<div dir="ltr">Hi Jon,<div><br></div><div style>Yes the collimator is attached to the phantomSD. </div><div style><br></div><div style>When I run my code with the </div><div style><br></div><div style><div style="font-family:arial,sans-serif;font-size:13px">
<span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/output/analysis/recordSeptalPenetration true</span></div><div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/output/analysis/setSeptalVolumeName collimator</span></div>
<div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:1.1em;background-color:rgb(249,249,249)"><br></span></div><div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:14.296875px">I don't get errors or anything like that...the code works fine. I just don't get any output related to septal penetration information.</span></div>
</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, Mar 13, 2013 at 7:44 AM, Jon Moody <span dir="ltr"><<a href="mailto:jbmoody@umich.edu" target="_blank">jbmoody@umich.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>I have not used this feature. When you
said you tried it and it didn't work what happened?<br>
Was the collimator attached to the phantomSD by the command<br>
<br>
/gate/collimator/attachPhantomSD<br>
<br>
--<br>
Jon<div><div class="h5"><br>
<br>
On 3/12/2013 5:52 PM, Carlos Uribe wrote:<br>
</div></div></div><div><div class="h5">
<blockquote type="cite">
<div dir="ltr">Thanks for the reply Jonathan..
<div><br>
</div>
<div>
<div style="font-family:arial,sans-serif;font-size:13px">Do
you know then how can I use </div>
<div style="font-family:arial,sans-serif;font-size:13px"><br>
</div>
<div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/output/analysis/recordSeptalPenetration
true</span></div>
<div style="font-family:arial,sans-serif;font-size:13px">
<span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/output/analysis/setSeptalVolumeName
collimator</span></div>
</div>
<div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:1.1em;background-color:rgb(249,249,249)"><br>
</span></div>
<div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:1.1em;background-color:rgb(249,249,249)">with
this way of specifying the collimator?</span></div>
<div style="font-family:arial,sans-serif;font-size:13px">
<span style="line-height:1.1em;background-color:rgb(249,249,249)"><br>
</span></div>
<div style="font-family:arial,sans-serif;font-size:13px"><span style="line-height:1.1em;background-color:rgb(249,249,249)">Carlos</span></div>
</div>
<div class="gmail_extra"><br>
<br>
<div class="gmail_quote">On Tue, Mar 12, 2013 at 11:18 AM,
Jonathan Moody <span dir="ltr"><<a href="mailto:jbm139@gmail.com" target="_blank">jbm139@gmail.com</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div bgcolor="#FFFFFF" text="#000000">
<div>Hi Carlos,<br>
<br>
I think "parallelbeam" collimator construction has not
been working right since Gate v.5.0.0, so the other
option is to use cubicArray and linear repeaters as
Giuseppe mentioned. In this case, the septal thickness
is defined implicitly in the two repeatVectors. For
hexagonal shaped holes the second and third components
of the cubicArray repeatVector are:<br>
<br>
Ry = hole_diameter + septal_thickness<br>
Rz = Ry * sqrt(3)<br>
<br>
where hole_diameter is defined across the flat sides.
The corresponding two components of the linear
repeatVector are:<br>
<br>
Ly = Ry / 2 <br>
Lz = Rz / 2 <br>
<br>
(the x-components of both repeatVectors are 0). Then
the cubicArray repeatNumberY/Z determine the number of
holes in each direction divided by 2.<br>
--<br>
Jon
<div>
<div><br>
<br>
<br>
On 3/12/2013 1:16 PM, Carlos Uribe wrote:<br>
</div>
</div>
</div>
<div>
<div>
<blockquote type="cite">
<div dir="ltr">Hi Giuseppe,
<div><br>
</div>
<div>Thanks for your reply...I tried it but it
still doesn't solve the problem.</div>
<div><br>
</div>
<div>I know that I can use your specified macro to
create a collimator step by step. However, I do
want to use the option given in the guide using
the </div>
<div><br>
</div>
<div>/gate/SPECThead/daughters/insert parallelbeam<br>
</div>
<div><br>
</div>
<div>This has a parameter that specifies the
septal thickness</div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)"><br>
</span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/colli/geometry/setSeptalThickness
0.2 cm </span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)"><br>
</span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)">I
