gautomatch package

Subpackages

• gautomatch.protocols package
  • Submodules
    • gautomatch.protocols.protocol_gautomatch module
  • Module contents

Submodules

• gautomatch.bibtex module
• gautomatch.constants module
• gautomatch.convert module
• gautomatch.run_gautomatch module
• gautomatch.viewers module
• gautomatch.wizards module

Module contents

class gautomatch.Plugin

Bases: pwem.Plugin

classmethod defineBinaries(env)

Define required binaries in the given Environment.

classmethod getEnviron()

Return the environ settings to run Gautomatch programs.

classmethod getProgram()

Return the program binary that will be used.

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

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