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comparison scatterplot.xml @ 4:113045fca1aa draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/scatterplot commit 405b0656c97b3971605e09f77cf46ca1f4870346
author devteam
date Sat, 03 Jun 2017 09:29:17 -0400
parents 1dacc8aeb452
children
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3:1dacc8aeb452 4:113045fca1aa
1 <tool id="scatterplot_rpy" name="Scatterplot" version="1.0.2"> 1 <tool id="scatterplot_rpy" name="Scatterplot" version="1.0.3">
2 <description>of two numeric columns</description> 2 <description>of two numeric columns</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.9">numpy</requirement> 4 <requirement type="package" version="1.9">numpy</requirement>
5 <!-- explicit R requirement is necessary for toolshed package, conda rpy2 comes with R --> 5 <requirement type="package" version="2.8.5">rpy2</requirement>
6 <requirement type="package" version="3.2.1">R</requirement>
7 <requirement type="package" version="2.7.8">rpy2</requirement>
8 </requirements> 6 </requirements>
9 <command interpreter="python">scatterplot.py $input $out_file1 $col1 $col2 "$title" "$xlab" "$ylab"</command> 7 <command><![CDATA[
8 python '$__tool_directory__/scatterplot.py'
9 '$input'
10 '$out_file1'
11 $col1
12 $col2
13 '$title'
14 '$xlab'
15 '$ylab'
16 ]]>
17 </command>
10 <inputs> 18 <inputs>
11 <param name="input" type="data" format="tabular" label="Dataset" help="Dataset missing? See TIP below"/> 19 <param name="input" type="data" format="tabular" label="Dataset" help="Dataset missing? See TIP below"/>
12 <param name="col1" type="data_column" data_ref="input" numerical="True" label="Numerical column for x axis" /> 20 <param name="col1" type="data_column" data_ref="input" numerical="True" label="Numerical column for x axis" />
13 <param name="col2" type="data_column" data_ref="input" numerical="True" label="Numerical column for y axis" /> 21 <param name="col2" type="data_column" data_ref="input" numerical="True" label="Numerical column for y axis" />
14 <param name="title" type="text" value="Scatterplot" label="Plot title"/> 22 <param name="title" type="text" value="Scatterplot" label="Plot title"/>
27 <param name="xlab" value="V1"/> 35 <param name="xlab" value="V1"/>
28 <param name="ylab" value="V2"/> 36 <param name="ylab" value="V2"/>
29 <output name="out_file1" file="scatterplot_out1.pdf" compare="sim_size" /> 37 <output name="out_file1" file="scatterplot_out1.pdf" compare="sim_size" />
30 </test> 38 </test>
31 </tests> 39 </tests>
32 <help> 40 <help><![CDATA[
33 .. class:: infomark 41 .. class:: infomark
34 42
35 **TIP:** If your data is not TAB delimited, use *Text Manipulation-&gt;Convert* 43 **TIP:** If your data is not TAB delimited, use *Text Manipulation-&gt;Convert*
36 44
37 ----- 45 -----
63 10 69 3.7 71 10 69 3.7
64 72
65 - Create a simple scatterplot between the variables in column 2 and column 3 of the above dataset. 73 - Create a simple scatterplot between the variables in column 2 and column 3 of the above dataset.
66 74
67 .. image:: scatterplot.png 75 .. image:: scatterplot.png
76 ]]>
68 </help> 77 </help>
78 <citations>
79 </citations>
69 </tool> 80 </tool>