Mercurial > repos > mvdbeek > concatenate_multiple_datasets

comparison catWrapper.xml @ 2:745090cbbf75 draft default tip

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/concatenate_multiple_datasets commit aaca5edd2777ff8fdd13055f11ca9912cb580d2f
author mvdbeek
date Fri, 11 Mar 2016 06:05:52 -0500
parents 1bf1794dfcf6
children
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1:1bf1794dfcf6 2:745090cbbf75
20 <output name="out_file1" file="cat_wrapper_out1.bed"/> 20 <output name="out_file1" file="cat_wrapper_out1.bed"/>
21 </test> 21 </test>
22 </tests> 22 </tests>
23 <help> 23 <help>
24 24
25 .. class:: warningmark 25 .. class:: warningmark
26 26
27 **WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This 27 **WARNING:** Be careful not to concatenate datasets of different kinds (e.g., sequences with intervals). This tool does not check if the datasets being concatenated are in the same format.
28 tool does not check if the datasets being concatenated are in the same format.
29 28
30 ----- 29 -----
31 30
32 **What it does** 31 **What it does**
33 32
34 Concatenates datasets 33 Concatenates datasets
35 34
36 ----- 35 -----
37 36
38 **Example** 37 **Example**
39 38
40 Concatenating Dataset:: 39 Concatenating Dataset::
41 40
42 chrX 151087187 151087355 A 0 - 41 chrX 151087187 151087355 A 0 -
43 chrX 151572400 151572481 B 0 + 42 chrX 151572400 151572481 B 0 +
44 43
45 with Dataset1:: 44 with Dataset1::
46 45
47 chr1 151242630 151242955 X 0 + 46 chr1 151242630 151242955 X 0 +
48 chr1 151271715 151271999 Y 0 + 47 chr1 151271715 151271999 Y 0 +
49 chr1 151278832 151279227 Z 0 - 48 chr1 151278832 151279227 Z 0 -
50 49
51 and with Dataset2:: 50 and with Dataset2::
52 51
53 chr2 100000030 200000955 P 0 + 52 chr2 100000030 200000955 P 0 +
54 chr2 100000015 200000999 Q 0 + 53 chr2 100000015 200000999 Q 0 +
55 54
56 will result in the following:: 55 will result in the following::
57 56
58 chrX 151087187 151087355 A 0 - 57 chrX 151087187 151087355 A 0 -
59 chrX 151572400 151572481 B 0 + 58 chrX 151572400 151572481 B 0 +
60 chr1 151242630 151242955 X 0 + 59 chr1 151242630 151242955 X 0 +
61 chr1 151271715 151271999 Y 0 + 60 chr1 151271715 151271999 Y 0 +
62 chr1 151278832 151279227 Z 0 - 61 chr1 151278832 151279227 Z 0 -
63 chr2 100000030 200000955 P 0 + 62 chr2 100000030 200000955 P 0 +
64 chr2 100000015 200000999 Q 0 + 63 chr2 100000015 200000999 Q 0 +
65 64
66 ----- 65 -----
67 66
68 Adapted from the concatenate tool that comes with galaxy. 67 Adapted from galaxy's catWrapper.xml to allow multiple input files
68
69 </help> 69 </help>
70 </tool> 70 </tool>