teem-users

[Thomas P. <tho...@gm...>]

Dear Teem experts,

I am using "tend estim" and I have a question regarding the input 
format. I'd like to use a 4D Nrrd of all DWIs.

Case 1:
When the DWIs are stacked along axis 3, tend estim seems to run 
perfectly fine

Case 2:
When they are stacked along axis 0, as requested in the command line 
usage, tend estim outputs the following error:

/[ten] tenEstimateUpdate: problem updating//
//[ten] tenEstimateEmatUpdate: trouble pseudo-inverting 70x7 B-matrix//
//[ten] [ell] ell_Nm_pseudo_inv: trouble//
//[ten] [ell] ell_Nm_inv: trouble//
//[ten] [ell] _ell_inv: trouble//
//[ten] [ell] _ell_LU_decomp: singular matrix since column 0 all zero

/My question is, should I follow the procedure in case 1 even though 
this is not what is requested by tend estim, and I was just lucky it 
worked, or should I follow case 2 and how to resolve this problem?

Thank you for your time and consideration,
Thomas.

Additional informations: header or the nrrd file for case 1

NRRD0005
# Complete NRRD file format specification at:
# http://teem.sourceforge.net/nrrd/format.html
content: x(???,???)
type: short
dimension: 4
space: left-posterior-superior
sizes: 110 110 66 70
space directions: (2,-0,0) (-0,2,0) (0,0,2) none
centerings: cell cell cell ???
kinds: space space space list
endian: little
encoding: raw
space units: "mm" "mm" "mm"
space origin: (-102.66,-90.101500000000001,-99.491600000000005)
measurement frame: (1,0,0) (0,1,0) (0,0,1)
data file: dwi_1-Ed-Bet.raw
modality:=DWMRI
DWMRI_b-value:=3050
DWMRI_gradient_0000:= 0.000000 0.000000 0.000000
DWMRI_gradient_0001:= 0.126250 -0.001678 -0.564883
DWMRI_gradient_0002:= 0.180388 -0.001775 -0.817772
DWMRI_gradient_0003:= 0.221647 -0.001907 -0.990043
DWMRI_gradient_0004:= -0.159594 -0.148559 -0.537184
DWMRI_gradient_0005:= -0.229724 -0.214973 -0.774804
DWMRI_gradient_0006:= -0.281167 -0.258553 -0.940892
DWMRI_gradient_0007:= 0.024492 0.277650 -0.508188
DWMRI_gradient_0008:= 0.034830 0.398428 -0.735478
DWMRI_gradient_0009:= 0.042193 0.484716 -0.887642
DWMRI_gradient_0010:= 0.195923 -0.259476 -0.480995
DWMRI_gradient_0011:= 0.280631 -0.374435 -0.693489
DWMRI_gradient_0012:= 0.343578 -0.450072 -0.839324
DWMRI_gradient_0013:= -0.356031 0.060791 -0.454066
DWMRI_gradient_0014:= -0.506410 0.086247 -0.645215
DWMRI_gradient_0015:= -0.619589 0.107101 -0.784430
DWMRI_gradient_0016:= 0.332510 0.214789 -0.421699
DWMRI_gradient_0017:= 0.472106 0.303104 -0.603321
DWMRI_gradient_0018:= 0.577137 0.370065 -0.730456
DWMRI_gradient_0019:= -0.109792 -0.411473 -0.395708
DWMRI_gradient_0020:= -0.154541 -0.590276 -0.572856
DWMRI_gradient_0021:= 0.000000 0.000000 0.000000
DWMRI_gradient_0022:= -0.189063 -0.714677 -0.683715
DWMRI_gradient_0023:= -0.204853 0.398345 -0.362852
DWMRI_gradient_0024:= -0.290971 0.565436 -0.517719
DWMRI_gradient_0025:= -0.360396 0.695729 -0.636285
DWMRI_gradient_0026:= 0.441324 -0.163244 -0.336431
DWMRI_gradient_0027:= 0.623810 -0.231692 -0.477841
DWMRI_gradient_0028:= 0.765160 -0.283594 -0.583854
DWMRI_gradient_0029:= -0.450201 -0.189100 -0.310164
DWMRI_gradient_0030:= -0.640606 -0.267620 -0.438095
DWMRI_gradient_0031:= -0.782251 -0.326614 -0.534100
DWMRI_gradient_0032:= 0.213471 0.457939 -0.277442
DWMRI_gradient_0033:= 0.301567 0.645706 -0.395289
DWMRI_gradient_0034:= 0.372524 0.801136 -0.483783
DWMRI_gradient_0035:= 0.153517 -0.503296 -0.249818
DWMRI_gradient_0036:= 0.216896 -0.715932 -0.359651
DWMRI_gradient_0037:= 0.272073 -0.862103 -0.433766
DWMRI_gradient_0038:= -0.460118 0.271437 -0.221692
DWMRI_gradient_0039:= -0.649842 0.382199 -0.309835
DWMRI_gradient_0040:= -0.799522 0.468157 -0.381015
DWMRI_gradient_0041:= 0.532234 0.121292 -0.192502
DWMRI_gradient_0042:= 0.000000 0.000000 0.000000
DWMRI_gradient_0043:= 0.759029 0.170530 -0.271009
DWMRI_gradient_0044:= 0.913683 0.205089 -0.326693
DWMRI_gradient_0045:= -0.318083 -0.457637 -0.164480
DWMRI_gradient_0046:= -0.450610 -0.651798 -0.228853
DWMRI_gradient_0047:= -0.546427 -0.779455 -0.278341
DWMRI_gradient_0048:= -0.071434 0.554387 -0.134272
DWMRI_gradient_0049:= -0.102154 0.783787 -0.189643
DWMRI_gradient_0050:= -0.124104 0.960945 -0.229336
DWMRI_gradient_0051:= 0.432603 -0.370673 -0.106125
DWMRI_gradient_0052:= 0.614628 -0.523790 -0.150754
DWMRI_gradient_0053:= 0.753898 -0.638353 -0.182558
DWMRI_gradient_0054:= -0.572249 -0.025116 -0.077728
DWMRI_gradient_0055:= -0.815259 -0.033255 -0.108625
DWMRI_gradient_0056:= -0.991865 -0.041556 -0.130144
DWMRI_gradient_0057:= 0.404219 0.407299 -0.046870
DWMRI_gradient_0058:= 0.576653 0.583648 -0.063311
DWMRI_gradient_0059:= 0.705346 0.707829 -0.081883
DWMRI_gradient_0060:= -0.025283 -0.582908 -0.028587
DWMRI_gradient_0061:= -0.036149 -0.829802 -0.036684
DWMRI_gradient_0062:= -0.044484 -1.009992 -0.039771
DWMRI_gradient_0063:= 0.000000 0.000000 0.000000
DWMRI_gradient_0064:= 0.001823 -0.000241 -0.181313
DWMRI_gradient_0065:= 0.196805 -0.000885 -0.104360
DWMRI_gradient_0066:= 0.070870 -0.218564 -0.119819
DWMRI_gradient_0067:= -0.291696 -0.215961 -0.187897
DWMRI_gradient_0068:= -0.291329 0.215650 -0.184355
DWMRI_gradient_0069:= 0.111390 0.344693 -0.184531