I meant &. The & works for tcsh (or csh). Are you using bash? I'm not sure what the bash equivalent is. Maybe |2 instead of |& perhaps some bash experts can weigh in
On 11/03/2015 01:41 PM, s...@u.washington.edu wrote: > Hi Doug, > > Do you mean: > > mri_glmfit-sim --debug --glmdir > /Volumes/Data_Local/ACTWF01_ILD/PrecByLvR_ILD_xsubject/cope7ACroi_rh.osgm.rfx/osgm > --cache-label AC --grf 4 neg --cwpvalthresh 0.05 --2spaces |7 tee doug.log? > > When I tried running the same code with |& tee doug.log at the end, I kept > getting: > > syntax error near unexpected token `&' > > Thanks, > Susan > > On Tue, 3 Nov 2015, Douglas N Greve wrote: > >> Can you run >> >> mri_glmfit-sim --debug --glmdir [my data dir]/cope7ACroi_rh.osgm.rfx/osgm >> --cache-label AC --grf 4 neg --cwpvalthresh 0.05 --2space |& tee doug.log >> >> and send me doug.log? >> >> >> >> >> On 11/02/2015 05:08 PM, s...@u.washington.edu wrote: >>> Hi experts, >>> >>> I am having trouble performing a Monte Carlo correction using >>> mri_glmfit-sim. >>> >>> My data were sampled to fsaverage and smoothed at fwhm 5, using >>> mris_preproc. I then ran mri_glmfit on the data. >>> >>> I want to do my analysis/correction only in auditory cortex (AC) so I did >>> my own simulation in AC of each hemisphere using mri_mcsim (as per >>> http://freesurfer.net/fswiki/BuildYourOwnMonteCarlo). >>> >>> So far, so good. >>> >>> But when I try to run: >>> >>> mri_glmfit-sim --glmdir [my data dir]/cope7ACroi_rh.osgm.rfx/osgm >>> --cache-label AC --grf 4 neg --cwpvalthresh 0.05 --2space >>> >>> I get "fwhm: Undefined variable." I tried adding --fwhm-override 5, but it >>> didn't help. >>> >>> Any thoughts? Also, can you clarify which comparison neg vs pos will give >>> me? >>> >>> Thank you, >>> >>> Susan McLaughlin, PhD >>> Research Scientist >>> Laboratory for Auditory Brain Sciences & Neuroengineering >>> Institute for Learning & Brain Sciences (I-LABS) >>> Portage Bay Bldg. Room 204 >>> University of Washington, Box 357988 >>> Seattle, WA 98195-7988 >>> >>> Ph: (206) 616-0102 Fx: (206) 221-6472 >>> Cell: 206-850-8638 >>> E-mail: s...@uw.edu >>> >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> The information in this e-mail is intended only for the person to whom it is >> addressed. If you believe this e-mail was sent to you in error and the e-mail >> contains patient information, please contact the Partners Compliance >> HelpLine at >> http://www.partners.org/complianceline . If the e-mail was sent to you in >> error >> but does not contain patient information, please contact the sender and >> properly >> dispose of the e-mail. >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
