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/tools/filters/mergeCols.xml

https://bitbucket.org/cistrome/cistrome-harvard/
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 1<tool id="mergeCols1" name="Merge Columns" version="1.0.1">
 2  <description>together</description>
 3  <command interpreter="python">
 4   mergeCols.py 
 5      $input1
 6      $out_file1
 7      $col1
 8      $col2
 9      #for $col in $columns
10        ${col.datacol}
11      #end for
12  </command>
13  <inputs>
14    <param format="tabular" name="input1" type="data" label="Select data" help="Dataset missing? See TIP below."/>
15    <param name="col1" label="Merge column" type="data_column" data_ref="input1" />
16    <param name="col2" label="with column" type="data_column" data_ref="input1" help="Need to add more columns? Use controls below."/>
17    <repeat name="columns" title="Columns">
18      <param name="datacol" label="Add column" type="data_column" data_ref="input1" />
19    </repeat>
20  </inputs>
21  <outputs>
22    <data format="tabular" name="out_file1" />
23  </outputs>
24  <tests>
25    <test>
26      <param name="input1" value="1.bed"/>
27      <param name="col1" value="4" />
28      <param name="col2" value="1" />
29      <param name="datacol" value="6" />
30      <output name="out_file1" file="mergeCols.dat"/>
31    </test>
32  </tests>
33<help>
34
35.. class:: infomark
36
37**TIP:** If your data is not TAB delimited, use *Text Manipulation-&gt;Convert*
38
39-----
40
41**What it does**
42
43This tool merges columns together. Any number of valid columns can be merged in any order.
44
45-----
46
47**Example**
48
49Input dataset (five columns: c1, c2, c3, c4, and c5)::
50
51   1 10   1000  gene1 chr
52   2 100  1500  gene2 chr
53
54merging columns "**c5,c1**" will return::
55
56   1 10   1000  gene1 chr chr1
57   2 100  1500  gene2 chr chr2
58
59.. class:: warningmark
60   
61Note that all original columns are preserved and the result of merge is added as the rightmost column.
62  </help>
63</tool>