imod package

Module contents

class imod.Plugin[source]

Bases: pwem.Plugin

classmethod defineBinaries(env)[source]

Define required binaries in the given Environment.

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

Setup the environment variables needed to launch programs.

classmethod getImodCmd(program)[source]

Composes an IMOD command for a given program.

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

Run IMOD command from a given protocol.

classmethod validateInstallation()[source]

Check if imod is in the path


This function allows to call imod outside of this plugin.