} = <span class="s">(</span><span class="i">$Options</span>{<span class="w">outdelim</span>} =~ <span class="q">/^tab$/i</span> <span class="s">)</span> ? <span class="q">"\t"</span> <span class="co">:</span> <span class="s">(</span><span class="s">(</span><span class="i">$Options</span>{<span class="w">outdelim</span>} =~ <span class="q">/^semicolon$/i</span><span class="s">)</span> ? <span class="q">"\;"</span> <span class="co">:</span> <span class="q">"\,"</span><span class="s">)</span><span class="sc">;</span> 225 <span class="i">$OptionsInfo</span>{<span class="w">OutQuote</span>} = <span class="s">(</span><span class="i">$Options</span>{<span class="w">quote</span>} =~ <span class="q">/^yes$/i</span><span class="s">)</span> ? <span class="n">1</span> <span class="co">:</span> <span class="n">0</span><span class="sc">;</span> 226 227 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">root</span>}<span class="s">)</span> <span class="s">{</span> 228 <span class="i">$FileDir</span> = <span class="q">""</span><span class="sc">;</span> <span class="i">$FileName</span> = <span class="q">""</span><span class="sc">;</span> <span class="i">$FileExt</span> = <span class="q">""</span><span class="sc">;</span> 229 <span class="s">(</span><span class="i">$FileDir</span><span class="cm">,</span> <span class="i">$FileName</span><span class="cm">,</span> <span class="i">$FileExt</span><span class="s">)</span> = <span class="i">ParseFileName</span><span class="s">(</span><span class="i">$Options</span>{<span class="w">root</span>}<span class="s">)</span><span class="sc">;</span> 230 <span class="k">if</span> <span class="s">(</span><span class="i">$FileName</span> && <span class="i">$FileExt</span><span class="s">)</span> <span class="s">{</span> 231 <span class="i">$NewTextFile</span> = <span class="i">$FileName</span><span class="sc">;</span> 232 <span class="s">}</span> 233 <span class="k">else</span> <span class="s">{</span> 234 <span class="i">$NewTextFile</span> = <span class="i">$Options</span>{<span class="w">root</span>}<span class="sc">;</span> 235 <span class="s">}</span> 236 <span class="s">}</span> 237 <span class="k">else</span> <span class="s">{</span> 238 <span class="i">$FileDir</span> = <span class="q">""</span><span class="sc">;</span> <span class="i">$FileName</span> = <span class="q">""</span><span class="sc">;</span> <span class="i">$FileExt</span> = <span class="q">""</span><span class="sc">;</span> 239 <span class="s">(</span><span class="i">$FileDir</span><span class="cm">,</span> <span class="i">$FileName</span><span class="cm">,</span> <span class="i">$FileExt</span><span class="s">)</span> = <span class="i">ParseFileName</span><span class="s">(</span><span class="i">$TextFilesList</span>[<span class="n">0</span>]<span class="s">)</span><span class="sc">;</span> 240 <span class="i">$NewTextFile</span> = <span class="i">$FileName</span> . <span class="q">"1To"</span> . <span class="i">@TextFilesList</span> . <span class="q">"Joined"</span><span class="sc">;</span> 241 <span class="s">}</span> 242 243 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">outdelim</span>} =~ <span class="q">/^tab$/i</span><span class="s">)</span> <span class="s">{</span> 244 <span class="i">$NewTextFile</span> .= <span class="q">".tsv"</span><span class="sc">;</span> 245 <span class="s">}</span> 246 <span class="k">else</span> <span class="s">{</span> 247 <span class="i">$NewTextFile</span> .= <span class="q">".csv"</span><span class="sc">;</span> 248 <span class="s">}</span> 249 250 <span class="k">if</span> <span class="s">(</span>!<span class="i">$Options</span>{<span class="w">overwrite</span>}<span class="s">)</span> <span class="s">{</span> 251 <span class="k">if</span> <span class="s">(</span><span class="k">-e</span> <span class="i">$NewTextFile</span><span class="s">)</span> <span class="s">{</span> 252 <span class="k">die</span> <span class="q">"Error: The file $NewTextFile already exists.\n"</span><span class="sc">;</span> 253 <span class="s">}</span> 254 <span class="s">}</span> 255 256 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">root</span>}<span class="s">)</span> <span class="s">{</span> 257 <span class="k">for</span> <span class="i">$Index</span> <span class="s">(</span><span class="n">0</span> .. <span class="i">$#TextFilesList</span><span class="s">)</span> <span class="s">{</span> 258 <span class="k">if</span> <span class="s">(</span><span class="k">lc</span><span class="s">(</span><span class="i">$NewTextFile</span><span class="s">)</span> <span class="k">eq</span> <span class="k">lc</span><span class="s">(</span><span class="i">$TextFilesList</span>[<span class="i">$Index</span>]<span class="s">)</span><span class="s">)</span> <span class="s">{</span> 259 <span class="k">die</span> <span class="q">"Error: Output filename, $NewTextFile, is similar to a input file name.