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bitshred-python

Bitshred python implementation

Build (Docker)

docker build . -t nino:bitshred

Usage (Docker)

docker run --rm --volume <input_folder>:/input:ro --volume <output_folder>:/db --entrypoint <entrypoint>/src/bitshred nino:bitshred <options>
  • input_folder: folder containing the samples
  • output_folder: folder where the results of the tool will be placed in
  • entrypoint: version of the tool to run: only supported either bitshred_single or bitshred_single_steps or bitshred_openmp
  • options: command line options required by the tool, specified between double quotes. NB: if you have to specify the input folder, you must use /input (any other path is not valid) and it corresponds to the value specified in input_folder. Same reasoning for the output folder, whose path to use is /db

Example:

docker run --rm --volume "/home/nino/samples/":/input:ro --volume "/home/nino/output":/db --entrypoint /bitshred_single/src/bitshred nino:bitshred "-b" "/input/" "-t" "0.60"