Appending "command_extra" for looper runp appears to be broken

[donaldcampbelljr]

test_cmd_extra_project in test_run.py:

Appending "command_extra" args shows up in the submission scripts when using looper run but not when using looper runp

[donaldcampbelljr]

I believe this may have been opened in error. I cannot reproduce it, and the test seems to be working fine for both run and runp commands. Closing for now.

[donaldcampbelljr]

I found the broken test and realized that I was not modifying the project config in a way that the submission conductor was expecting.

For project level (runp command):

name: looper_advanced_test
pep_version: 2.0.0
sample_table: annotation_sheet.csv
looper:
  command_extra: string

For sample levels (runcommand):

name: looper_advanced_test
pep_version: 2.0.0
sample_table: annotation_sheet.csv
sample_modifiers:
  append:
    command_extra: string
    attr: val

Leaving this as closed.