sphire package

Module contents

This package contains the protocols and data for crYOLO

class sphire.Plugin[source]

Bases: pwem.Plugin

classmethod addCryoloPackage(env, version, default=False, useCpu=False)[source]
classmethod defineBinaries(env)[source]

Define required binaries in the given Environment.

classmethod getCryoloEnvActivation(useCpu=False)[source]
classmethod getCryoloGeneralModel()[source]
classmethod getCryoloGeneralNNModel()[source]
classmethod getCryoloGeneralNSModel()[source]
classmethod getDependencies()[source]
classmethod getEnviron()[source]

Setup the environment variables needed to launch sphire.

classmethod getJanniGeneralModel()[source]
classmethod runCryolo(protocol, program, args, cwd=None, useCpu=False)[source]

Run crYOLO command from a given protocol.