Biokepi API : Biokepi_environment_setup.Tool

let fastqc =
  let url =
    "http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.11.5.zip"
  in
  let binary = "fastqc" in
  let binary_path path = path // binary in
  let init_program ~path =
    KEDSL.Program.(shf "export FASTQC_BIN=%s" (binary_path path))
  in
  Installable_tool.make Machine.Tool.Default.fastqc ~url
    ~witness:(witness_file binary)
    ~install_program:KEDSL.Program.(fun ~path ->
        shf "cp -r * %s" path
        && shf "chmod +x %s" (binary_path path)
      )
    ~init_program
    ~unarchived_directory:"FastQC"