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124 .\" ========================================================================
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125 .\"
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126 .IX Title "MERGETEXTFILES 1"
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127 .TH MERGETEXTFILES 1 "2015-03-29" "perl v5.14.2" "MayaChemTools"
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128 .\" For nroff, turn off justification. Always turn off hyphenation; it makes
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129 .\" way too many mistakes in technical documents.
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130 .if n .ad l
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131 .nh
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132 .SH "NAME"
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133 MergeTextFiles.pl \- Merge multiple CSV or TSV text files into a single text file
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134 .SH "SYNOPSIS"
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135 .IX Header "SYNOPSIS"
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136 MergeTextFiles.pl TextFiles...
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137 .PP
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138 MergeTextFiles.pl [\fB\-h, \-\-help\fR] [\fB\-\-indelim\fR comma | semicolon] [\fB\-c, \-\-columns\fR colnum,...;... | collabel,...;...]
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139 [\fB\-k, \-\-keys\fR colnum,...;... | collabel,...;...] [\fB\-m, \-\-mode\fR colnum | collabel]
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140 [\fB\-o, \-\-overwrite\fR] [\fB\-\-outdelim\fR comma | tab | semicolon] [\fB\-q, \-\-quote\fR yes | no]
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141 [\fB\-r, \-\-root\fR rootname] [\fB\-s, \-\-startcol\fR colnum | collabel] [\fB\-\-startcolmode\fR before | after]
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142 [\fB\-w, \-\-workingdir\fR dirname] TextFiles...
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143 .SH "DESCRIPTION"
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144 .IX Header "DESCRIPTION"
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145 Merge multiple \s-1CSV\s0 or \s-1TSV\s0 \fITextFiles\fR into first \fITextFile\fR to generate a single
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146 text file. Unless \fB\-k \-\-keys\fR option is used, data rows from other \fITextFiles\fR
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147 are added to first \fITextFile\fR in a sequential order, and the number of rows in first
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148 \&\fITextFile\fR is used to determine how many rows of data are added from other
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149 \&\fITextFiles\fR.
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150 .PP
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151 Multiple \fITextFiles\fR names are separated by space. The valid file extensions are \fI.csv\fR and
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152 \&\fI.tsv\fR for comma/semicolon and tab delimited text files respectively. All other file names
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153 are ignored. All the text files in a current directory can be specified by \fI*.csv\fR,
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154 \&\fI*.tsv\fR, or the current directory name. The \fB\-\-indelim\fR option determines the
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155 format of \fITextFiles\fR. Any file which doesn't correspond to the format indicated
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156 by \fB\-\-indelim\fR option is ignored.
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157 .SH "OPTIONS"
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158 .IX Header "OPTIONS"
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159 .IP "\fB\-h, \-\-help\fR" 4
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160 .IX Item "-h, --help"
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161 Print this help message.
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162 .IP "\fB\-\-indelim\fR \fIcomma | semicolon\fR" 4
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163 .IX Item "--indelim comma | semicolon"
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164 Input delimiter for \s-1CSV\s0 \fITextFile(s)\fR. Possible values: \fIcomma or semicolon\fR.
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165 Default value: \fIcomma\fR. For \s-1TSV\s0 files, this option is ignored and \fItab\fR is used as a
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166 delimiter.
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167 .IP "\fB\-c, \-\-columns\fR \fIcolnum,...;... | collabel,...;...\fR" 4
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168 .IX Item "-c, --columns colnum,...;... | collabel,...;..."
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169 This value is mode specific. It is a list of columns to merge into first
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170 text file specified by column numbers or labels for each text file
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171 delimited by \*(L";\*(R". All specified text files are merged into first text file.
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172 .Sp
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173 Default value: \fIall;all;...\fR. By default, all columns from specified text files are
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174 merged into first text file.
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175 .Sp
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176 For \fIcolnum\fR mode, input value format is: \fIcolnum,...;colnum,...;...\fR. Example:
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177 .Sp
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178 .Vb 1
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179 \& "1,2;1,3,4;7,8,9"
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180 .Ve
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181 .Sp
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182 For \fIcollabel\fR mode, input value format is: \fIcollabel,...;collabel,...;...\fR. Example:
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183 .Sp
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184 .Vb 1
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185 \& "MW,SumNO;SumNHOH,ClogP,PSA;MolName,Mol_Id,Extreg"
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186 .Ve
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187 .IP "\fB\-k, \-\-keys\fR \fIcolnum,...;... | collabel,...;...\fR" 4
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188 .IX Item "-k, --keys colnum,...;... | collabel,...;..."
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189 This value is mode specific. It specifies column keys to use for merging
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190 all specified text files into first text file. The column keys are specified by
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191 column numbers or labels for each text file delimited by \*(L";\*(R".
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192 .Sp
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193 By default, data rows from text files are merged into first file in the order they appear.
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194 .Sp
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195 For \fIcolnum\fR mode, input value format is:\fIcolkeynum, colkeynum;...\fR. Example:
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196 .Sp
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197 .Vb 1
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198 \& "1;3;7"
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199 .Ve
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200 .Sp
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201 For \fIcollabel\fR mode, input value format is:\fIcolkeylabel, colkeylabel;...\fR. Example:
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202 .Sp
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203 .Vb 1
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204 \& "Mol_Id;Mol_Id;Cmpd_Id"
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205 .Ve
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206 .IP "\fB\-m, \-\-mode\fR \fIcolnum | collabel\fR" 4
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207 .IX Item "-m, --mode colnum | collabel"
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208 Specify how to merge text files: using column numbers or column labels.
