Mercurial > repos > devteam > data_manager_picard_index_builder
diff data_manager/picard_index_builder.xml @ 0:00491eabe22b draft
planemo upload commit e4c87b7392ace0d6ac5ba2d926e1dd176f987985
author | devteam |
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date | Wed, 27 May 2015 15:13:19 -0400 |
parents | |
children | dc28cd6a1d44 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/data_manager/picard_index_builder.xml Wed May 27 15:13:19 2015 -0400 @@ -0,0 +1,29 @@ +<tool id="picard_index_builder_data_manager" name="Picard index" tool_type="manage_data" version="0.0.1"> + <description>builder</description> + <requirements> + <requirement type="package" version="1.56.0">picard</requirement> + </requirements> + <command interpreter="python">picard_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 "picard_indexes"</command> + <stdio> + <exit_code range=":-1" /> + <exit_code range="1:" /> + </stdio> + <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>