Mercurial > repos > devteam > data_manager_sam_fasta_index_builder
view data_manager/data_manager_sam_fasta_index_builder.xml @ 1:cf875cbe2df4 draft
Uploaded updated data manager that specifies samtools 0.1.19.
author | devteam |
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date | Thu, 27 Mar 2014 15:08:42 -0400 |
parents | d6b6db69d9bf |
children | 1f54e98616af |
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<tool id="sam_fasta_index_builder" name="SAM FASTA index" tool_type="manage_data" version="0.0.2"> <description>builder</description> <requirements> <requirement type="package" version="0.1.19">samtools</requirement> </requirements> <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> <inputs> <param name="all_fasta_source" type="select" label="Source FASTA Sequence"> <options from_data_table="all_fasta"/> </param> <param type="text" name="sequence_name" value="" label="Name of sequence" /> <param type="text" name="sequence_id" value="" label="ID for sequence" /> </inputs> <outputs> <data name="out_file" format="data_manager_json"/> </outputs> <help> .. class:: infomark **Notice:** If you leave name, description, or id blank, it will be generated automatically. </help> </tool>