Mercurial > repos > iuc > data_manager_bowtie_index_builder
comparison data_manager/bowtie_index_builder.xml @ 0:0a0c648498e2 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_bowtie_index_builder commit 418f745190d77983c3fb09badb6298493bccf4e0
| author | iuc |
|---|---|
| date | Tue, 05 Jan 2016 12:57:11 -0500 |
| parents | |
| children | 086edfff112b |
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| -1:000000000000 | 0:0a0c648498e2 |
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| 1 <tool id="bowtie_index_builder_data_manager" name="Bowtie index" tool_type="manage_data" version="0.0.2"> | |
| 2 <description>builder</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="0.12.7">bowtie</requirement> | |
| 5 </requirements> | |
| 6 <command interpreter="python"> | |
| 7 bowtie_index_builder.py | |
| 8 "${out_file}" | |
| 9 --fasta_filename "${all_fasta_source.fields.path}" | |
| 10 --fasta_dbkey "${all_fasta_source.fields.dbkey}" | |
| 11 --fasta_description "${all_fasta_source.fields.name}" | |
| 12 --data_table_name "bowtie_indexes" | |
| 13 </command> | |
| 14 <inputs> | |
| 15 <param name="all_fasta_source" type="select" label="Source FASTA Sequence"> | |
| 16 <options from_data_table="all_fasta"/> | |
| 17 </param> | |
| 18 <param type="text" name="sequence_name" value="" label="Name of sequence" help="Leave blank to use all_fasta name" /> | |
| 19 <param type="text" name="sequence_id" value="" label="ID for sequence" help="Leave blank to use all_fasta id "/> | |
| 20 </inputs> | |
| 21 <outputs> | |
| 22 <data name="out_file" format="data_manager_json"/> | |
| 23 </outputs> | |
| 24 <help> | |
| 25 | |
| 26 .. class:: infomark | |
| 27 | |
| 28 **Notice:** If you leave name, description, or id blank, it will be generated automatically. | |
| 29 | |
| 30 </help> | |
| 31 </tool> |