annotate condense_characters.xml @ 1:af7fe71973ac draft

Updated command line format per dev team standards.
author Dave B. <dave@bx.psu.edu>
date Mon, 01 Apr 2013 15:02:54 -0400
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1 <tool id="Condense characters1" name="Condense">
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2 <description>consecutive characters</description>
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af7fe71973ac Updated command line format per dev team standards.
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3 <command interpreter="perl">condense_characters.pl "${input}" "${character}" "${out_file1}"</command>
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4 <inputs>
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5 <!-- <display>condense all consecutive $character from $input</display> -->
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6 <param name="character" type="select" label="Condense all consecutive">
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7 <option value="T">Tabs</option>
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8 <option value="Sp">Spaces</option>
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9 <option value="Dt">Dots</option>
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10 <option value="C">Commas</option>
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11 <option value="D">Dashes</option>
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12 <option value="U">Underscores</option>
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13 <option value="P">Pipes</option>
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14 </param>
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15 <param format="txt" name="input" type="data" label="in this Query"/>
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16 </inputs>
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17 <outputs>
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18 <data format="input" name="out_file1" metadata_source="input" />
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19 </outputs>
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20 <tests>
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21 <test>
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22 <param name="character" value="T"/>
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23 <param name="input" value="1.bed"/>
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24 <output name="out_file1" file="eq-condense.dat"/>
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25 </test>
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26 </tests>
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27 <help>
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28
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29 **What it does**
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30
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31 This tool condenses all consecutive characters of a specified type.
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32
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33 -----
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34
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35 **Example**
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36
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37 - Input file::
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38
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39 geneX,,,10,,,,,20
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40 geneY,,5,,,,,12,15,9,
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41
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42 - Condense all consecutive commas. The above file will be converted into::
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43
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44 geneX,10,20
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45 geneY,5,12,15,9
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46
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47 </help>
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48 </tool>