Mercurial > repos > devteam > data_manager_sam_fasta_index_builder
comparison data_manager/data_manager_sam_fasta_index_builder.xml @ 0:d6b6db69d9bf draft
Uploaded data manager definition.
| author | devteam |
|---|---|
| date | Thu, 27 Mar 2014 14:15:02 -0400 |
| parents | |
| children | cf875cbe2df4 |
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| -1:000000000000 | 0:d6b6db69d9bf |
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| 1 <tool id="sam_fasta_index_builder" name="SAM FASTA index" tool_type="manage_data" version="0.0.1"> | |
| 2 <description>builder</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="0.1.18">samtools</requirement> | |
| 5 </requirements> | |
| 6 <command interpreter="python">data_manager_sam_fasta_index_builder.py "${out_file}" --fasta_filename "${all_fasta_source.fields.path}" --fasta_dbkey "${all_fasta_source.fields.dbkey}" --fasta_description "${all_fasta_source.fields.name}" --data_table_name "fasta_indexes"</command> | |
| 7 <inputs> | |
| 8 <param name="all_fasta_source" type="select" label="Source FASTA Sequence"> | |
| 9 <options from_data_table="all_fasta"/> | |
| 10 </param> | |
| 11 <param type="text" name="sequence_name" value="" label="Name of sequence" /> | |
| 12 <param type="text" name="sequence_id" value="" label="ID for sequence" /> | |
| 13 </inputs> | |
| 14 <outputs> | |
| 15 <data name="out_file" format="data_manager_json"/> | |
| 16 </outputs> | |
| 17 | |
| 18 <help> | |
| 19 | |
| 20 .. class:: infomark | |
| 21 | |
| 22 **Notice:** If you leave name, description, or id blank, it will be generated automatically. | |
| 23 | |
| 24 </help> | |
| 25 </tool> |