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Paket: python3-pbcommand (2.1.1+git20201023.cc0ed3d-1)

common command-line interface for Pacific Biosciences analysis modules

To integrate with the pbsmrtpipe workflow engine, one must to be able to generate a Tool Contract and to be able to run from a Resolved Tool Contract. A Tool Contract contains the metadata of the exe, such as the file types of inputs, outputs and options. There are two principal use cases, first wrapping/calling Python functions that have been defined in external Python 3 packages, or scripts. Second, creating a CLI tool that supports emitting tool contracts, running resolved tool contracts and complete argparse-style CLI.

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  • dep: python3
    interactive high-level object-oriented language (default python3 version)
  • dep: python3-avro
    Apache Avro serialization system (Python 3 library)
  • dep: python3-iso8601
    Python module to parse ISO 8601 dates - Python 3.x
  • dep: python3-numpy
    Fast array facility to the Python 3 language
  • dep: python3-requests
    elegant and simple HTTP library for Python3, built for human beings
  • dep: python3-tz
    Python3 version of the Olson timezone database
  • rec: python3-pbcore
    Python 3 library for processing PacBio data files

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