deepfinder package

Subpackages

• deepfinder.convert package
  • Module contents
• deepfinder.protocols package
  • Submodules
    • deepfinder.protocols.protocol_annotation module
    • deepfinder.protocols.protocol_base module
    • deepfinder.protocols.protocol_cluster module
    • deepfinder.protocols.protocol_import_coordinates module
    • deepfinder.protocols.protocol_load_training_model module
    • deepfinder.protocols.protocol_segment module
    • deepfinder.protocols.protocol_target_generation module
    • deepfinder.protocols.protocol_train module
    • deepfinder.protocols.protocol_utilities module
  • Module contents
• deepfinder.viewers package
  • Submodules
    • deepfinder.viewers.particle_annotator_tomo_viewer module
    • deepfinder.viewers.particle_annotator_tree module
    • deepfinder.viewers.viewer_deepfinder module
  • Module contents

Submodules

• deepfinder.bibtex module
• deepfinder.constants module
• deepfinder.objects module

Module contents

class deepfinder.Plugin

Bases: pwem.Plugin

classmethod addDeepFinderPackage(env, version)

classmethod defineBinaries(env)

Define required binaries in the given Environment.

classmethod getDeepFinderCmd(program)

Composes a DeepFinder command for a given program.

classmethod getDeepFinderEnvActivation()

classmethod getDeepFinderProgram(program)

classmethod getDependencies()

classmethod getEnviron(gpuId='0')

Setup the environment variables needed to launch deepfinder.

classmethod runDeepFinder(protocol, program, args, cwd=None, gpuId='0')