| Previous changeset 5:7109a27a11db (2025-01-20) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/compleasm/ commit 9c5d5e6f1813e5c0fd496a828a1fb5e3120f188c |
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modified:
compleasm.xml macros.xml |
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| diff -r 7109a27a11db -r fc7334661489 compleasm.xml --- a/compleasm.xml Mon Jan 20 09:55:04 2025 +0000 +++ b/compleasm.xml Thu Sep 25 11:37:58 2025 +0000 |
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| @@ -35,7 +35,6 @@ <option value="busco" selected="true">BUSCO</option> <option value="lite">Lite</option> </param> - <param argument="--specified_contigs" type="text" label="Specify the contigs to be evaluated" optional="true" help="e.g. chr1 chr2 chr3. If not specified, all contigs will be evaluated"> <sanitizer invalid_char=""> <valid initial="string.letters,string.digits"> @@ -50,6 +49,7 @@ <option value="full_table">full table</option> <option value="miniprot">miniprot</option> <option value="translated_protein">translated proteins</option> + <option value="summary">summary</option> </param> <param name="busco_database" label="Choose the BUSCO database to be used" type="select" multiple="false"> @@ -74,6 +74,9 @@ <data name='translated_protein' format='fasta' label="${tool.name} on ${on_string}: Translated protein" from_work_dir="galaxy_output/*_odb10/translated_protein.fasta"> <filter>outputs and 'translated_protein' in outputs</filter> </data> + <data name='summary' format='txt' label="${tool.name} on ${on_string}: Summary" from_work_dir="galaxy_output/summary.txt"> + <filter>outputs and 'summary' in outputs</filter> + </data> </outputs> <tests> @@ -116,6 +119,23 @@ <has_text text="S:1.20%, 4"/> </assert_stdout> </test> + <test expect_num_outputs="1"> + <param name="input" value="small_genome.fasta"/> + <param name="mode" value="lite"/> + <param name="outputs" value="summary"/> + <param name="busco_database" value="entomoplasmatales_odb10"/> + <param name="lineage_dataset" value="entomoplasmatales_odb10"/> + <output name="summary"> + <assert_contents> + <has_text text="## lineage: entomoplasmatales_odb10"/> + <has_text text="M:96.08%, 319"/> + <has_text text="N:332"/> + </assert_contents> + </output> + <assert_stdout> + <has_text text="S:3.01%, 10"/> + </assert_stdout> + </test> </tests> <help><![CDATA[ |
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| diff -r 7109a27a11db -r fc7334661489 macros.xml --- a/macros.xml Mon Jan 20 09:55:04 2025 +0000 +++ b/macros.xml Thu Sep 25 11:37:58 2025 +0000 |
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| @@ -1,6 +1,6 @@ <macros> <token name="@TOOL_VERSION@">0.2.6</token> - <token name="@VERSION_SUFFIX@">2</token> + <token name="@VERSION_SUFFIX@">3</token> <xml name="citation"> <citations> |