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1 <tool id="make_logo" name="Make Logo" version="1.3.1">
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2 <description>Post-processing analysis: makes a visual representation of the EMBER expression pattern</description>
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3 <command interpreter="perl">Make_Logo_Galaxy.pl -m $model -c $compslist -o $output</command>
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4 <inputs>
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5 <param format="txt" name="model" type="data" label="Model file"/>
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6 <param format="txt" name="compslist" type="data" label="Comparison list"/>
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7 </inputs>
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8 <outputs>
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9 <data format="eps" name="output"/>
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10 </outputs>
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11
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12 <tests>
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13 <test>
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14 <param name="model" value="EMBER/patterns-1.model"/>
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15 <param name="compslist" value="EMBER/comparisons_list.txt"/>
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16 <output name="output">
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17 <assert_contents>
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18 <has_text text="%%Title:" />
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19 </assert_contents>
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20 </output>
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21 </test>
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22 </tests>
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23
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24 <help>
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25
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26 This tool makes an eps file representing the expression pattern from EMBER.
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27
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28 -----
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29
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30 Description of inputs:
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31
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32 *Model file*: the model output of EMBER (first line is "comparison/class; avg...")
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3
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33
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34 *Comparison list*: the same comparison list input to PreProcess Expression Data (used to make plot labels).
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35
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36 NOTE: if you are running a local installation of Galaxy, you must have gnuplot installed to run Make Logo. Gnuplot is free and can be downloaded at http://www.gnuplot.info/. After downloading the package, follow the instructions in the INSTALL file.
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37
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38 </help>
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39
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40 </tool>
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41
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