Mercurial > repos > mvdbeek > concatenate_multiple_datasets

comparison catWrapper.xml @ 0:1e06fa2771f9 draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/concatenate_multiple_datasets commit 1542edc9d7c2b1e9649c52532a5630e23ac5ceda
author mvdbeek
date Fri, 25 Sep 2015 11:09:17 -0400
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1 <tool id="cat_multiple" name="Concatenate multiple datasets" version="0.2">
2 <description>tail-to-head</description>
3 <command><![CDATA[
4 cat
5 #for $file in $input
6 "$file"
7 #end for
8 > "$out_file1"
9 ]]>
10 </command>
11 <inputs>
12 <param name="input" type="data" label="Concatenate Dataset" multiple="True"/>
13 </inputs>
14 <outputs>
15 <data name="out_file1" format_source="input" metadata_source="input"/>
16 </outputs>
17 <tests>
18 <test>
19 <param name="input" value="1.bed,2.bed"/>
20 <output name="out_file1" file="cat_wrapper_out1.bed"/>
21 </test>
22 </tests>
23 <help>
24
25 .. class:: warningmark
26
27 **WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This
28 tool does not check if the datasets being concatenated are in the same format.
29
30 -----
31
32 **What it does**
33
34 Concatenates datasets
35
36 -----
37
38 **Example**
39
40 Concatenating Dataset::
41
42 chrX 151087187 151087355 A 0 -
43 chrX 151572400 151572481 B 0 +
44
45 with Dataset1::
46
47 chr1 151242630 151242955 X 0 +
48 chr1 151271715 151271999 Y 0 +
49 chr1 151278832 151279227 Z 0 -
50
51 and with Dataset2::
52
53 chr2 100000030 200000955 P 0 +
54 chr2 100000015 200000999 Q 0 +
55
56 will result in the following::
57
58 chrX 151087187 151087355 A 0 -
59 chrX 151572400 151572481 B 0 +
60 chr1 151242630 151242955 X 0 +
61 chr1 151271715 151271999 Y 0 +
62 chr1 151278832 151279227 Z 0 -
63 chr2 100000030 200000955 P 0 +
64 chr2 100000015 200000999 Q 0 +
65
66 -----
67
68 Adapted from the concatenate tool that comes with galaxy.
69 </help>
70 </tool>