Mercurial > repos > public-health-bioinformatics > antigenic_site_extraction
comparison antigenic_site_extraction.xml @ 0:a1b46e339580 draft default tip
planemo upload for repository https://github.com/Public-Health-Bioinformatics/flu_classification_suite commit b96b6e06f6eaa6ae8ef4c24630dbb72a4aed7dbe
| author | public-health-bioinformatics |
|---|---|
| date | Thu, 04 Jul 2019 19:36:38 -0400 |
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| -1:000000000000 | 0:a1b46e339580 |
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| 1 <tool id="antigenic_site_extraction" name="Antigenic Site Extraction" version="0.0.1"> | |
| 2 <requirements> | |
| 3 <requirement type="package" version="1.70">biopython</requirement> | |
| 4 </requirements> | |
| 5 <command detect_errors="exit_code"><![CDATA[ | |
| 6 python $__tool_directory__/antigenic_site_extraction.py | |
| 7 '$input_fasta' | |
| 8 '$index_array' | |
| 9 '$output_file' | |
| 10 #if $csv | |
| 11 -c | |
| 12 #end if | |
| 13 ]]></command> | |
| 14 <inputs> | |
| 15 <param name="input_fasta" format="fasta" type="data" /> | |
| 16 <param name="index_array" format="csv" type="data" /> | |
| 17 <param name="csv" type="boolean" label="Output to csv ?" /> | |
| 18 </inputs> | |
| 19 <outputs> | |
| 20 <data format="fasta" name="output_file"> | |
| 21 <change_format> | |
| 22 <when input="csv" value="true" format="csv" /> | |
| 23 </change_format> | |
| 24 </data> | |
| 25 </outputs> | |
| 26 <tests> | |
| 27 <test> | |
| 28 <param name="input_fasta" value="14_H3_aa_seqs_aligned.fasta" /> | |
| 29 <param name="index_array" value="FluA_H3_antigenic_aa_indices.csv" /> | |
| 30 <output name="output_file" value="output.fasta" /> | |
| 31 </test> | |
| 32 </tests> | |
| 33 <help><![CDATA[ | |
| 34 Upload a fasta file containing full length flu sequences and an index array csv file. | |
| 35 ]]></help> | |
| 36 <citations> | |
| 37 </citations> | |
| 38 </tool> |