Hi,
As you've mentioned in your attached screenshots, there were conversion errors during the conversion process.
These conversion errors (related to objects conversion or policy conversion) may be viewed and analyzed in the conversion reports generated by the tool.
When the conversion is completed, there is a Conversion Results pane at the bottom of the form, with links into original configuration file and converted policy previews.
Please go to these links and analyze the results. After all errors are fixed and your Juniper XML configuration file is updated, run the tool again.
Only then you can copy the bash script files to your management server and run.
From your screenshots I see that you have errors related to network groups and sevice groups conversion.
Click on "Original file" link on the Conversion Results pane, and see what happened.
BTW, at the bottom of the tool's form there is a link to the SK of this tool, with detailed explanation how to use this tool.
Robert.