yes, don't know why it did not. Can you delete that dir and re-run?
Robert Levy wrote:
Hi Doug,
These are the commands that were used, or so I gather based on the file dates. Shouldn't this have put them into a common talairach-based space?
#kthakkar 1/16/06 #*ASD v. Normals volume analysis* intergroupavg-sess -analysis EMerror -contrast ASvfix -group1 BwGroupNormalsError5 -group2 BwGroupAspError5 -intergroup BwGroupError5 -space tal -spacedir tal intergroupavg-sess -analysis EMerror -contrast ASevfix -group1 BwGroupNormalsError5 -group2 BwGroupAspError5 -intergroup BwGroupError5 -space tal -spacedir tal intergroupavg-sess -analysis EMerror -contrast ASevASc -group1 BwGroupNormalsError5 -group2 BwGroupAspError5 -intergroup BwGroupError5 -space tal -spacedir tal
Thanks, Rob
Doug Greve wrote:
how did you create BwGroupError5/bold/EMerror/tal-rfx/ASevfix/sig? It is 64x64x20, which is probably your native functional space.
Robert Levy wrote:
Hi,
I have 3 contrasts between conditions in a between group comparison on the volume, and I'm using mri_volcluster to get information about the data. For some reason, while two of the contrasts (ASvfix and ASevASc as shown below) are compatible with the register.dat file for these contrasts, one of the contrasts (ASevifx) is not compatible. I'm not sure why or how this could be the case, but I need to register it somehow, in order for the talairach coordinates to be listed correctly. What do you think is wrong or different about this one contrast? Is there anything that I can do to fix this incompatibility so that it will register the correct coordinates? (detailed info for reproducing the problem is included below).
Thanks, Rob
To reproduce the problem: source /usr/local/freesurfer/nmr-dev-env # ( but I also get the same exact results using stable 3 ) setenv SUBJECTS_DIR /space/ventzl/1/users/SUBJECTS_DIR cd $SUBJECTS_DIR
# this contrast is not compatible with register.dat mri_volcluster \ --in BwGroupError5/bold/EMerror/tal-rfx/ASevfix/sig_000.bfloat \ --thmin 3.230014 \ --reg BwGroupError5/bold/EMerror/tal-rfx/register.dat \ --frame 6
# these 2 contrasts work mri_volcluster \ --in BwGroupError5/bold/EMerror/tal-rfx/ASvfix/sig_000.bfloat \ --thmin 4.668773 \ --reg BwGroupError5/bold/EMerror/tal-rfx/register.dat \ --frame 6
mri_volcluster \ --in BwGroupError5/bold/EMerror/tal-rfx/ASevASc/sig_000.bfloat \ --thmin 3.524190 \ --reg BwGroupError5/bold/EMerror/tal-rfx/register.dat \ --frame 6
--
Robert P. Levy, B.A. Research Assistant, Manoach Lab Massachusetts General Hospital Charlestown Navy Yard 149 13th St., Room 2611 Charlestown, MA 02129 email: levy@nmr.mgh.harvard.edu phone: 617-726-1908 fax: 617-726-4078
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Robert P. Levy, B.A. Research Assistant, Manoach Lab Massachusetts General Hospital Charlestown Navy Yard 149 13th St., Room 2611 Charlestown, MA 02129 email: levy@nmr.mgh.harvard.edu phone: 617-726-1908 fax: 617-726-4078