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jvs:fscan:manual:chapter2:align [2013/01/04 17:09] voyvodic |
jvs:fscan:manual:chapter2:align [2023/02/23 18:43] (current) |
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- | ALIGN superimposes the data set to be aligned onto the current (reference) | + | ALIGN superimposes the data set to be aligned |
+ | |||
+ | Adjustment | ||
+ | |||
+ | FLAG (octal values in parenthesis -- combine options by adding values): | ||
+ | * 1 (1) - Fine adjustment | ||
+ | * 2 (2) - Coarse adjustment (if combined with Fine, Coarse runs first) | ||
+ | * 4 (4) - open and display dynamic MutualInformation window | ||
+ | * 8 (010) - Adjust Offset (translation along axis) | ||
+ | * 16 (020) - Adjust Rotation (around axis) | ||
+ | * 32 (040) - Adjust Scaling (along axis) | ||
+ | * 64 (0100) - Do X axis adjustments | ||
+ | * 128 (0200) - Do Y axis adjustments | ||
+ | * 256 (0400) - Do Z axis adjustments | ||
+ | * 512 (01000) - Mask flag -- ignore voxels in current dataset that have low-bit zero | ||
+ | * 1024 (02000) - Use current image overlay as alignment data set (default if DATASET omitted) | ||
+ | * 2048 (04000) - Debug flag -- display mutual information values and single step through alignment | ||
+ | |||
+ | Default FLAG is 0737: Adjust X,Y,Z axes for Coarse and Fine Offset and Rotation (not Scaling), displaying progress window. | ||
+ | |||
+ | For each parameter being adjusted, ALIGN tests NSTEPS values (default=5), | ||
The adjustment stepsize is specified by a combination of the FLAG, NCYCLES, DOFF, DROT, and DSCALE parameters. The finest adjustment step for the last adjustment cycle is (assuming no Coarse FLAG option): | The adjustment stepsize is specified by a combination of the FLAG, NCYCLES, DOFF, DROT, and DSCALE parameters. The finest adjustment step for the last adjustment cycle is (assuming no Coarse FLAG option): | ||
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* DROT - rotation step (default=0.25 degrees) | * DROT - rotation step (default=0.25 degrees) | ||
* DSCALE - scale step (default=1.0) | * DSCALE - scale step (default=1.0) | ||
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- | |||
- | FLAG (combine options by adding values): | ||
- | * 1 - | ||
- | * 2 - | ||
- | * 4 - | ||
- | * 8 - | ||
**See Also:**\\ | **See Also:**\\ |