Tag: wildcard

Snakemake: Expand Incorrectly Defining Output Folders

directory-structure expand python snakemake wildcard

I have a workaround based upon this discussion, so I don’t think this problem is especially urgent. However, before applying code to a larger number of folders, I would like to see if I can better understand what went wrong in an earlier version of the code. Here is the Snakemake code: I think that the problem is that the

How to use wildcards in keyword wildcard_constraints

python snakemake wildcard wildcard-expansion

For example, I have the following wildcards. I am trying to contrain my dataset with my group. for example, I want to create A1/file.A.txt A2/file.A.txt A3/file.A.txt B1/file.B.txt … I wrote a following rule hoping to make that possible oops, I got the error It seems like that the {group} is regarded as a list to pass in the keywords wildcard_constraints.