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1 <tool id="PHYLO_render_datatable" name="Render CSV file" version="1.1.0">
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2 <description>as an interactive HTML table</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
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6
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6 <stdio>
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7 <expand macro="basic_errors"/>
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8 </stdio>
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9 <command interpreter="bash">
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10 render_datatable-wrapper.sh $config
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11 </command>
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12 <inputs>
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13 <param name="input" type="data" format="csv" label="CSV file"/>
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14 </inputs>
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15 <outputs>
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16 <data format="html" name="output" label="Generated table"/>
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17 </outputs>
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18 <configfiles>
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19 <configfile name="config">
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20 INPUT="${input}"
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21
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22 OUTPUT="${output}"
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23 OUTPUT_DIR="${output.files_path}"
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24 </configfile>
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25 </configfiles>
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26 <!-- The contents of the help tag is parsed as reStructuredText. Please see
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27 help-template.rst for examples of commonly-used sections in other Galaxy
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28 tools. -->
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29 <help>
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30
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31 .. class:: infomark
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32
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33 **What it does**
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34
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35 This tool reformats a CSV file, like this::
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36
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37 "seqname","accession","tax_id","species_name","is_type"
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38 "FM872653","FM872653","308994","Dialister propionicifaciens",0.0
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39 "AY331416","AY331416","239137","Candidate Division TM7 oral",0.0
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40 "DQ666092","DQ666092","95818_1","Candidate Division TM7 vaginal",0.0
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41 "S002223913","GQ900631","186802_3","bacterium BVAB3-Strain 1",0.0
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42 ...
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43
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44 into an interactive HTML table.
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45
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46 [placeholder]
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47
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48 +-------------+-----------+----------+---------------------------------------+----------+
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49 | seqname | accession | tax_id | species_name | is_type |
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50 +=============+===========+==========+=======================================+==========+
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51 | FM872653 | FM872653 | 308994 | Dialister propionicifaciens | 0.0 |
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52 +-------------+-----------+----------+---------------------------------------+----------+
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53 | AY331416 | AY331416 | 239137 | Candidate Division TM7 oral | 0.0 |
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54 +-------------+-----------+----------+---------------------------------------+----------+
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55 | DQ666092 | DQ666092 | 95818_1 | Candidate Division TM7 vaginal | 0.0 |
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56 +-------------+-----------+----------+---------------------------------------+----------+
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57 | S002223913 | GQ900631 | 186802_3 | bacterium BVAB3-Strain 1 | 0.0 |
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58 +-------------+-----------+----------+---------------------------------------+----------+
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59
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60 ...
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61
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62 </help>
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63 </tool>
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