[Gate-users] Fixed Forced Detection Actor

Wed Nov 30 13:18:50 CET 2016

Hi,
I agree with everything pointed out by David. I have checked that
compiling RTK with dynamic libraries did work and it does so I'm not
sure what has happened on your side but it should find libRTK if you
haven't moved it after compilation.
Simon

On Wed, Nov 30, 2016 at 11:59 AM, David Boersma
<david.boersma at physics.uu.se> wrote:
> Hi Nicolas,
>
> Den 30/11/2016 kl. 11:48, skrev Triltsch, Nicolas:
>>
>> Hey Simon,
>>
>> I compiled everything again and there were no more errors:) But if I
>> start Gate it states the following:
>>
>> /"Gate: error while loading shared libraries: libRTK.so: cannot open
>> shared object file: No such file or directory"/
>>
>> Why does it not find the libraries?
>
>
> Where is libRTK.so installed on your system?
>
> If it is in some standard directory, like /usr/lib, then it should just be
> found without any extra actions. So I assume that you installed it somewhere
> else. Do not move libraries around after installing (because sometimes their
> paths are hardcoded inside the libraries and other code).
>
> Let's say the libRTK.so is installed in /A/B/C/lib, then you could try
>
> export LD_LIBRARY_PATH=/A/B/C/lib:$LD_LIBRARY_PATH
>
> Then try running Gate again. Or run "ldd Gate" to inspect the list of
> libraries that the runtime linker is finding (or not finding) for it.
>
> (If you are on MacOSX, then you need to set DYLD_LIBRARY_PATH instead, and
> instead of "ldd" you run "otool -L".)
>
> HTH,
> /DavidB
>
>
>>
>> Cheers, Nico
>>
>> On 11/29/2016 10:09 PM, Simon Rit wrote:
>>>
>>> Hi,
>>> I'm not sure what happened. Did you maybe update ITK without
>>> recompiling it? Anyway, I'd suggest to recompile ITK, RTK and Gate (in
>>> this order). Sorry for the trouble, I know these dependencies are a
>>> bit inconvenient.
>>> Simon
>>>
>>> On Tue, Nov 29, 2016 at 2:06 PM, Triltsch, Nicolas
>>> <nicolas.triltsch at tum.de <mailto:nicolas.triltsch at tum.de>> wrote:
>>>
>>>     Hey Simon,
>>>
>>>     I followed your two changes 1) and 3) and after that I compiled
>>>     Gate again, in order to make the changes valid. But now I get an
>>>     error message when compiling gate_v7.2, which says:
>>>
>>>     "/
>>>     /
>>>
>>>     /make[2]: *** No rule to make target
>>>
>>> '/usr/local/bin/InsightToolkit-4.10.1/InsightToolkit-4.10.1-build/lib/libITKReview-4.10.so.1',
>>>     needed by 'Gate'.  Stop.//
>>>     //make[2]: *** Waiting for unfinished jobs....//
>>>     //[100%] Building CXX object
>>>
>>> CMakeFiles/Gate.dir/source/externals/clhep/src/CLHEP/RandomObjects/RandomVector.cc.o//
>>>     //CMakeFiles/Makefile2:67: recipe for target
>>>     'CMakeFiles/Gate.dir/all' failed//
>>>     //make[1]: *** [CMakeFiles/Gate.dir/all] Error 2//
>>>     //Makefile:127: recipe for target 'all' failed//
>>>     //make: *** [all] Error 2/
>>>
>>>     "
>>>
>>>     Honestly, I have no idea what to do. I think it has something to
>>>     do with the ITK package, but I don't know why. If you have an idea
>>>     that would be great, as my Gate is not running any more:/ If I
>>>     type 'Gate' in the terminal, it says now:
>>>
>>>     "
>>>
>>>     /Gate: error while loading shared libraries:
>>>     libITKIOBMP-4.10.so.1: cannot open shared object file: No such
>>>     file or directory/
>>>
>>>     "
>>>
>>>     Thanks in advance!
>>>
>>>     Nico
>>>
>>>
>>>
>>>     On 11/28/2016 03:57 PM, Simon Rit wrote:
>>>>
>>>>     Hi,
>>>>
>>>>     On Mon, Nov 28, 2016 at 2:00 PM, Triltsch, Nicolas
>>>>     <nicolas.triltsch at tum.de <mailto:nicolas.triltsch at tum.de>> wrote:
>>>>
>>>>         Hey everyone,
>>>>
>>>>         I have three questions concerning the fixed forced detection
>>>>         actor(ffda):
>>>>
>>>>         1) As output one can generate e.g. primary.mha, compton.mha,
>>>>         rayleigh.mha and total.mha images. In the GATE wiki it
>>>>         states, that primary + compton + rayleigh = total. But if I
>>>>         compare the two images they are different! Why? (total.mha
>>>>         image was flatfield corrected by default; primary, compton
>>>>         and rayleigh weren't, so I used the flatField.mha to correct
>>>>         them before the comparison with total.mha)
>>>>
>>>>      I checked and there is a bug in the total filename. However, it
>>>>     does not use the flat field but rather one step was forgotten
>>>>     (accounting for the total number of particles in the simulation).
>>>>     I must admit that I never use that output in practice, hence the
>>>>     bug. This fix
>>>>
>>>> <https://github.com/OpenGATE/Gate/commit/988f886133ee741eeca692df027e7786e025c7bc>
>>>>     should correct that.
>>>>
>>>>
>>>>         2) For the ffda the source needs to be focused. Why is that
>>>>         necessary?
>>>>
>>>>     Because ffda uses RTK <http://openrtk.org/> for deterministic
>>>>     computation and RTK is working for point sources.
>>>>
>>>>
>>>>         3) One output image is called secondary.mha. First, I thought
>>>>         this image would represent secondary scatter events. But in
>>>>         the GATE wiki it says that secondary = compton + rayleigh. Is
>>>>         their a way to obtain a secondary scatter (multiple scatter)
>>>>         image?
>>>>
>>>>     It used to be possible but I think we have removed it to
>>>>     "minimize" the number of options. You can try (but I don't
>>>>     guarantee it works) to add a line in the code, e.g. around line
>>>>     57 of GateFixedForcedDetectionActor.cc:
>>>>     mPerOrderImagesBaseName="order";
>>>>     It will then create an image of the form
>>>>     "orderRayleigh0004_order02.mha" for the second order of the
>>>>     rayleigh projection number 4.
>>>>     Simon
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>         I would appreciate any help!
>>>>
>>>>         Nico
>>>>
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>>>>         <mailto:Gate-users at lists.opengatecollaboration.org>
>>>>
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>>>>
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>>>>
>>>>
>>>
>>>
>>
>>
>>
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