I looked through the recon-all.log file, but I could not find any references to mris_ca_label or mris_anatomical_stats, do you know what else I can search for?
I found this warning in several places, but I don't know if it is related: INFO: Volume /tmp/mritotal_12360/orig_8_dxyz.mnc cannot be found. In the recon-all.status file there is another warning: Euler: NHoles = WARNING: Number of holes is not zero This subject was previously manually edited with an older version (oct 2003 release). I made four copies of the subject and ran each of the following in both the 2003 release and the latest stable release: recon-all -subjid subject -stage3 -stage4a -stage4b recon-all -subjid subject -all I only saw the warnings in subjects run with the stable release, (in the 2003 release NHoles =0). Could I be missing some files? Thanks, Sasha >>> Xiao Han <[EMAIL PROTECTED]> >>> If you run "recon-all -all ...", then mris_ca_label and mris_anatomical_stats should be included as the final two steps. You can check the recon-all.log file under each subject's script directory to see why mris_ca_label wasn't executed in your previous run of recon-all. -Xiao On Mon, 14 Nov 2005, Sasha Wolosin wrote: > That might have been what happened. I loaded the annotation to the > other surfaces, but they also looked strange. Then I re-ran > mris_ca_label and the labels look normal. > > So are mris_ca_label and mris_anatomical_stats not part of the recon-all > script (I am using the stable release)? > > Thanks, > Sasha > > > >>>> Xiao Han <[EMAIL PROTECTED]> >>> > hmm, that's wierd. > Did you recomputed the white surface after the annotation file was > generated? > You can try to load the annotation to other surfaces of the same > hemisphere, like ?h.sphere, ?h.sphere.reg, to see whether the same > scattered appearance still exists. > > -Xiao > > > On Mon, 14 Nov 2005, Sasha Wolosin wrote: > >> I double-checked, the correct hemisphere is loaded >> >>>>> Xiao Han <[EMAIL PROTECTED]> >>> >> It's not normal. >> It's very likely that you load a rh annotation to a lh surface or the >> other way around. Pls double check. >> >> -Xiao >> >> On Mon, 14 Nov 2005, Sasha Wolosin wrote: >> >>> Dear all, >>> >>> When I load the ?h.aparc.annot with the ?h.white surface in > tksurfer, >>> the labels look very scattered, is this normal? (please see attached >>> jpeg) >>> >>> Thanks, >>> Sasha >>> >>> >>> >>> Disclaimer: >>> The materials in this e-mail are private and may contain Protected >> Health Information. Please note that e-mail is not necessarily >> confidential or secure. Your use of e-mail constitutes your >> acknowledgment of these confidentiality and security limitations. If > you >> are not the intended recipient, be advised that any unauthorized use, >> disclosure, copying, distribution, or the taking of any action in >> reliance on the contents of this information is strictly prohibited. > If >> you have received this e-mail in error, please immediately notify the >> sender via telephone or return e-mail. >>> >> >> >> > > > _______________________________________________ Freesurfer mailing list [email protected] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
