Nick, Thanks for looking into this - we are stalled in our analysis until we find a way around this!
The answer to your question is no - I have tried the command in cuzco (via ssh), ai (directly), and inv (directly), and I receive the glibc error on all of them. If you think it would be a good idea to try it on more linux boxes, just let me know. Bests, Tommi > Tommi, > > Do you have a machine on which this script can run without the glibc > error? I have been able to recreate the error you see in a debugger on > inv, but can't figure out what is going wrong. (Doug, the glibc error > occurs when fclose is called on line 565 of mriFunctionalDataAccess.c). > Doug or I will need to look into this further. > > Nick > > On Wed, 2007-09-05 at 19:02 -0400, [EMAIL PROTECTED] wrote: >> Hi guys, >> >> On machine inv (more or less the same error on machine ai) >> nmr-dev-env (same error on nmr-std-env) >> >> cd /space/cuzco/2/users/raij/avml_fmri_mctogether/ >> >> setenv SUBJECTS_DIR /space/cognito/5/users/raij/subjects_mri/ >> setenv SUBJECT fsaverage >> >> tksurfer fsaverage lh inflated -overlay >> avml07_session_BRISI08/bold/group_ISIXTR_BERT_ERFIRsm5pf5tpefsub_18cat/sphsm10/h-lh.bhdr >> -timecourse >> avml07_session_BRISI08/bold/group_ISIXTR_BERT_ERFIRsm5pf5tpefsub_18cat/sphsm10/h-lh.bhdr >> >> >> Output: >> >> surfer: current subjects dir: /space/cognito/5/users/raij/subjects_mri/ >> surfer: not in "scripts" dir ==> using cwd for session root >> surfer: session root data dir ($session) set to: >> surfer: /autofs/space/cuzco_002/users/raij/avml_fmri_mctogether >> surfer: Reading header info from >> /space/cognito/5/users/raij/subjects_mri//fsaverage/mri/T1.mgz >> reading group avg surface area 822 cm^2 from file >> surfer: vertices=163842, faces=327680 >> INFO: bvolumeRead: min = 0, max = 0 >> *** glibc detected *** corrupted double-linked list: 0x00000000060b7db0 >> *** >> Abort >> >> Oddly enough, on machine ai, if I leave out the -timecourse part of the >> command line, the FreeSurfer window opens with the correct overlay and I >> can scroll through conditions and time points. Further, if I then >> manually >> load the timecourse from File/Load Time Course... menu, this works >> giving >> the time course display just as it should >> >> Even more oddly, on machine inv (which is spanking new and has lots of >> RAM >> etc) even the above basic command line with only loading the overlay >> gives >> the above glibc error. >> >> I have 8 subjects * 66 labels = timecourses of 528 labels to extract, >> which makes this clearly a script job - the only practical solution >> would >> be to find a way to make the command line work. >> >> Suggestions? For example, could it be that this has something to do with >> nvidia drivers? >> >> Thanks, >> >> Tommi >> >> --- >> Tommi Raij, M.D., Ph.D. >> MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging >> Bldg 149, 13th St >> Charlestown, MA 02129 >> U.S.A. >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > > > --- Tommi Raij, M.D., Ph.D. MGH/MIT/HMS Athinoula A. Martinos Center for Biomedical Imaging Bldg 149, 13th St Charlestown, MA 02129 U.S.A. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
