[Gate-users] Voxellized phantom problem?
Susana Branco Silva
susana.silva at fc.ul.pt
Tue May 20 17:53:29 CEST 2008
Hi Sonal!!
Yesterday, I forgot to say one thing: probably you don’t see the phantom
because you "disable" the colour attributes in the file where you specify
the materials (range.dat file)
Enable the colour attributes
See the User’s Guide: page 86.
Cheers,
Susana Branco Silva
untitled
Faculdade de Ciências da Universidade de Lisboa
Campo Grande, 1749-016 Lisboa, Portugal
Phone: (+351) 21 750 01 77 ext.: 20515
Fax: (+351) 21 750 00 30
<mailto:susana.silva at fc.ul.pt> email: susana.silva at fc.ul.pt
url: www.ibeb.fc.ul.pt
From: Susana Branco Silva [mailto:susana.silva at fc.ul.pt]
Sent: segunda-feira, 19 de Maio de 2008 21:27
To: 'Sonal Ambwani'; 'gate-users at lists.healthgrid.org'
Subject: RE: [Gate-users] Voxellized phantom problem?
Hi Sonal!
The answer is yes!!
You can see an example in attachment (the MOBY phantom inside the FOCUS
system).
Cheers,
Susana Branco Silva
untitled
Faculdade de Ciências da Universidade de Lisboa
Campo Grande, 1749-016 Lisboa, Portugal
Phone: (+351) 21 750 01 77 ext.: 20515
Fax: (+351) 21 750 00 30
<mailto:susana.silva at fc.ul.pt> email: susana.silva at fc.ul.pt
url: www.ibeb.fc.ul.pt
-----Original Message-----
From: gate-users-bounces at lists.healthgrid.org
[mailto:gate-users-bounces at lists.healthgrid.org] On Behalf Of Sonal Ambwani
Sent: segunda-feira, 19 de Maio de 2008 21:05
To: gate-users at lists.healthgrid.org
Subject: RE: [Gate-users] Voxellized phantom problem?
Hello Wei and Susana,
I have a question about voxelized phantoms. With visualization turned
on, do you see the voxellized hoffman phantom during the simulation
like one sees the cylindrical phantom? I dont, and I was just wondering.
Thanks,
Sonal
Quoting Susana Branco Silva <susana.silva at fc.ul.pt>:
> Hello wei!
>
>
> I?m using the MOBY phantom too!
>
>
>
> You have to be care with one thing: GATE can?t read float data (32
> bit)! So you'll need to convert your phantom file to unsigned
> interger (16 bit) format (with IDL or MATLAB for instance).
>
>
>
> Just do the data conversion and follow the hoffman brain example
> inside the GATE distribution!!
>
> Careful: check you image conversion before launch your simulation? If
> all scripts are well defined and you got the message above, probably
> is because the conversion wasn't done correctly:
>
>
>
> GateSourceVoxelImageReader::ReadFile : fileName: moby.h33
>
> Header read from 'moby.h33'
>
> Data file name 'moby.i33'
>
> Nb of planes: 122
>
> Nb of pixels per plane: 40 40
>
> Pixel size: 5.000e-01 5.000e-01
>
> Slice thickness: 5.000e-01
>
> Matrix size: 2.000e+01 2.000e+01
>
> Data type: UNSIGNED INTEGER
>
>
>
> Ignoring confine condition
>
> Source ---------------> voxel_mouse
>
> ID : 0
>
> type : backtoback
>
> startTime (s) : 0.000e+00
>
> time (s) : 0.000e+00
>
> forcedUnstable : 1
>
> forcedLifetime (s) : 9.502e+03
>
> verboseLevel : 0
>
> -----------------------
>
>
>
> Voxel reader ----------> number of voxels : 0
>
> total activity (Bq) : 0.000e+00
>
>
>
>
>
> Hope this help you.
>
>
>
> Cheers,
>
>
>
> Susana Branco Silva
>
>
>
> untitled
>
> Faculdade de Ciências da Universidade de Lisboa
>
> Campo Grande, 1749-016 Lisboa, Portugal
> Phone: (+351) 21 750 01 77 ext.: 20515
> Fax: (+351) 21 750 00 30
>
> <mailto:susana.silva at fc.ul.pt> email: susana.silva at fc.ul.pt
>
> url: www.ibeb.fc.ul.pt
>
>
>
>
>
> -----Original Message-----
> From: gate-users-bounces at lists.healthgrid.org
> [mailto:gate-users-bounces at lists.healthgrid.org] On Behalf Of wqy
> Sent: segunda-feira, 19 de Maio de 2008 16:33
> To: gate-users at lists.healthgrid.org
> Subject: [Gate-users] Voxellized phantom problem?
>
>
>
> Hello Gate User,
>
>
>
> I have used Gate to simulate the Moby Phantom and encountered
>
> an error.The following is the error which Gate output:
>
> "...
>
> ...
>
> 'nrecognised type name 'short float
>
> 'nrecognised type name 'short float
>
> Header read from 'm007-heart_act_1.h33'
>
> 'Data file name 'm007-heart_act_1.i33
>
> Nb of planes: 0
>
> Nb of pixels per plane: 256 256
>
> Pixel size: 1 1
>
> Slice thickness: 0
>
> Matrix size: 256 256
>
> Data type:
>
>
>
>
>
> Error: one of the matrix dimensions is zero!
>
> ERROR - G4Box()::G4Box(): hof_brain_S
>
> Dimensions too small ! - 0, 0, 0
>
>
>
> *** G4Exception : InvalidSetup
>
> issued by : G4Box::G4Box()
>
> Invalid dimensions. Too small.
>
> *** Fatal Exception *** core dump ***
>
> "
>
>
>
> By the way: 1.the interfile is correct, it can be read by xmedcon
>
> exactly.
>
> 2. the Gate is installed correctly, it can be
>
> simulated the example Voxellized phantom (hof3.h33,hof3.i33)
>
>
>
> I have no idea how to dealwith the problem. Could someone help me?
>
> Best regards and thanks!
>
>
>
>
>
> wei
>
> Dept. of Engineering Physics
>
> Tsinghua University
>
>
>
>
>
> _______________________________________________
>
> Gate-users mailing list
>
> Gate-users at lists.healthgrid.org
>
> http://lists.healthgrid.org/mailman/listinfo/gate-users
>
>
Sonal Ambwani
Dept. of Electrical and Computer Engineering
Boston University
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