spider package

Subpackages

• spider.protocols package
  • Submodules
    • spider.protocols.protocol_align_apsr module
    • spider.protocols.protocol_align_base module
    • spider.protocols.protocol_align_pairwise module
    • spider.protocols.protocol_base module
    • spider.protocols.protocol_ca_pca module
    • spider.protocols.protocol_classify_base module
    • spider.protocols.protocol_classify_diday module
    • spider.protocols.protocol_classify_kmeans module
    • spider.protocols.protocol_classify_ward module
    • spider.protocols.protocol_custommask module
    • spider.protocols.protocol_filters module
    • spider.protocols.protocol_projmatch module
    • spider.protocols.protocol_reconstruct module
  • Module contents
• spider.viewers package
  • Submodules
    • spider.viewers.viewer module
    • spider.viewers.viewer_capca module
    • spider.viewers.viewer_classify module
    • spider.viewers.viewer_refinement module
  • Module contents

Submodules

• spider.bibtex module
• spider.constants module
• spider.convert module
• spider.objects module
• spider.utils module
• spider.wizards module

Module contents

class spider.Plugin

Bases: pwem.Plugin

classmethod defineBinaries(env)

Define required binaries in the given Environment.

classmethod getEnviron()

Load the environment variables needed for Spider. If SPIDER_HOME is defined, the bin, man and proc folders will be defined from it. If not, each of them should be defined separately.

classmethod getProgram(mpi=False)

classmethod getScript(*paths)

Return the script that will be used.