Mercurial > repos > iuc > multiqc
comparison checkm_plugin.xml @ 27:b7e8663db1ec draft
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 |
| parents | |
| children |
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| 26:1206c725e45a | 27:b7e8663db1ec |
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| 1 <macros> | |
| 2 <token name="@CHECKM_COMMAND@"><![CDATA[ | |
| 3 #set $pattern = ".*Bin Id(?:\t| {3,})Marker lineage(?:\t| {3,})# genomes(?:\t| {3,})# markers(?:\t| {3,})# marker sets.*" | |
| 4 #for $file in $repeat.software_cond.input | |
| 5 @ESCAPE_IDENTIFIER@ | |
| 6 #set file_path = os.path.join($software_dir, 'output_file') | |
| 7 ln -s '$file' '$file_path' && | |
| 8 #end for | |
| 9 ]]></token> | |
| 10 <xml name="checkm_form"> | |
| 11 <param name="input" type="data" format="tabular" multiple="true" label="Output of Checkm"/> | |
| 12 </xml> | |
| 13 <xml name="checkm_test"> | |
| 14 <test expect_num_outputs="3"> | |
| 15 <repeat name="results"> | |
| 16 <conditional name="software_cond"> | |
| 17 <param name="software" value="checkm"/> | |
| 18 <param name="input" value="checkm.tabular"/> | |
| 19 </conditional> | |
| 20 </repeat> | |
| 21 <param name="title" value="Title of the report"/> | |
| 22 <param name="comment" value="Commment for the report"/> | |
| 23 <param name="flat" value="true"/> | |
| 24 <param name="export" value="true"/> | |
| 25 <output name="html_report"> | |
| 26 <assert_contents> | |
| 27 <has_text text="Title of the report"/> | |
| 28 <has_text text="Commment for the report"/> | |
| 29 <has_text text="CheckM"/> | |
| 30 <has_text text="Bin quality"/> | |
| 31 <has_text text="637000110"/> | |
| 32 </assert_contents> | |
| 33 </output> | |
| 34 <output_collection name="plots" type="list" count="0"/> | |
| 35 </test> | |
| 36 </xml> | |
| 37 </macros> |