Mercurial > repos > iuc > multiqc

comparison kraken_plugin.xml @ 27:b7e8663db1ec draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit 327834d2ea9b16f0f0264fa4e9b675a2277f2fee
author iuc
date Tue, 18 Feb 2025 23:17:45 +0000
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26:1206c725e45a 27:b7e8663db1ec
1 <macros>
2 <token name="@KRAKEN_COMMAND@"><![CDATA[
3 #set $pattern = "^\s{0,2}(\d{1,3}\.\d{1,2})\t(\d+)\t(\d+)\t((\d+)\t(\d+)\t)?([URDKPCOFGS-]\d{0,2})\t(\d+)(\s+)[root|unclassified]"
4 @LN_FILES@
5 ]]></token>
6 <xml name="kraken_form">
7 <param name="input" type="data" format="tabular" multiple="true" label="Output report of Kraken 1 or 2" />
8 </xml>
9 <xml name="kraken_test">
10 <test expect_num_outputs="3">
11 <repeat name="results">
12 <conditional name="software_cond">
13 <param name="software" value="kraken"/>
14 <param name="input" value="kraken_test0_report.tab"/>
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="General Statistics"/>
26 <has_text text="kraken_test0_report_tab"/>
27 <has_text text="100.0"/>
28 </assert_contents>
29 </output>
30 <output name="stats">
31 <assert_contents>
32 <has_text text="kraken-pct_top_one"/>
33 <has_text text="kraken-pct_top_n"/>
34 <has_text text="100.0"/>
35 <has_text text="kraken_test0_report_tab"/>
36 <has_n_lines n="2"/>
37 <has_n_columns n="3"/>
38 </assert_contents>
39 </output>
40 <output_collection name="plots" type="list" count="0"/>
41 </test>
42 </xml>
43 </macros>