Mercurial > repos > pimarin > data_manager_bakta

diff data_manager/bakta_build_database.xml @ 4:68dd65d2985d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_bakta commit 2fa443ab6c1b3513a585123edd2cdf864e5123ae-dirty
author pimarin
date Thu, 27 Oct 2022 15:00:34 +0000
parents decc1723cf97
children b475dd46612e
line wrap: on
line diff
--- a/data_manager/bakta_build_database.xml	Thu Oct 27 14:51:48 2022 +0000
+++ b/data_manager/bakta_build_database.xml	Thu Oct 27 15:00:34 2022 +0000
@@ -8,8 +8,10 @@
     <expand macro="version_command"/>
 
     <command detect_errors="aggressive"><![CDATA[
+        mkdir ./output_file &&
+        ln -s '$output_file' '/output_file/json_output' &&
         python '$__tool_directory__/bakta_build_database.py'
-        '$output_file'
+        '/output_file/json_output'
         --database_version '$database_select'
     ]]></command>
     <inputs>
@@ -24,7 +26,7 @@
         </param>
     </inputs>
     <outputs>
-        <data name="output_file" format="data_manager_json"/>
+        <data name="output_file" format="data_manager_json" from_work_dir="/output_file/json_output"/>
     </outputs>
     <tests>
         <!-- Test download -->