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First commit of old repositories
author osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
date Tue, 11 Mar 2014 12:19:13 -0700
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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1 <tool id="fasconcat" name="FASConcat" version="1.0">
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2 <description>Appends all input sequence files into one file</description>
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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3 <command interpreter="perl">fasconcat.pl $outputFormat $totalNum
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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4 #for $file in $sourceFiles
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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5 ${file.input}
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6 #end for
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7 </command>
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8 <inputs>
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9 <param name="totalNum" type="integer" value="1" label="Total number of input files" />
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10 <repeat name="sourceFiles" title="Input files (FASTA, Phylip or NEXUS)" >
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11 <param name="input" type="data" label="input files" />
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12 </repeat>
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13 <param name="outputFormat" type="select" label="Choose the output file format">
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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14 <option value="0" selected="true">FASTA Only</option>
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15 <option value="1">Phylip Only</option>
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16 <option value="2">NEXUS Only</option>
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17 </param>
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18 </inputs>
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19
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20 <outputs>
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21 <data from_work_dir="FcC_info.xls" />
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22 <data from_work_dir="output" />
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23 </outputs>
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24 <help>
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osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
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25 **What it does**
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26
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27 FASConcat appends all input sequences into one file.
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28
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29 ------
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30
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31 **Inputs**
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32
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33 FASTA, Phylip, NEXUS
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34
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35 ------
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36
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37 **Outputs**
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38
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39 FASTA, Phylip, NEXUS
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40
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41 -------
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42
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43 **Additional Information**
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44
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45 Please direct questions or comments to ucsb_phylogenetics@lifesci.ucsb.edu or, if you can, enter them on the
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46 osiris_phylogenetics site at bitbucket.org
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47
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48 -------
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49
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50 **Citations**
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51
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52 This tool is part of the Osiris Phylogenetics Tool Package for Galaxy. If you make extensive use of this
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53 tool in a publication, please consider citing the following.
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54
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55 Current Osiris Citation is here
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56
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57 http://osiris-phylogenetics.blogspot.com/2012/10/citation.html
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58 </help>
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59 </tool>