Mercurial > repos > iuc > multiqc

comparison busco_plugin.xml @ 24:0771dee34cff draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/multiqc commit dffbb5d421a5a5773bcb7f05933b12c45461bb58
author iuc
date Mon, 02 Sep 2024 14:22:19 +0000
parents
children
comparison
equal deleted inserted replaced
23:d01bcfd04189 24:0771dee34cff
1 <macros>
2 <token name="@BUSCO_COMMAND@"><![CDATA[
3 ## Searches for files "short_summary_[samplename].txt"
4 #for $file in $repeat.software_cond.input
5 @ESCAPE_IDENTIFIER@
6 #set file_path = os.path.join($software_dir, 'short_summary_' + str($identifier))
7 ln -s '$file' '$file_path' &&
8 #end for
9 ]]></token>
10 <xml name="busco_form">
11 <param name="input" type="data" format="txt" multiple="true" label="Output of BUSCO"/>
12 </xml>
13 <!-- add here your test files and tests, the more stringent the better -->
14 <xml name="busco_test">
15 <test expect_num_outputs="3">
16 <repeat name="results">
17 <conditional name="software_cond">
18 <param name="software" value="busco"/>
19 <param name="input" value="busco.txt"/>
20 </conditional>
21 </repeat>
22 <param name="title" value="Title of the report"/>
23 <param name="comment" value="Commment for the report"/>
24 <param name="flat" value="true"/>
25 <param name="export" value="true"/>
26 <output name="html_report">
27 <assert_contents>
28 <has_text text="Title of the report"/>
29 <has_text text="Commment for the report"/>
30 <has_text text="busco-lineage-fungi_odb9"/>
31 </assert_contents>
32 </output>
33 <!-- Not sure why this is empty
34 <output name="stats">
35 <assert_contents>
36 <has_text text="R1_fq"/>
37 <has_text text="result_right"/>
38 <has_text text="25839_merged"/>
39 <has_text text="C2"/>
40 <has_n_lines n="11"/>
41 <has_n_columns n="22"/>
42 </assert_contents>
43 </output>
44 -->
45 <output_collection name="plots" type="list" count="1"/>
46 </test>
47 </xml>
48 </macros>