This is a problem with version 5.0 when you set the clusterwise pvalue to something close to 1. I re-rand it with .995 and it work. This is fixed in 5.3 doug
On 05/30/2013 04:23 PM, Fotiadis, Panagiotis wrote: > Definitely, just uploaded it! > > Panos > ________________________________________ > From: Douglas N Greve [gr...@nmr.mgh.harvard.edu] > Sent: Thursday, May 30, 2013 4:10 PM > To: Fotiadis, Panagiotis > Cc: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] Correction for multiple comparisons error > > hmm, can't tell from that what is going on. Can you tar up > lh.Diseased_gender_age.glmdir and drop it to me at our file drop (URL at > the end of this email)? > doug > > On 05/30/2013 03:57 PM, Fotiadis, Panagiotis wrote: >> Hey Doug, >> >> Of course, I attached it in txt format in this email! >> >> Best, >> Panos >> >> >> ________________________________________ >> From: Douglas N Greve [gr...@nmr.mgh.harvard.edu] >> Sent: Thursday, May 30, 2013 2:55 PM >> To: Fotiadis, Panagiotis >> Cc: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] Correction for multiple comparisons error >> >> Can you send me the terminal output in a text file? A word doc is very >> inconvenient:). >> doug >> >> On 05/28/2013 01:38 PM, Fotiadis, Panagiotis wrote: >>> Hi Doug, >>> >>> 1) My cmd line is: >>> >>> mri_glmfit --y lh.Diseased_gender_age.thickness.10B.mgh --fsgd >>> Diseased_gender_age.fsgd dods --C CAA_male-vs-female_age_slope.mtx --C >>> CAA_male-vs-female.mtx --C CAA-vs-Control_age_slope.mtx --C >>> CAA-vs-Control.mtx --C Males-vs-Females_age_slope.mtx --C >>> Males-vs-Females.mtx --surf fsaverage lh --cortex --glmdir >>> lh.Diseased_gender_age.glmdir >>> >>> 2) The FS version that I am using is the stable 5.0.0, >>> >>> 3) I have attached the full terminal output in this email. >>> >>> Thank you for your time! >>> Panos >>> ________________________________________ >>> From: freesurfer-boun...@nmr.mgh.harvard.edu >>> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas Greve >>> [gr...@nmr.mgh.harvard.edu] >>> Sent: Monday, May 27, 2013 10:08 PM >>> To: freesurfer@nmr.mgh.harvard.edu >>> Subject: Re: [Freesurfer] Correction for multiple comparisons error >>> >>> what is your cmd line? What version of FS are you using? What is the >>> full terminal output? >>> doug >>> >>> >>> On 5/25/13 6:55 PM, Fotiadis, Panagiotis wrote: >>>> Hi! >>>> >>>> I have been running the mri_glmfit-sim command to do the correction for >>>> multiple comparisons for my group analysis and for some voxel-based >>>> thresholds (not all) there is an error that comes up when reading the >>>> colortable from the annotation file: >>>> >>>> reading colortable from annotation file... >>>> colortable with 35 entries read (originally >>>> /space/amaebi/26/users/buckner_cortical_atlas/scripts/colortable_final.txt) >>>> *** glibc detected *** mri_surfcluster: malloc(): memory corruption: >>>> 0x0000000006e61230 *** >>>> *** glibc detected *** mri_surfcluster: malloc(): memory corruption: >>>> 0x0000000006e61230 *** >>>> >>>> and then it gets stuck. Do you happen to know what might be causing this >>>> issue? >>>> >>>> Thank you for your time, >>>> Panos >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >>>> >>> _______________________________________________ >>> 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/ >> > -- > 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/ > > > -- 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. 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