gautomatch package

Module contents

class gautomatch.Plugin[source]

Bases: pwem.Plugin

classmethod defineBinaries(env)[source]

Define required binaries in the given Environment.

classmethod getEnviron()[source]

Return the environ settings to run Gautomatch programs.

classmethod getProgram()[source]

Return the program binary that will be used.

classmethod runGautomatch(micNameList, refStack, workDir, extraArgs, env=None, runJob=None)[source]

Run Gautomatch with the given parameters. If micrographs are not .mrc, they will be converted. If runJob=None, it will use pwutils.runJob.