Mercurial > repos > iuc > cnvkit_autobin

comparison autobin.xml @ 3:505e6bbaee59 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cnvkit commit 9d922676808c5f57e9c01b148eec6cc0a63c53e5
author iuc
date Fri, 13 Dec 2024 23:55:36 +0000
parents 94e1d19c8190
children
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2:8f45832093b3 3:505e6bbaee59
91 <data name="out_capture_target" format="bed" label="${tool.name} on ${on_string}: Capture target" from_work_dir="capture.target.bed" /> 91 <data name="out_capture_target" format="bed" label="${tool.name} on ${on_string}: Capture target" from_work_dir="capture.target.bed" />
92 <data name="out_capture_antitarget" format="bed" label="${tool.name} on ${on_string}: Capture antitarget" from_work_dir="capture.antitarget.bed" /> 92 <data name="out_capture_antitarget" format="bed" label="${tool.name} on ${on_string}: Capture antitarget" from_work_dir="capture.antitarget.bed" />
93 </outputs> 93 </outputs>
94 <tests> 94 <tests>
95 <test expect_num_outputs="2"> 95 <test expect_num_outputs="2">
96 <conditional name="reference_source"> 96 <section name="advanced_settings">
97 <param name="ref_selector" value="history"/> 97 <conditional name="reference_source">
98 <param name="fasta" ftype="fasta" value="genome.fasta" /> 98 <param name="ref_selector" value="history"/>
99 </conditional> 99 <param name="fasta" ftype="fasta" value="genome.fasta" />
100 </conditional>
101 </section>
100 <param name="bams" ftype="bam" value="tumor.bam" /> 102 <param name="bams" ftype="bam" value="tumor.bam" />
101 <param name="targets" ftype="bed" value="capture.bed" /> 103 <param name="targets" ftype="bed" value="capture.bed" />
102 <output name="out_capture_target" file="capture.target.bed" /> 104 <output name="out_capture_target" file="capture.target.bed" />
103 <output name="out_capture_antitarget" file="capture.antitarget.bed" /> 105 <output name="out_capture_antitarget" file="capture.antitarget.bed" />
104 </test> 106 </test>
105 <test expect_num_outputs="2"> 107 <test expect_num_outputs="2">
106 <conditional name="reference_source"> 108 <section name="advanced_settings">
107 <param name="ref_selector" value="cached"/> 109 <conditional name="reference_source">
108 <param name="fasta" value="test_buildid"/> 110 <param name="ref_selector" value="cached"/>
109 </conditional> 111 <param name="fasta" value="test_buildid"/>
112 </conditional>
113 </section>
110 <param name="bams" ftype="bam" value="tumor.bam" /> 114 <param name="bams" ftype="bam" value="tumor.bam" />
111 <param name="targets" ftype="bed" value="capture.bed" /> 115 <param name="targets" ftype="bed" value="capture.bed" />
112 <output name="out_capture_target" file="capture.target.bed" /> 116 <output name="out_capture_target" file="capture.target.bed" />
113 <output name="out_capture_antitarget" file="capture.antitarget.bed" /> 117 <output name="out_capture_antitarget" file="capture.antitarget.bed" />
114 </test> 118 </test>