[Gate-users] Gate Materials Database

[Daniel Woodsworth]

Hi,

I have been trying to create a voxelized phantom based on the Zubal MRI
head phantom. I have been getting errors relating to the readTable
command:

the command

/gate/zubal_brain/interfileReader/rangeTranslator/readTable atten_map.dat

yields:

!!! GateMDBFile:
        The definition of the element/material 'Adipose' is incorrect:
        Could not find any prefix for the abundance field.
        You should check this definition in the database file.
        Computation aborted!!!


*** G4Exception: Aborting execution ***
Abort

I checked the Adipose definition and it is fine. To investigate this, I
changed anywhere I had entered Adipose in the atten_map.dat file to Water,
and re-ran the simulation. This gave:

GateVGeometryVoxelReader::GateVGeometryVoxelReader: m_voxelTranslator 0
GateVGeometryVoxelReaderMessenger::SetNewValue: newValue (translatorType)
: range

!!! GateMDBFile::LookForElementIndbStream:
        I could not find any section [Materials] in the material database
file.
        You should check the database file.
        Computation aborted!!!


*** G4Exception: Aborting execution ***
Abort


However I have looked in the materials.db file and it is fine. I have
tried the command with the materials.db file in the simulation working
directory, with the same error.

Finally, when I use the range_vox.dat file (which comes with the hoffmann
example in the GATE distribution) instead of atten_map.dat, the simulation
runs fine.

This makes me think that it is something to do with the formatting of the
atten_map.dat file (although why that would manifest itself as a
materials.db file problem is beyond me). However, both file formats are
identical. I have pasted them below. I also attached my GateMaterials.db
file.

If anyone has any insights I would be really appreciative.

Thanks,

Daniel Woodsworth


#range_vox.dat file
   6
   0   12  Plastic
  13   25  Glass
  26   50  Plastic
  51   75  Glass
  76  100  Water
 101  250  Air


#atten_map.dat file
47
0	0	Air
1	1	Water
2	2	Water
3	3	Water
4	4	Skull
5	5	SpineBone
9	9	Muscle
15	15	Water
16	16	Water
22	22	Adipose
23	23	Blood
26	26	Water
29	29	Bone
30	30	Cartilage
63	63	Brain
70	70	Bone
71	71	Bone
72	72	Water
74	75	Water
76	76	Bone
77	77	Brain
78	78	Water
81	81	Bone
82	82	Cartilage
83	83	Brain
84	84	Water
85	96	Brain
97	97	Water
98	98	Adipose
99	99	Bone
100	100	Bone
101	101	Brain
102	102	Skull
103	103	Brain
104	104	Air
105	105	Brain
106	106	Water
107	109	Brain
110	110	Water
111	115	Brain
116	116	Water
117	118	Brain
119	119	Water
120	120	Brain
121	121	Water
122	124	Brain
125	125	Bone


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