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Projection_matching
This utility allows you to perform a simple (but quick!) 3D-angular assignment using projection matching. This program is relatively fast, using polar coordinates for the in-plane angular searches and the 5-dimensional search of rotation angles and origin offsets is broken in two: first the angles are search in a 3D-search; then, for the optimal orientation the origin offsets are searched (2D).
The output of the program consists of a document file with all assigned angles and rotations. This file also contains a column for the maximum cross-correlation coefficient. Note that the program does not alter the image headers (anymore). The recommended use of this program is within the python script of the xmipp_protocol_projmatch.py.
$ projection_matching ...
Paramters
- `` Input docfile with experimental images
- `` Rootname for reference projections (as obtained with xmipp_angular_project_library).
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-o [rootname"out"] = Output rootname -
-search5d_shift [int0] = Number of pixels to search translations for all rotations (i.e. full 5D search). Large numbers (i.e. > 5) may slow down the program considerably. -
-search5d_step [int2] = Number of pixels to sample 5D-translational searches. -
-Ri [int2] = Inner radius (in pixels) for rotational searches -
-Ro [intdim/2-1] = Outer radius (in pixels) for rotational searches -
-mem [float1] = Available computer memory (RAM) in Gigabytes. (Only relevant for large images, e.g. of several hundreds of pixels) -
-max_shift [int-1] = Max. change in origin offsets (+/- pixels; negative = no limit). - `` Filename for CTF to apply to the reference projections, as created using xmipp_ctf_group.
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-pad [float1] = Padding factor for CTF correction (as given in theCtf_group program). - `` Use this flag if the experimental images were previously phase flipped.
A typical use of this program would be:
$ projection_matching -i images.doc -ref ref
Which would produce theout.doc document file with the newly assigned angles.
--Main.AlfredoSolano - 29 Jan 2007