[Gate-users] Problems with voxelized_phantom_source file

[Ahmed Elmekawy]

Hi Ana,

I believe the brain_phantom.md5 is soft link but also I don't understand
ẃhy the user put it in soft link if you need to understant more just go to
brain_phantom.i33 and then write $ ls -ltr brain_phantom.i33 so you will
find the soft link.

I think the problem not coming from your phantom but  you have to attach
this soft link to your phantom specially the .i33 file.

any way I have the same problem right now.


Regards
Ahmed

On Wed, Nov 5, 2014 at 5:31 PM, Ana Margarida Mota <ninimota87 at gmail.com>
wrote:

> Dear Gate users,
>
> I am having some problems with GATE7. I am new at Gate so I apologize if
> the questions I ask here are basic. I have mainly 3 questions:
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> (1) In examples/example_PHANTOM_SOURCE/Voxelized_Phantom_Source/ why the
> data file brain_phantom.i33 is brain_phantom.md5?What is the meaning of md5?
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> (2) In the same folder, when I try to run mainMacro.mac, it starts
> normally but than suddenly stops and I receive the message
> "*GateVImageVolume.cc (l.570):  I find R=25907 in the image, while range
> stop at 15*"
> What's wrong?
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> (3) I try to run the same file but with my voxelized source and I receive
> the following error:
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> *GateSourceVoxelImageReader::ReadFile : fileName: ', assuming default
> BIGENDIAN'LITTLEENDIAN'nrecognised type name 'unsigned integer', assuming
> default BIGENDIAN'BIGENDIAN'nrecognised type name 'unsigned integer Header
> read from       'PET_PVC-MTC.h33' Data file name
> 'PET_PVC-MTC.i33' Nb of planes:           176 Nb of pixels per plane: 448
> 512 Pixel size:             5.273e-01 5.273e-01 Slice thickness:
> 2.086e+00 Matrix size:            2.363e+02 2.700e+02 Data
> type:               Data byte order:     BIGENDIAN **** Error: Volume does
> not exist ****  Ignoring confine condition*
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> and after some lines:
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> **** Break *** segmentation violation*
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> My interfile is:
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> *!INTERFILE := !imaging modality :=nucmed !originating system :=ImageJ
> !version of keys :=3.3 !date of keys :=1992:01:01 !conversion program
> :=ImageJ !program author :=J. Anthony Parker, MD PhD (J.A.Parker at IEEE.org)
> !program version :=15January2002 !program date :=2002:01:15 ; !GENERAL DATA
> := original institution := NucMed !data offset in bytes := 0 !name of data
> file := PET_PVC-MTC.img patient name := Unknown !patient ID := Unknown
> patient dob := 0000:00:00 patient sex := Unknown !study ID := Unknown exam
> type := Unknown data compression := none data encode := none organ :=
> Unknown isotope := Unknown dose := 0 NUD/Patient Weight [kg] := 0.00
> NUD/imaging modality := NM NUD/activity := 0 NUD/activity start time :=
> 00:00:00 NUD/isotope half life [hours] := 0.000000 ; !GENERAL IMAGE DATA :=
> !type of data := Tomographic !total number of images := 176 study date :=
> 0000:00:00 study time := 00:00:00 imagedata byte order := LITTLEENDIAN
> process label :=  ; quantification units := +1.000000e+000 NUD/rescale
> slope := +1.000000e+000 NUD/rescale intercept := +0.000000e+000 ; number of
> energy windows := 1 ; energy window [1] := energy window lower level [1] :=
> energy window upper level [1] := flood corrected := N decay corrected := N
> ; !SPECT STUDY (general) := number of detector heads := 1 ; !number of
> images/energy window := 176 !process status := Reconstructed !matrix size
> [1] := 512 !matrix size [2] := 448 !number format := unsigned integer
> !number of bytes per pixel := 2 scaling factor (mm/pixel) [1] :=
> +5.273440e-001 scaling factor (mm/pixel) [2] := +5.273440e-001 !number of
> projections := 176 !extent of rotation :=  !time per projection (sec) := 0
> study duration (sec) := 0 !maximum pixel count := +2.550000e+002 patient
> orientation := Unknown patient rotation := Unknown ; !SPECT STUDY
> (reconstructed data) := method of reconstruction := Unknown !number of
> slices := 176 number of reference frame := 0 slice orientation := unknown
> slice thickness (pixels) := +2.085925e+000 centre-centre slice separation
> (pixels) := +2.085925e+000 filter name := Unknown filter parameters :=
> Cutoff method of attenuation correction := measured scatter corrected := N
> oblique reconstruction := N !END OF INTERFILE :=*
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> Can anyone help me please??
>
> Thank you!!
>
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