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thkuo / seq2geno

Computational pipeline for genomic features of bacterial population
GNU General Public License v3.0
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load the local environment #31

Open thkuo opened 6 years ago

thkuo commented 6 years ago

Environment installation directory

thkuo commented 6 years ago

rename the environments

thkuo commented 5 years ago

built-in function to activate an environment by specifying the yaml file https://snakemake.readthedocs.io/en/stable/snakefiles/deployment.html#integrated-package-management

thkuo commented 5 years ago
  1. create a simple environment which covers what stampy and roary needs
  2. export it to an yaml file
  3. activate it with snakemake, so it should have a folder under .snakemake
  4. move the custom packages (i.e. stampy and modified roary) to the .snakemake/bin
  5. edit the environmental files accordingly