Can you help me to understand the output of snakefmt when it returns an error?

[SilasK]

I got erros like this one:

snakefmt.exceptions.InvalidPython: Got error:

Cannot parse: 2:0:         else:

while formatting code with black.

I don't know to which else statement the error relates.

[SilasK]

By the way is there something wrong with having if, else statements around rules. The code works.

[bricoletc]

Could you paste a minimum reproducible example, or your Snakefile?

[SilasK]

here my example, I know it's not minimum

wget https://raw.githubusercontent.com/metagenome-atlas/atlas/1e01601f514ae41c85e08d1d1b2895c24b407180/atlas/rules/assemble.smk

snakefmt assemble.smk

I found the error in my file.
The error was related due to a nested snakemake rule definition around line 243.

Probably double-nested rule definitions are not recommended.

[siebrenf]

Found it too, the error occurs with an elif or else statement after a rule inside the if:

if True:

    rule break_snakefmt_044:
        shell: ""

else:
    pass

Error:

snakefmt.exceptions.InvalidPython: Got error:
'''
Cannot parse: 1:0: else:
'''
while formatting code with black.