lpagie / repo1 Goto Github PK

This repo is setup to illustrate a problem (?) with using snakemake modules from github

Clone this repo locally and run snakemake from a directory above the cloned repo, using the wrapper run.sh

This snakefile will 'import' lpagie/repo2, which in current form only contains outcommented rules and a rule which is (supposedly) not meaningful for repo1.
Running the snakemake of repo1 will not generate the output specified by rule 'all' (output/final) but instead output generated by rule 'non-sense' ....

When the import of the repo2 module is outcommented from repo1/snakefile_1.smk, running the snakemake generates the expected outcome.