Mercurial > repos > ieguinoa > data_manager_salmon_index_builder
comparison data_manager_conf.xml @ 1:c5dea2080109 draft
Uploaded
| author | ieguinoa |
|---|---|
| date | Tue, 14 Aug 2018 11:19:49 -0400 |
| parents | 6cd60ba8a842 |
| children | 3888ec1918d0 |
comparison
equal
deleted
inserted
replaced
| 0:6cd60ba8a842 | 1:c5dea2080109 |
|---|---|
| 1 <?xml version="1.0"?> | 1 <?xml version="1.0"?> |
| 2 <data_managers> | 2 <data_managers> |
| 3 <data_manager tool_file="data_manager/data_manager_fetch_gff.xml" id="data_manager_fetch_gff"> | 3 <data_manager tool_file="data_manager/salmon_index_builder.xml" id="salmon_index_builder" version="0.1"> |
| 4 <data_table name="all_gff"> | 4 <data_table name="salmon_indexes"> |
| 5 <output> | 5 <output> |
| 6 <column name="value" /> | 6 <column name="value" /> |
| 7 <column name="dbkey" /> | 7 <column name="dbkey" /> |
| 8 <column name="name" /> | 8 <column name="name" /> |
| 9 <column name="path" output_ref="out_file"> | 9 <column name="path" output_ref="out_file" > |
| 10 <move type="file"> | 10 <move type="directory" relativize_symlinks="True"> |
| 11 <source>${path}</source> | 11 <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base --> |
| 12 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/gff/${path}</target> | 12 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/salmon_index/${value}</target> |
| 13 </move> | 13 </move> |
| 14 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/gff/${path}</value_translation> | 14 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/salmon_index/${value}/${path}</value_translation> |
| 15 <value_translation type="function">abspath</value_translation> | |
| 16 </column> | |
| 17 </output> | |
| 18 </data_table> | |
| 19 <data_table name="representative_gff"> | |
| 20 <output> | |
| 21 <column name="value" /> | |
| 22 <column name="dbkey" /> | |
| 23 <column name="name" /> | |
| 24 <column name="path" output_ref="out_file"> | |
| 25 <move type="file"> | |
| 26 <source>${path}</source> | |
| 27 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/representative_gff/${path}</target> | |
| 28 </move> | |
| 29 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/representative_gff/${path}</value_translation> | |
| 30 <value_translation type="function">abspath</value_translation> | 15 <value_translation type="function">abspath</value_translation> |
| 31 </column> | 16 </column> |
| 32 </output> | 17 </output> |
| 33 </data_table> | 18 </data_table> |
| 34 </data_manager> | 19 </data_manager> |