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Hi, I am trying to run the Extended tutorial. After following all the steps, I used looper to run a project-level analysis with the given command. However, I noticed that in the tutorial, looper runp is sometimes followed by the --looper-config parameter (which doesn’t seem to exist in my case—my looper version is 2.0.1), sometimes by the -c parameter (which gives the error looper.exceptions.MisconfigurationException: Looper dotfile (examples/test_project/tutorial_refgenie.yaml) is missing 'pep_config' key), and other times directly followed by the configuration file without any parameter (resulting in looper: error: unrecognized arguments: examples/test_project/tutorial_refgenie.yaml).
It seems that none of these approaches work in my case. Could you clarify the correct way to run the command? Thanks!
The text was updated successfully, but these errors were encountered:
Hi, I am trying to run the Extended tutorial. After following all the steps, I used looper to run a project-level analysis with the given command. However, I noticed that in the tutorial, looper runp is sometimes followed by the --looper-config parameter (which doesn’t seem to exist in my case—my looper version is 2.0.1), sometimes by the -c parameter (which gives the error looper.exceptions.MisconfigurationException: Looper dotfile (examples/test_project/tutorial_refgenie.yaml) is missing 'pep_config' key), and other times directly followed by the configuration file without any parameter (resulting in looper: error: unrecognized arguments: examples/test_project/tutorial_refgenie.yaml).
It seems that none of these approaches work in my case. Could you clarify the correct way to run the command? Thanks!
The text was updated successfully, but these errors were encountered: