xmipptomo package

Subpackages

• xmipptomo.protocols package
  • Submodules
    • xmipptomo.protocols.protocol_align_transform module
    • xmipptomo.protocols.protocol_applyAlignmentTS module
    • xmipptomo.protocols.protocol_apply_alignment_subtomo module
    • xmipptomo.protocols.protocol_cltomo module
    • xmipptomo.protocols.protocol_connected_components module
    • xmipptomo.protocols.protocol_coords_roi module
    • xmipptomo.protocols.protocol_crop_resize_base module
    • xmipptomo.protocols.protocol_crop_tomograms module
    • xmipptomo.protocols.protocol_fit_ellipsoid module
    • xmipptomo.protocols.protocol_flexalign module
    • xmipptomo.protocols.protocol_half_maps_subtomos module
    • xmipptomo.protocols.protocol_misalignTS module
    • xmipptomo.protocols.protocol_phantom_subtomo module
    • xmipptomo.protocols.protocol_phantom_tomo module
    • xmipptomo.protocols.protocol_project_top module
    • xmipptomo.protocols.protocol_resizeTS module
    • xmipptomo.protocols.protocol_resize_tomograms module
    • xmipptomo.protocols.protocol_resolution_local_monotomo module
    • xmipptomo.protocols.protocol_roiIJ module
    • xmipptomo.protocols.protocol_rotate_astigmatism module
    • xmipptomo.protocols.protocol_score_coordinates module
    • xmipptomo.protocols.protocol_score_transform module
    • xmipptomo.protocols.protocol_splitTS module
    • xmipptomo.protocols.protocol_subtomo_map_back module
    • xmipptomo.protocols.protocol_subtraction_subtomo module
  • Module contents
• xmipptomo.viewers package
  • Submodules
    • xmipptomo.viewers.monotomo_tree_provider module
    • xmipptomo.viewers.viewer_cltomo module
    • xmipptomo.viewers.viewer_phantom_create module
    • xmipptomo.viewers.viewer_resolution_local_monotomo module
  • Module contents

Submodules

• xmipptomo.bibtex module
• xmipptomo.utils module
• xmipptomo.wizards module

Module contents

class xmipptomo.Plugin

Bases: xmipp3.Plugin

classmethod defineBinaries(env)

Define the Xmipp binaries/source available tgz. In addition, define extra software needed by some Xmipp methods such as deepLearningToolkit. Scipion-defined software can be used as dependencies by using its name as string.

classmethod getTensorFlowEnviron()

Create the needed environment for XmippTomo programs.