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comparison sambamba_plugin.xml @ 26:1206c725e45a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 881c4f072b1c9bd2355ba41a58e2c04d43f5ac6b
author iuc
date Tue, 11 Feb 2025 10:12:32 +0000
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25:24002c7e6092 26:1206c725e45a
1 <macros>
2 <token name="@SAMBAMBA_COMMAND@"><![CDATA[
3 #set $pattern = "finding positions of the duplicate reads in the file"
4 @LN_FILES@
5 ]]></token>
6 <xml name="sambamba_form">
7 <param name="input" type="data" format="txt" multiple="true" label="Output of Sambamba markdup" help="It should contain 'finding positions of the duplicate reads in the file'"/>
8 </xml>
9 <xml name="sambamba_test">
10 <test expect_num_outputs="3">
11 <repeat name="results">
12 <conditional name="software_cond">
13 <param name="software" value="sambamba"/>
14 <param name="input" value="sambamba.txt"/>
15 </conditional>
16 </repeat>
17 <param name="title" value="Title of the report"/>
18 <param name="comment" value="Commment for the report"/>
19 <param name="flat" value="true"/>
20 <param name="export" value="true"/>
21 <output name="html_report">
22 <assert_contents>
23 <has_text text="Title of the report"/>
24 <has_text text="Commment for the report"/>
25 <has_text text="Sambamba Markdup"/>
26 </assert_contents>
27 </output>
28 <output name="stats">
29 <assert_contents>
30 <has_text text="Sample"/>
31 <has_text text="sambamba_markdup-duplicate_rate"/>
32 <has_n_lines n="2"/>
33 <has_n_columns n="2"/>
34 </assert_contents>
35 </output>
36 <output_collection name="plots" type="list" count="0"/>
37 </test>
38 </xml>
39 </macros>