Mercurial > repos > iuc > multiqc
diff busco_plugin.xml @ 24:f7e2f1eb3a16 draft default tip
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 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/busco_plugin.xml Mon Sep 02 14:22:54 2024 +0000 @@ -0,0 +1,48 @@ +<macros> + <token name="@BUSCO_COMMAND@"><![CDATA[ + ## Searches for files "short_summary_[samplename].txt" + #for $file in $repeat.software_cond.input + @ESCAPE_IDENTIFIER@ + #set file_path = os.path.join($software_dir, 'short_summary_' + str($identifier)) + ln -s '$file' '$file_path' && + #end for + ]]></token> + <xml name="busco_form"> + <param name="input" type="data" format="txt" multiple="true" label="Output of BUSCO"/> + </xml> + <!-- add here your test files and tests, the more stringent the better --> + <xml name="busco_test"> + <test expect_num_outputs="3"> + <repeat name="results"> + <conditional name="software_cond"> + <param name="software" value="busco"/> + <param name="input" value="busco.txt"/> + </conditional> + </repeat> + <param name="title" value="Title of the report"/> + <param name="comment" value="Commment for the report"/> + <param name="flat" value="true"/> + <param name="export" value="true"/> + <output name="html_report"> + <assert_contents> + <has_text text="Title of the report"/> + <has_text text="Commment for the report"/> + <has_text text="busco-lineage-fungi_odb9"/> + </assert_contents> + </output> + <!-- Not sure why this is empty + <output name="stats"> + <assert_contents> + <has_text text="R1_fq"/> + <has_text text="result_right"/> + <has_text text="25839_merged"/> + <has_text text="C2"/> + <has_n_lines n="11"/> + <has_n_columns n="22"/> + </assert_contents> + </output> + --> + <output_collection name="plots" type="list" count="1"/> + </test> + </xml> +</macros>