Mercurial > repos > iuc > nanocompore_sampcomp

comparison sampcomp.xml @ 1:e5b88f0e7960 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanocompore commit 652a872061324ba1073bfa286777ffeefa352671"
author iuc
date Mon, 08 Jun 2020 18:32:52 +0000
parents 952c4ac5ef22
children f657489960f7
comparison
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0:952c4ac5ef22 1:e5b88f0e7960
58 <param argument="--label2" type="text" value="Condition 2" label="Set label of second condition"/> 58 <param argument="--label2" type="text" value="Condition 2" label="Set label of second condition"/>
59 <repeat name="file2_rep" min="1" title="Second condition files"> 59 <repeat name="file2_rep" min="1" title="Second condition files">
60 <param name="file" type="data" format="tabular" label="Select NanopolishComp file" help="(--file_list2)"/> 60 <param name="file" type="data" format="tabular" label="Select NanopolishComp file" help="(--file_list2)"/>
61 <param name="index" type="data" format="tabular" label="Select index file"/> 61 <param name="index" type="data" format="tabular" label="Select index file"/>
62 </repeat> 62 </repeat>
63 <param argument="--fasta" type="data" format="fasta" label="Select mapping file"/> 63 <param argument="--fasta" type="data" format="fasta" label="Select reference mapping fasta"/>
64 64
65 <section name="ap" title="Advanced parameters"> 65 <section name="ap" title="Advanced parameters">
66 <param argument="--bed" type="data" format="bed" optional="true" label="Select mapping file with annotation of transcriptome"/> 66 <param argument="--bed" type="data" format="bed" optional="true" label="Select mapping file with annotation of transcriptome"/>
67 <param argument="--max_invalid_kmers_freq" type="float" value="0.1" min="0.0" max="1.0" label="Set max fequency of invalid kmers"/> 67 <param argument="--max_invalid_kmers_freq" type="float" value="0.1" min="0.0" max="1.0" label="Set max fequency of invalid kmers"/>
68 <param argument="--min_coverage" type="integer" value="30" min="0" label="Set minimum coverage required in each condition to do the comparison"/> 68 <param argument="--min_coverage" type="integer" value="30" min="0" label="Set minimum coverage required in each condition to do the comparison"/>
129 <has_text_matching expression="chr&#09;22102.+"/> 129 <has_text_matching expression="chr&#09;22102.+"/>
130 </assert_contents> 130 </assert_contents>
131 </output> 131 </output>
132 <output name="out_db"> 132 <output name="out_db">
133 <assert_contents> 133 <assert_contents>
134 <has_size value="5408256"/> 134 <has_size value="5416960" delta="10000"/>
135 </assert_contents> 135 </assert_contents>
136 </output> 136 </output>
137 </test> 137 </test>
138 <!-- #2 --> 138 <!-- #2 -->
139 <test expect_num_outputs="4"> 139 <test expect_num_outputs="4">
174 <has_text_matching expression="chr&#09;22102.+"/> 174 <has_text_matching expression="chr&#09;22102.+"/>
175 </assert_contents> 175 </assert_contents>
176 </output> 176 </output>
177 <output name="out_db"> 177 <output name="out_db">
178 <assert_contents> 178 <assert_contents>
179 <has_size value="5410304"/> 179 <has_size value="5416960" delta="10000"/>
180 </assert_contents> 180 </assert_contents>
181 </output> 181 </output>
182 <output name="out_log"> 182 <output name="out_log">
183 <assert_contents> 183 <assert_contents>
184 <has_n_lines n="31"/> 184 <has_n_lines n="31"/>