Snakemake: Problem with subdirectories in Windows

[jnnr]

This bug has been described here already: snakemake/snakemake#46

The current workaround described in pypsa-eur (https://pypsa-eur.readthedocs.io/en/latest/tutorial.html?highlight=windows#how-to-use-the-snakemake-rules) is to run snakemake with the flag --keep-target-files.

TODO: Add this to oemof-B3's docs.

[juliusmeier]

Proposal for the documentation:

When running snakemake with outputfiles in subfolders on Windows with
snakemake -j<NUMBER_OF_CPU_CORES>
a MissingRuleException is raised. The process is unable to specify the output files in subfolders. This bug has been descibed here snakemake/snakemake#46
The current workaround described in pypsa-eur (https://pypsa-eur.readthedocs.io/en/latest/tutorial.html?highlight=windows#how-to-use-the-snakemake-rules) is to run snakemake with the flag --keep-target-files to the command.
snakemake -j<NUMBER_OF_CPU_CORES> --keep-target-files

[jnnr]

This is documented in the docs now.