Mercurial > repos > iuc > nanocompore_sampcomp
comparison sampcomp.xml @ 1:c43f4b80f5a9 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/nanocompore commit 652a872061324ba1073bfa286777ffeefa352671"
| author | iuc |
|---|---|
| date | Mon, 08 Jun 2020 14:36:18 -0400 |
| parents | 557cf45ff2c8 |
| children | 25abc2c72ff9 |
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| 0:557cf45ff2c8 | 1:c43f4b80f5a9 |
|---|---|
| 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	22102.+"/> | 129 <has_text_matching expression="chr	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	22102.+"/> | 174 <has_text_matching expression="chr	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"/> |