Mercurial > repos > sanbi-uwc > data_manager_rnastar_index_builder
changeset 11:6096741e8d83 draft
planemo upload for repository https://github.com/pvanheus/data_manager_rnastar_index_builder commit e1dfc6180dbf3ae2843b1837a0a07c8ba8b3f314
| author | sanbi-uwc |
|---|---|
| date | Mon, 15 Feb 2016 05:03:07 -0500 |
| parents | 61084615bb57 |
| children | a42dbab7917c |
| files | data_manager/rnastar_index_builder.py data_manager/rnastar_index_builder.xml data_manager_conf.xml tool_data_table_conf.xml.sample |
| diffstat | 4 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/data_manager/rnastar_index_builder.py Mon Feb 15 03:21:58 2016 -0500 +++ b/data_manager/rnastar_index_builder.py Mon Feb 15 05:03:07 2016 -0500 @@ -56,7 +56,7 @@ parser.add_argument('--fasta_filename') parser.add_argument('--fasta_dbkey') parser.add_argument('--fasta_description', default=None) -parser.add_argument('--data_table_name', default='rnastar_indexes') +parser.add_argument('--data_table_name', default='rnastar_index') args = parser.parse_args() filename = args.output_filename
--- a/data_manager/rnastar_index_builder.xml Mon Feb 15 03:21:58 2016 -0500 +++ b/data_manager/rnastar_index_builder.xml Mon Feb 15 05:03:07 2016 -0500 @@ -4,7 +4,7 @@ <requirements> <requirement type="package" version="2.4.0d">rnastar</requirement> </requirements> - <command interpreter="python">rnastar_index_builder.py "${out_file}" --fasta_filename "${input1.fields.path}" --fasta_dbkey "${input1.fields.dbkey}" --fasta_description "${input1.fields.name}" --data_table_name "rnastar_indexes"</command> + <command interpreter="python">rnastar_index_builder.py "${out_file}" --fasta_filename "${input1.fields.path}" --fasta_dbkey "${input1.fields.dbkey}" --fasta_description "${input1.fields.name}" --data_table_name "rnastar_index"</command> <inputs> <param name="input1" type="select" label="Genome to index(FASTA format)"> <options from_data_table="all_fasta"/>
--- a/data_manager_conf.xml Mon Feb 15 03:21:58 2016 -0500 +++ b/data_manager_conf.xml Mon Feb 15 05:03:07 2016 -0500 @@ -1,7 +1,7 @@ <?xml version="1.0" encoding="utf-8" ?> <data_managers> <data_manager tool_file="data_manager/rnastar_index_builder.xml" id="rnastar_index_builder" version="0.0.1"> - <data_table name="rnastar_indexes"> + <data_table name="rnastar_index"> <output> <column name="value" /> <column name="dbkey" />
--- a/tool_data_table_conf.xml.sample Mon Feb 15 03:21:58 2016 -0500 +++ b/tool_data_table_conf.xml.sample Mon Feb 15 05:03:07 2016 -0500 @@ -1,5 +1,5 @@ <tables> - <table name="rnastar_indexes" comment_char="#"> + <table name="rnastar_index" comment_char="#"> <columns>value, dbkey, name, path</columns> <file path="tool-data/rnastar_index.loc" /> </table>