Here is everything in the terminal after I hit analyze:
Data table loading completed successfully.
SUBJECTS_DIR is '/Users/marchaut/Documents/myprojects/SOARmaster'
lh-Avg-Intercept-thickness -----------------------
Does the average thickness differ from zero?
1.000 1.000;
lh-Diff-1-2-Intercept-thickness -----------------------
Does the average thickness differ between 1 and 2?
1.000 -1.000;
ninputs = 28
Checking inputs
mri_concat(4256,0x7fff78a00310) malloc: ***
mach_vm_map(size=4619122851646017536) failed (error code=3)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
znzTAGskip: tag=586130367, failed to calloc 2856323072 bytes!
Cannot allocate memory
Error in Analyze: command failed: mri_concat
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR03-1.long.SOAR03/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR03-2.long.SOAR03/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR04-1.long.SOAR04/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR04-2.long.SOAR04/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR05-1.long.SOAR05/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR05-2.long.SOAR05/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR06-1.long.SOAR06/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR06-2.long.SOAR06/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR07-1.long.SOAR07/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR07-2.long.SOAR07/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR09-1.long.SOAR09/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR09-2.long.SOAR09/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR17-1.long.SOAR17/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR17-2.long.SOAR17/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR19-1.long.SOAR19/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR19-2.long.SOAR19/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR23-1.long.SOAR23/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR23-2.long.SOAR23/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR26-1.long.SOAR26/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR26-2.long.SOAR26/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR27-1.long.SOAR27/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR27-2.long.SOAR27/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR28-1.long.SOAR28/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR28-2.long.SOAR28/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR30-1.long.SOAR30/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR30-2.long.SOAR30/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR31-1.long.SOAR31/surf/lh.thickness.fwhm10.fsaverage.mgh
/Users/marchaut/Documents/myprojects/SOARmaster/SOAR31-2.long.SOAR31/surf/lh.thickness.fwhm10.fsaverage.mgh
--o /Users/marchaut/Documents/myprojects/SOARmaster/qdec/test1/y.mgh
XIO: fatal IO error 35 (Resource temporarily unavailable) on X server
"/tmp/launch-NzfFao/org.macosforge.xquartz:0"
after 16398 requests (16398 known processed) with 0 events remaining.
On Tue, May 10, 2016 at 5:41 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>
wrote:
> Is that all it says? At one point (about 3-4 years ago) we would see
> that error because some of our files got corrupted. Can you send more of
> the terminal output?
>
> On 05/10/2016 12:56 PM, Marissa Pifer wrote:
> > Hi freesurfers,
> >
> > I am on a macbook pro OSX 10.9.5, trying to run an analysis on qdec -
> > freesurfer version 5.3. I am looking to analyze T2weighted scans for
> > 27 subjects through the qdec system. I keep getting this error that it
> > cannot allocate memory for the task. I'v been talking with our IT
> > people and they've told me I have more than enough space on the
> > computer, so it must be an issue with the program or how it's set up.
> >
> > This is the error message:
> >
> >
> > *** error: can't allocate region
> >
> > *** set a breakpoint in malloc_error_break to debug
> >
> > znzTAGskip: tag=586130367, failed to calloc 2856323072 bytes!
> >
> >
> > Cannot allocate memory
> >
> >
> >
> > Does anyone know what I can do to fix this problem?
> >
> > Thanks,
> >
> > Marissa
> >
> >
> > _______________________________________________
> > 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/
>
> _______________________________________________
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>
>
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