Mercurial > repos > mvdbeek > bam_readtagger

comparison allow_dovetailing.xml @ 3:cb9036583afe draft

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planemo upload for repository https://github.com/bardin-lab/readtagger/tree/master/galaxy commit e9d18b939a9172b858c178e6bb4ef9ce2138c94c-dirty
author mvdbeek
date Tue, 21 Feb 2017 04:39:31 -0500
parents 39d9bc17ec74
children 7625c594bc37
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2:39d9bc17ec74 3:cb9036583afe
1 <tool id="allow_dovetailing" name="Allow dovetailing" version="0.1.13"> 1 <tool id="allow_dovetailing" name="Allow dovetailing" version="0.2.0">
2 <description>modifies proper_pair flag in bam files</description> 2 <description>modifies proper_pair flag in bam files</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="0.1.13">readtagger</requirement> 4 <requirement type="package" version="0.2.0">readtagger</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="aggressive"><![CDATA[ 6 <command detect_errors="aggressive"><![CDATA[
7 allow_dovetailing -i '$input' -o '$output' 7 allow_dovetailing -i '$input' -o '$output'
8 ]]></command> 8 ]]></command>
9 <inputs> 9 <inputs>
17 <param name="input" value="not_a_proper_pair.bam" ftype="bam"/> 17 <param name="input" value="not_a_proper_pair.bam" ftype="bam"/>
18 <output name="output" file="proper_pair.bam" ftype="bam" lines_diff="2"/> 18 <output name="output" file="proper_pair.bam" ftype="bam" lines_diff="2"/>
19 </test> 19 </test>
20 </tests> 20 </tests>
21 <help><![CDATA[ 21 <help><![CDATA[
22 :: 22 .. code-block::
23 usage: allow_dovetailing [-h] -i INPUT_PATH -o OUTPUT_PATH
24 23
25 Allow dovetailing. 24 usage: allow_dovetailing [-h] -i INPUT_PATH -o OUTPUT_PATH
26 25
27 optional arguments: 26 Allow dovetailing.
28 -h, --help show this help message and exit 27
29 -i INPUT_PATH, --input_path INPUT_PATH 28 optional arguments:
30 Input alignment file to manipulate 29 -h, --help show this help message and exit
31 -o OUTPUT_PATH, --output_path OUTPUT_PATH 30 -i INPUT_PATH, --input_path INPUT_PATH
32 Output alignment file 31 Input alignment file to manipulate
32 -o OUTPUT_PATH, --output_path OUTPUT_PATH
33 Output alignment file
33 ]]></help> 34 ]]></help>
34 </tool> 35 </tool>