Dear All, I am trying to add a new tool in Galaxy and I have the following problem. Let me explain a simplified example. Let's imagine that my script works from CLI as follows: python script.py --input "input-file" --pattern "output-pattern" After processing "input-file", the script writes several output files and their name is given according to "output-pattern". The number of output files depends on the content of "input-file". The output files are written to the current working directory where script.py is located. In the simplest scenario, I get only one output file in the working directory. My problem is that I would like to see the output files in Galaxy's history without modifying the CLI interface. To solve this problem, I have looked at the wiki page: https://wiki.galaxyproject.org/Admin/Tools/Multiple%20Output%20Files#Number_... and the email here: http://dev.list.galaxyproject.org/Multiple-output-files-do-not-appear-in-his... However, I think that mine is a different scenario. I do not want to add new output parameters in the CLI. I would like Galaxy to bring these output files to my history without modifying the CLI options, is that possible? Many thanks in advance for your help! Best regards, Sebastian.