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Draft implementation of snakemake #1

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Draft implementation of snakemake #1

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@davide-f davide-f commented May 29, 2022

In this PR, a draft implementation of a snakemake workflow is proposed.

In particular, the following tasks have been developed and tested:

  1. Creation of a stable environment compatible with snakemake (linux only)
  2. Development of a snakemake workflow
  3. Implementation of rules for:
  • Install CycleGan
  • downloading data from gdrive
  • Simple train and test with cyclegan

A sample snakemake execution to test the above is:

snakemake -j1 datasets/cycletestduke2bangladesh

The above command will launch all the mentioned rules specified above.
This is a draft version and obviously needs improvements, yet I think it can be a solid base

In my opinion, it is missing:

  • add a standardized method to generate options and sensitivities
  • add additional workflows (e.g. using detectron2 and the other features we are using)
  • add a methodology to manage multiple gpus

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