Mercurial > repos > petr-novak > profrep
comparison extract_data_for_profrep.xml @ 0:a5f1638b73be draft
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| author | petr-novak |
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| date | Wed, 26 Jun 2019 08:01:42 -0400 |
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| -1:000000000000 | 0:a5f1638b73be |
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| 1 <tool id="extract_data" name="Extract Data For ProfRep" version="1.0.0"> | |
| 2 <requirements><requirement type="package" version="1.0.0">profrep</requirement></requirements> | |
| 3 <description> Extract data for ProfRep from RepaetExplorer </description> | |
| 4 <command> | |
| 5 python3 ${__tool_directory__}/extract_data_for_profrep.py --re_archive ${re_archive} --output_cls ${output_cls} --output_reads_all ${output_reads_all} --output_annotation ${output_annotation} | |
| 6 </command> | |
| 7 <inputs> | |
| 8 <param format="zip" type="data" name="re_archive" label="RepeatExplorer output data archive" help="" /> | |
| 9 </inputs> | |
| 10 | |
| 11 <outputs> | |
| 12 <data format="fasta" name="output_cls" label="Output cls file of all clusters from ${re_archive.hid} archive" /> | |
| 13 <data format="fasta" name="output_reads_all" label="Output file of all reads sequences from ${re_archive.hid} archive" /> | |
| 14 <data format="tabular" name="output_annotation" label="Output file of clusters annotation from ${re_archive.hid} archive" /> | |
| 15 </outputs> | |
| 16 | |
| 17 <help> | |
| 18 | |
| 19 **WHAT IT DOES** | |
| 20 | |
| 21 This tool will extract all the necessary input data that are needed for ProfRep from RE output archive. | |
| 22 Use if the species is not already provided in our internal database (ProfRep drop-down menu -> Choose existing annotation dataset) | |
| 23 | |
| 24 | |
| 25 </help> | |
| 26 </tool> |