topaz package

Module contents

class topaz.Plugin[source]

Bases: pwem.Plugin

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

Define required binaries in the given Environment.

classmethod getDependencies()[source]
classmethod getEnviron()[source]

Setup the environment variables needed to launch topaz.

classmethod getTopazEnvActivation()[source]

Remove the scipion home and activate the conda topaz environment.

classmethod runTopaz(protocol, program, args, cwd=None)[source]

Run Topaz command from a given protocol.