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209 Possible values: \fIcolnum or collabel\fR. Default value: \fIcolnum\fR.
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210 .IP "\fB\-o, \-\-overwrite\fR" 4
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211 .IX Item "-o, --overwrite"
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212 Overwrite existing files.
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213 .IP "\fB\-\-outdelim\fR \fIcomma | tab | semicolon\fR" 4
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214 .IX Item "--outdelim comma | tab | semicolon"
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215 Output text file delimiter. Possible values: \fIcomma, tab, or semicolon\fR
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216 Default value: \fIcomma\fR.
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217 .IP "\fB\-q, \-\-quote\fR \fIyes | no\fR" 4
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218 .IX Item "-q, --quote yes | no"
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219 Put quotes around column values in output text file. Possible values: \fIyes or
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220 no\fR. Default value: \fIyes\fR.
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221 .IP "\fB\-r, \-\-root\fR \fIrootname\fR" 4
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222 .IX Item "-r, --root rootname"
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223 New text file name is generated using the root: <Root>.<Ext>. Default file
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224 name: <FirstTextFileName>1To<Count>Merged.<Ext>. The csv, and tsv
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225 <Ext> values are used for comma/semicolon, and tab delimited text files
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226 respectively.
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227 .IP "\fB\-s, \-\-startcol\fR \fIcolnum | collabel\fR" 4
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228 .IX Item "-s, --startcol colnum | collabel"
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229 This value is mode specific. It specifies the column in first text file which is
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230 used for start merging other text files.For \fIcolnum\fR mode, specify column
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231 number and for \fIcollabel\fR mode, specify column label.
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232 .Sp
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233 Default value: \fIlast\fR. Start merge after the last column.
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234 .IP "\fB\-\-startcolmode\fR \fIbefore | after\fR" 4
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235 .IX Item "--startcolmode before | after"
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236 Start the merge before or after the \fB\-s, \-\-startcol\fR value. Possible values: \fIbefore or after\fR
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237 Default value: \fIafter\fR.
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238 .IP "\fB\-w, \-\-workingdir\fR \fIdirname\fR" 4
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239 .IX Item "-w, --workingdir dirname"
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240 Location of working directory. Default: current directory.
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241 .SH "EXAMPLES"
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242 .IX Header "EXAMPLES"
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243 To merge Sample2.csv and Sample3.csv into Sample1.csv and generate
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244 NewSample.csv, type:
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245 .PP
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246 .Vb 2
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247 \& % MergeTextFiles.pl \-r NewSample \-o Sample1.csv Sample2.csv
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248 \& Sample3.csv
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249 .Ve
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250 .PP
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251 To merge all Sample*.tsv and generate NewSample.tsv file, type:
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252 .PP
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253 .Vb 2
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254 \& % MergeTextFiles.pl \-r NewSample \-\-indelim comma \-\-outdelim tab \-o
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255 \& Sample*.csv
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256 .Ve
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257 .PP
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258 To merge column numbers \*(L"1,2\*(R" and \*(L"3,4,5\*(R" from Sample2.csv and Sample3.csv
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259 into Sample1.csv starting before column number 3 in Sample1.csv and to generate
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260 NewSample.csv without quoting column data, type:
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261 .PP
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262 .Vb 3
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263 \& % MergeTextFiles.pl \-s 3 \-\-startcolmode before \-r NewSample \-q no
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264 \& \-m colnum \-c "all;1,2;3,4,5" \-o Sample1.csv Sample2.csv
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265 \& Sample3.csv
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266 .Ve
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267 .PP
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268 To merge column \*(L"Mol_ID,Formula,MolWeight\*(R" and \*(L"Mol_ID,NAME,ChemBankID\*(R"
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269 from Sample2.csv and Sample3.csv into Sample1.csv using \*(L"Mol_ID\*(R" as a column keys
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270 starting after the last column and to generate NewSample.tsv, type:
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271 .PP
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272 .Vb 3
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273 \& % MergeTextFiles.pl \-r NewSample \-\-outdelim tab \-k "Mol_ID;Mol_ID;
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274 \& Mol_ID" \-m collabel \-c "all;Mol_ID,Formula,MolWeight;Mol_ID,NAME,
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275 \& ChemBankID" \-o Sample1.csv Sample2.csv Sample3.csv
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276 .Ve
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277 .SH "AUTHOR"
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278 .IX Header "AUTHOR"
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279 Manish Sud <msud@san.rr.com>
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280 .SH "SEE ALSO"
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281 .IX Header "SEE ALSO"
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282 JoinTextFiles.pl, MergeTextFilesWithSD.pl, ModifyTextFilesFormat.pl, SplitTextFiles.pl
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283 .SH "COPYRIGHT"
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284 .IX Header "COPYRIGHT"
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285 Copyright (C) 2015 Manish Sud. All rights reserved.
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286 .PP
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287 This file is part of MayaChemTools.
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288 .PP
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289 MayaChemTools is free software; you can redistribute it and/or modify it under
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290 the terms of the \s-1GNU\s0 Lesser General Public License as published by the Free
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291 Software Foundation; either version 3 of the License, or (at your option)
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292 any later version.
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