\nSpecify a different name using \"-r --root\" option or use default name.\n"</span><span class="sc">;</span> 260 <span class="s">}</span> 261 <span class="s">}</span> 262 <span class="s">}</span> 263 264 <span class="i">$OptionsInfo</span>{<span class="w">NewTextFile</span>} = <span class="i">$NewTextFile</span><span class="sc">;</span> 265 <span class="s">}</span> 266 267 <span class="c"># Setup script usage and retrieve command line arguments specified using various options...</span> <a name="SetupScriptUsage-"></a> 268 <span class="k">sub </span><span class="m">SetupScriptUsage</span> <span class="s">{</span> 269 270 <span class="c"># Retrieve all the options...</span> 271 <span class="i">%Options</span> = <span class="s">(</span><span class="s">)</span><span class="sc">;</span> 272 <span class="i">$Options</span>{<span class="w">label</span>} = <span class="q">"yes"</span><span class="sc">;</span> 273 <span class="i">$Options</span>{<span class="w">indelim</span>} = <span class="q">"comma"</span><span class="sc">;</span> 274 <span class="i">$Options</span>{<span class="w">outdelim</span>} = <span class="q">"comma"</span><span class="sc">;</span> 275 <span class="i">$Options</span>{<span class="w">quote</span>} = <span class="q">"yes"</span><span class="sc">;</span> 276 <span class="k">if</span> <span class="s">(</span>!<span class="i">GetOptions</span><span class="s">(</span>\<span class="i">%Options</span><span class="cm">,</span> <span class="q">"fast|f"</span><span class="cm">,</span> <span class="q">"help|h"</span><span class="cm">,</span> <span class="q">"indelim=s"</span><span class="cm">,</span> <span class="q">"label|l=s"</span><span class="cm">,</span> <span class="q">"outdelim=s"</span><span class="cm">,</span> <span class="q">"overwrite|o"</span><span class="cm">,</span> <span class="q">"quote|q=s"</span><span class="cm">,</span> <span class="q">"root|r=s"</span><span class="cm">,</span> <span class="q">"workingdir|w=s"</span><span class="s">)</span><span class="s">)</span> <span class="s">{</span> 277 <span class="k">die</span> <span class="q">"\nTo get a list of valid options and their values, use \"$ScriptName -h\" or\n\"perl -S $ScriptName -h\" command and try again...\n"</span><span class="sc">;</span> 278 <span class="s">}</span> 279 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">workingdir</span>}<span class="s">)</span> <span class="s">{</span> 280 <span class="k">if</span> <span class="s">(</span>! <span class="k">-d</span> <span class="i">$Options</span>{<span class="w">workingdir</span>}<span class="s">)</span> <span class="s">{</span> 281 <span class="k">die</span> <span class="q">"Error: The value specified, $Options{workingdir}, for option \"-w --workingdir\" is not a directory name.\n"</span><span class="sc">;</span> 282 <span class="s">}</span> 283 <span class="k">chdir</span> <span class="i">$Options</span>{<span class="w">workingdir</span>} <span class="k">or</span> <span class="k">die</span> <span class="q">"Error: Couldn't chdir $Options{workingdir}: $! \n"</span><span class="sc">;</span> 284 <span class="s">}</span> 285 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">indelim</span>} !~ <span class="q">/^(comma|semicolon)$/i</span><span class="s">)</span> <span class="s">{</span> 286 <span class="k">die</span> <span class="q">"Error: The value specified, $Options{indelim}, for option \"--indelim\" is not valid. Allowed values: comma or semicolon\n"</span><span class="sc">;</span> 287 <span class="s">}</span> 288 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">outdelim</span>} !~ <span class="q">/^(comma|semicolon|tab)$/i</span><span class="s">)</span> <span class="s">{</span> 289 <span class="k">die</span> <span class="q">"Error: The value specified, $Options{outdelim}, for option \"--outdelim\" is not valid. Allowed values: comma, tab, or semicolon\n"</span><span class="sc">;</span> 290 <span class="s">}</span> 291 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">quote</span>} !~ <span class="q">/^(yes|no)$/i</span><span class="s">)</span> <span class="s">{</span> 292 <span class="k">die</span> <span class="q">"Error: The value specified, $Options{quote}, for option \"-q --quote\" is not valid. Allowed values: yes or no\n"</span><span class="sc">;</span> 293 <span class="s">}</span> 294 <span class="k">if</span> <span class="s">(</span><span class="i">$Options</span>{<span class="w">label</span>} !~ <span class="q">/^(yes|no)$/i</span><span class="s">)</span> <span class="s">{</span> 295 <span class="k">die</span> <span class="q">"Error: The value specified, $Options{label}, for option \"-l --label\" is not valid. Allowed values: yes or no\n"</span><span class="sc">;</span> 296 <span class="s">}</span> 297 <span class="s">}</span> 298 <a name="EOF-"></a></pre> <p> </p> <br /> <center> <img src="../../../images/h2o2.png"> </center> </body> </html>