pyseg package

Subpackages

• pyseg.protocols package
  • Submodules
    • pyseg.protocols.protocol_2d_classification module
    • pyseg.protocols.protocol_fils module
    • pyseg.protocols.protocol_graphs module
    • pyseg.protocols.protocol_picking module
    • pyseg.protocols.protocol_post_rec_particles module
    • pyseg.protocols.protocol_pre_seg module
  • Module contents
• pyseg.viewers package
  • Submodules
    • pyseg.viewers.vesicle_graphs_fils_viewer module
    • pyseg.viewers.vesicle_visualization_tree module
    • pyseg.viewers.viewers_data module
  • Module contents

Submodules

• pyseg.bibtex module
• pyseg.constants module
• pyseg.convert module
• pyseg.utils module

Module contents

class pyseg.Plugin

Bases: pwem.Plugin

classmethod defineBinaries(env)

Define required binaries in the given Environment.

classmethod getEnviron()

Setup the environment variables needed to launch pyseg.

classmethod getPysegEnvActivation()

classmethod runPySeg(protocol, program, args, cwd=None)

Run pySeg command from a given protocol.