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Add abspath value translation to data_manager_conf.xml.
author Daniel Blankenberg <dan@bx.psu.edu>
date Tue, 04 Jun 2013 14:57:17 -0400
parents 11e84434ae70
children
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1:11e84434ae70 2:fe6508204acc
11 <move type="directory" relativize_symlinks="True"> 11 <move type="directory" relativize_symlinks="True">
12 <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base --> 12 <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base -->
13 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/bwa_index/${value}</target> 13 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/bwa_index/${value}</target>
14 </move> 14 </move>
15 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/bwa_index/${value}/${path}</value_translation> 15 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/bwa_index/${value}/${path}</value_translation>
16 <value_translation type="function">abspath</value_translation>
16 </column> 17 </column>
17 </output> 18 </output>
18 </data_table> 19 </data_table>
19 </data_manager> 20 </data_manager>
20 21
28 <move type="directory" relativize_symlinks="True"> 29 <move type="directory" relativize_symlinks="True">
29 <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base --> 30 <!-- <source>${path}</source>--> <!-- out_file.extra_files_path is used as base by default --> <!-- if no source, eg for type=directory, then refers to base -->
30 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/bwa_index/${value}/color</target> <!-- confirm this as preferred location --> 31 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/bwa_index/${value}/color</target> <!-- confirm this as preferred location -->
31 </move> 32 </move>
32 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/bwa_index/${value}/color/${path}</value_translation> 33 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/bwa_index/${value}/color/${path}</value_translation>
34 <value_translation type="function">abspath</value_translation>
33 </column> 35 </column>
34 </output> 36 </output>
35 </data_table> 37 </data_table>
36 </data_manager> 38 </data_manager>
37 39