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Questions - intake

Relative paths in config.yaml for Snakefile

How can I use relative paths in my configuration file so that users do not need to change USER in the paths for output directories? I have this: config.yml proj_name: H1N1_rhesus contact: email: use...
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Noah_Seagull

python

linux

yaml

snakemake

intake

Votes: 0

Answers: 2

Latest Answer

Another option is to use intake for defining catalogues of data. This allows references to environmental variables, for example: sources: 01-preprocess: args: url: "/home/{{env(USER)}...
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SultanOrazbayev

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