Hi,
Currently @SUMA_AlignToExperiment doesn't (without a hack) let one output the aligned volume into a different directory than where the surface volume resides.
The reason such an option would be useful is because one may want to align different data sets to the same surface (e.g. same subject participates in two studies and therefore has to experimental volumes). My preference would be to keep the original surface volume in the same directory as the suma "spec" files and to keep "Alnd" volumes in a directory with the experimental data. I guess the current solution is to run the script and then move the "Alnd" file to the experimental directory. I guess I'm nitpicking... But if the script is slated to be updated keep this suggestion in mind.
thanks,
Brad Buchsbaum
