Mercurial > repos > devteam > data_manager_sam_fasta_index_builder
annotate data_manager/data_manager_sam_fasta_index_builder.xml @ 1:cf875cbe2df4 draft
Uploaded updated data manager that specifies samtools 0.1.19.
| author | devteam |
|---|---|
| date | Thu, 27 Mar 2014 15:08:42 -0400 |
| parents | d6b6db69d9bf |
| children | 1f54e98616af |
| rev | line source |
|---|---|
|
1
cf875cbe2df4
Uploaded updated data manager that specifies samtools 0.1.19.
devteam
parents:
0
diff
changeset
|
1 <tool id="sam_fasta_index_builder" name="SAM FASTA index" tool_type="manage_data" version="0.0.2"> |
| 0 | 2 <description>builder</description> |
| 3 <requirements> | |
|
1
cf875cbe2df4
Uploaded updated data manager that specifies samtools 0.1.19.
devteam
parents:
0
diff
changeset
|
4 <requirement type="package" version="0.1.19">samtools</requirement> |
| 0 | 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> |