Hello All, I get the following error while trying to run mri_glmfit. I am running a 2.93 ghz imac with 8gb of ram. I am also running freesurfer version 5.0.0 on Snow Leopard OS version 10.6.
/Applications/freesurfer/subjects/qdec$ mri_glmfit --glmdir lh.paired-diff --fsgd paired-diff.fsgd --C mean.mtx --y lh.paired-diff.thickness.mghgdfReadHeader: reading paired-diff.fsgd INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done. Continuous Variable Means (all subjects) 0 Age 1.5 Class Means of each Continuous Variable 1 Main 1.5000 INFO: gd2mtx_method is dods
$Id: mri_glmfit.c,v 1.187.2.1 2010/07/26 15:54:39 greve Exp $ cwd /Applications/freesurfer/subjects/qdec cmdline mri_glmfit --glmdir lh.paired-diff --fsgd paired-diff.fsgd --C mean.mtx --y lh.paired-diff.thickness.mgh sysname Darwin hostname larry machine i386 user amend FixVertexAreaFlag = 1 UseMaskWithSmoothing 1 OneSampleGroupMean 0 y /Applications/freesurfer/subjects/qdec/lh.paired-diff.thickness.mgh logyflag 0 usedti 0 FSGD paired-diff.fsgd glmdir lh.paired-diff IllCondOK 0 DoFFx 0 Creating output directory lh.paired-diff Loading y from /Applications/freesurfer/subjects/qdec/lh.paired-diff.thickness.mgh mri_glmfit(79576) malloc: *** mmap(size=2563764224) failed (error code=12) *** error: can't allocate region *** set a breakpoint in malloc_error_break to debug MRIallocIndices: could not allocate 1714511945 elt index array Cannot allocate memory
The mri_info for the file is :
mghRead(/Applications/freesurfer/subjects/qdec/fsgd_input.mgh, -1): could not open file amend@larry /Applications/freesurfer/subjects/qdec$ mri_info /Applications/freesurfer/subjects/qdec/lh.paired-diff.thickness.mgh Volume information for /Applications/freesurfer/subjects/qdec/lh.paired-diff.thickness.mgh type: MGH dimensions: 1714510945 x 1853057372 x 1634628457 x 1668310833 voxel sizes: 72950800688805540228332034981888.0000, 0.0000, 70387746064971392794503413760.0000 type: UNKNOWN (842347100) fov: inf dof: 1668244335 xstart: -inf, xend: inf ystart: -39.8, yend: 39.8 zstart: -57528904905339976080461439864148066304.0, zend: 57528904905339976080461439864148066304.0 TR: 71446969504754118412748034408448.00 msec, TE: 17862977898376175754203558313984.00 msec, TI: 4464583905807213894543171649536.00 msec, flip angle: 4128358109894647822155776.00 degrees nframes: 1668310833 PhEncDir: UNKNOWN ras xform present xform info: x_r = 19441367164500690594879212879872.0000, y_r = 282670772483715414097920.0000, z_r = 4630517930517356511053742080.0000, c_r = 18179207505345150839094025125888.0000 : x_a = 72953300747400503281465327353856.0000, y_a = 71756401321839400437789128392704.0000, z_a = 4721224652433019196440490016768.0000, c_a = 0.0000 : x_s = 0.0000, y_s = 208210237828607676252160.0000, z_s = 4286666299869639999488.0000, c_s = 4622889417339745644740714954752.0000
talairach xfm : Orientation : AAA Primary Slice Direction: coronal
voxel to ras transform: inf 12133604733747200.0000 inf -inf inf 3080133850722982464323584.0000 inf -inf 36752183205510726549504.0000 8937395835633664.0000 inf
-inf 0.0000 0.0000 0.0000 1.0000
voxel-to-ras determinant nan
ras to voxel transform: mat = NULL! Invalid argument MatrixFree: NULL mat POINTER!
Invalid argument
-Andrew