Scipion

Set up

  • Installing Scipion v3.0
  • Scipion configuration
  • Host configuration
  • Troubleshooting

User documentation

  • Graphical interface manuals
  • Tutorials
  • Processing How To’s

Facilities

  • On-the-fly processing
  • Streaming workflows
  • Summary Reports

Developer documentation

  • Developers Page

API Documentation

  • Scipion API
  • Plugins API
    • appion package
    • atomstructutils package
    • atsas package
    • bamfordlab package
    • bsoft package
    • ccp4 package
    • chimera package
    • cistem package
    • cryoef package
    • cryosparc2 package
    • deepfinder package
    • dynamo package
    • eman2 package
    • emxlib package
    • fsc3d package
    • gautomatch package
    • gctf package
    • imod package
    • localrec package
    • locscale package
    • motioncorr package
    • novactf package
    • phenix package
    • relion package
    • resmap package
    • sphire package
    • spider package
    • tomo package
    • tomoj package
    • topaz package
    • xmipp2 package
    • xmipp3 package
    • xmipptomo package
      • xmipptomo.protocols package
      • xmipptomo.viewers package
      • xmipptomo.bibtex module
      • xmipptomo.wizards module
  • Xmipp API

Get in touch

  • Contact Us
Scipion
  • Docs »
  • Plugins API »
  • xmipptomo package
  • View page source

xmipptomo package¶

Subpackages¶

  • xmipptomo.protocols package
    • Submodules
      • 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_flexalign module
      • xmipptomo.protocols.protocol_misalignTS module
      • xmipptomo.protocols.protocol_phantom_subtomo module
      • xmipptomo.protocols.protocol_project_top module
      • xmipptomo.protocols.protocol_roiIJ module
      • xmipptomo.protocols.protocol_splitTS module
      • xmipptomo.protocols.protocol_subtomo_map_back module
    • Module contents
  • xmipptomo.viewers package
    • Submodules
      • xmipptomo.viewers.viewer_cltomo module
    • Module contents

Submodules¶

  • xmipptomo.bibtex module
  • xmipptomo.wizards module

Module contents¶

class xmipptomo.Plugin[source]¶

Bases: xmipp3.Plugin

classmethod defineBinaries(env)[source]¶

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()[source]¶

Create the needed environment for XmippTomo programs.

Next Previous

© Copyright 2020, Scipion team

Built with Sphinx using a theme provided by Read the Docs.
Other Versions v: rsanchezgarc-patch-1
Branches
dependabot/pip/jinja2-2.10.1
gh-pages
release-2.0.0
release-3.0.0
rsanchezgarc-patch-1
vtune