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comparison bowtie2_plugin.xml @ 24:f7e2f1eb3a16 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit dffbb5d421a5a5773bcb7f05933b12c45461bb58
author iuc
date Mon, 02 Sep 2024 14:22:54 +0000
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23:abfd8a6544d7 24:f7e2f1eb3a16
1 <macros>
2 <token name="@BOWTIE2_COMMAND@"><![CDATA[
3 #set $pattern = "% overall alignment rate"
4 @LN_FILES@
5 ]]></token>
6 <xml name="bowtie2_form">
7 <param name="input" type="data" format="txt" multiple="true" label="Output of Bowtie 2" help="It should contain 'reads; of these:'"/>
8 </xml>
9 <!-- add here your test files and tests, the more stringent the better -->
10 <xml name="bowtie2_test">
11 <test expect_num_outputs="3">
12 <repeat name="results">
13 <conditional name="software_cond">
14 <param name="software" value="bowtie2"/>
15 <param name="input" value="bowtie2_1.txt,bowtie2_2.txt"/>
16 </conditional>
17 </repeat>
18 <param name="title" value="Title of the report"/>
19 <param name="comment" value="Commment for the report"/>
20 <param name="flat" value="true"/>
21 <param name="export" value="true"/>
22 <output name="html_report">
23 <assert_contents>
24 <has_text text="Title of the report"/>
25 <has_text text="Commment for the report"/>
26 <has_text text="bowtie2_se_plot"/>
27 <has_text text="mqc-module-section-bowtie2"/>
28 </assert_contents>
29 </output>
30 <output name="stats">
31 <assert_contents>
32 <has_text text="bowtie2_1_txt"/>
33 <has_n_lines n="3"/>
34 <has_n_columns n="2"/>
35 </assert_contents>
36 </output>
37 <output_collection name="plots" type="list" count="1"/>
38 </test>
39 </xml>
40 </macros>