[Gate-users] Regular Parameterization Error with Geant4 v10

[Triltsch, Nicolas]

Hey David & Maxime,

Thanks for your advice. I tried to use the option 
ImageRegionalizedVolume (plus the distance map) instead of 
ImageNestedParametrisedVolume, but it gives the following error:

"/[Physic-0] The following Geant4's physic-list is enabled :emlivermore//
//GateVImageVolume.cc (l.363): The image contains HU indices out of 
range of the HU range found in data/waterbottle_HU2mat.txt//
//min, max:0, 4.//
//min, max in image: -1, 3//
//Abort./
"

I am confused by this error as I am using the the same HU2mat.txt and 
.mhd+.raw files as before. Does the new Parameterization method require 
different material descriptors or what could be the reason? My image 
contains of 4 materials only: Air (index 0), water (index 1), plastic 
(index 2) and lead (index 3).

Cheers,

Nico

On 02/10/2017 04:57 PM, David Sarrut wrote:
> Hello,
>
> To my knowledge, RegularParameterization with flag skipEqualMaterials 
> is still buggy (it should be disabled: if someone know this code, 
> please propose a pull request to correct or disable this option).
>
> Use either:
> - ImageNestedParametrisedVolume : simple conventional navigator, 
> similar to regular, (slightly faster)
>
> - ImageRegionalizedVolume as proposed by Maxime. It could be 3-4 times 
> faster in some cases but it depends on what you are storing during the 
> simulation. If it is a dose map, take care to the statistical 
> uncertainties. If you are only interested in particle outgoing the 
> volume (for imaging for example), it is safe to use. Of course, the 
> speed up depends on the voxelized volume (faster if lot of similar 
> material).
>
> Doc is here: 
> http://wiki.opengatecollaboration.org/index.php/Users_Guide_V8.0:Voxelized_Source_and_Phantom#Nested_parameterization_method
>
> David
>
>
> On Fri, Feb 10, 2017 at 4:45 PM, Maxime Chauvin 
> <maxime.chauvin at inserm.fr <mailto:maxime.chauvin at inserm.fr>> wrote:
>
>     Hello Nicolas,
>
>     I had the same problem as you and couldn’t fix it. On the other
>     hand there is a even more efficient way  using
>     ImageRegionalizedVolume. It will further speed up the simulation
>     especially if your geometry has a lot of common voxel
>     and you will get rid of this warning.
>
>     Cheers,
>       Maxime
>
>>     On 10 Feb 2017, at 14:41, Triltsch, Nicolas
>>     <nicolas.triltsch at tum.de <mailto:nicolas.triltsch at tum.de>> wrote:
>>
>>     Hello,
>>
>>     I tried to speed up my simulation by choosing Regular
>>     Parameterization (with flag skipEqualMaterials to 1) instead of
>>     Nested Parameterization, because my Volume got a lot of voxels
>>     with the same material. It did indeed speed up the simulation by
>>     a factor of 15, but some projections of my CT simulation failed
>>     (error: segmentation fault; crash).
>>
>>     Now I saw that during the initialization phase of gate it states
>>     the following:
>>
>>     /### WARNING ### setSkipEqualMaterials at false !! The Geant4
>>     method is not safe since the release 9.5 - Need to be fixed/
>>
>>     I am pretty sure that this warning is somehow connected to the
>>     warning. Does anyone know if there had been a bug fix for Geant4
>>     v10.2.2?
>>
>>     In the appendix there is a screenshot of the error.
>>
>>     Cheers,
>>     Nico
>>     -- 
>>     B.Sc. Nicolas Triltsch
>>     Masterand
>>
>>     Technische Universität München
>>     Physik-Department
>>     Lehrstuhl für Biomedizinische Physik E17
>>
>>     James-Franck-Straße 1
>>     85748 Garching b. München
>>
>>     Tel:+49 89 289 12591 <tel:+49%2089%2028912591>
>>
>>     nicolas.triltsch at tum.de <mailto:nicolas.triltsch at tum.de>
>>     www.e17.ph.tum.de <http://www.e17.ph.tum.de/>
>>     <error1.png><error2.png>_______________________________________________
>>     Gate-users mailing list
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>
>
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>
>
> -- 
> David Sarrut, Phd
> Directeur de recherche CNRS
> CREATIS, UMR CNRS 5220, Inserm U1206
> Centre de lutte contre le cancer Léon Bérard
> 28 rue Laënnec, 69373 Lyon cedex 08
> Tel : 04 78 78 51 51 / 06 74 72 05 42
> http://www.creatis.insa-lyon.fr/~dsarrut 
> <http://www.creatis.insa-lyon.fr/%7Edsarrut>
> _________________________________
>  "2 + 2 = 5,  for extremely large values of 2"
> _________________________________

-- 
B.Sc. Nicolas Triltsch
Masterand

Technische Universität München
Physik-Department
Lehrstuhl für Biomedizinische Physik E17

James-Franck-Straße 1
85748 Garching b. München

Tel: +49 89 289 12591

nicolas.triltsch at tum.de
www.e17.ph.tum.de

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0 1 Vacuum
1 2 Water
2 3 PET
3 4 Lead