guess I will be able to track the septal
penetration using</span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)"><br>
</span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/output/analysis/recordSeptalPenetration
true</span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)">/gate/output/analysis/setSeptalVolumeName
collimator</span></div>
<div><span style="line-height:1.1em;background-color:rgb(249,249,249)"><br>
</span></div>
<div><font color="#000000"><span style="line-height:14.296875px">I've tried
this using the macro that you suggested and
it doesn't work. I assume that you need to
set the septal thickness shown in the
guide's example. If there's another way
that someone knows to make it work please
let me know.</span></font></div>
<div><font color="#000000"><span style="line-height:14.296875px"><br>
</span></font></div>
<div><font color="#000000"><span style="line-height:14.296875px">Thanks,</span></font></div>
<div><font color="#000000"><span style="line-height:14.296875px"><br>
</span></font></div>
<div><font color="#000000"><span style="line-height:14.296875px">Carlos</span></font></div>
<div><font color="#000000"><span style="line-height:14.296875px"><br>
</span></font></div>
</div>
<div class="gmail_extra"> <br>
<br>
<div class="gmail_quote">On Tue, Mar 12, 2013 at
5:26 AM, Giuseppe Magro <span dir="ltr"><<a href="mailto:beppe.magro@gmail.com" target="_blank">beppe.magro@gmail.com</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div dir="ltr">
<div><br>
</div>
/gate/colli/setMaterial Lead<br>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">(instead of
setMaterialName)</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra"> Example (shielding
as mother volume):</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">
<div class="gmail_extra">#=====================================</div>
<div class="gmail_extra"># Collimator</div>
<div class="gmail_extra">#=====================================</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">/gate/shielding/daughters/name
collimator</div>
<div class="gmail_extra">/gate/shielding/daughters/insert
box</div>
<div class="gmail_extra">/gate/collimator/geometry/setXLength
3. cm</div>
<div class="gmail_extra">/gate/collimator/geometry/setYLength
19. cm</div>
<div class="gmail_extra">/gate/collimator/geometry/setZLength
28. cm</div>
<div class="gmail_extra">/gate/collimator/placement/setTranslation
-2. 0. 0. cm</div>
<div class="gmail_extra">/gate/collimator/setMaterial
Lead</div>
<div class="gmail_extra">/gate/collimator/vis/setColor
red</div>
<div class="gmail_extra">
/gate/collimator/vis/forceWireframe</div>
<div class="gmail_extra">/gate/collimator/describe</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">/gate/collimator/daughters/name
hole</div>
<div class="gmail_extra">
/gate/collimator/daughters/insert
hexagone</div>
<div class="gmail_extra">/gate/hole/geometry/setHeight
3. cm</div>
<div class="gmail_extra">/gate/hole/geometry/setRadius
.15 cm</div>
<div class="gmail_extra">/gate/hole/placement/setRotationAxis
0 1 0</div>
<div class="gmail_extra">/gate/hole/placement/setRotationAngle
90 deg</div>
<div class="gmail_extra">/gate/hole/placement/setTranslation
0. -0.25 -0.25 cm #</div>
<div class="gmail_extra">/gate/hole/setMaterial
Air</div>
<div class="gmail_extra">
/gate/hole/describe</div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">/gate/hole/repeaters/insert
cubicArray</div>
<div class="gmail_extra">/gate/hole/cubicArray/setRepeatNumberX
1</div>
<div class="gmail_extra">
/gate/hole/cubicArray/setRepeatNumberY
18 #9</div>
<div class="gmail_extra">/gate/hole/cubicArray/setRepeatNumberZ
27 #9</div>
<div class="gmail_extra">/gate/hole/cubicArray/setRepeatVector
0. 1. 1. cm</div>
<div class="gmail_extra">
/gate/hole/cubicArray/autoCenter true
#false </div>
<div class="gmail_extra"><br>
</div>
<div class="gmail_extra">/gate/hole/repeaters/insert
linear</div>
<div class="gmail_extra">/gate/hole/linear/setRepeatNumber
2</div>
<div class="gmail_extra">
/gate/hole/linear/setRepeatVector 0. 0.5
0.5 cm</div>
<div class="gmail_extra">/gate/hole/linear/autoCenter
false </div>
<div><br>
</div>
<div><br>
</div>
<div>Regards,</div>
<div><br>
</div>
<div>Giuseppe M.</div>
<div>PhD Student - CNAO <br>
</div>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">On 12 March 2013
12:00, <span dir="ltr"><<a href="mailto:gate-users-request@lists.opengatecollaboration.org" target="_blank">gate-users-request@lists.opengatecollaboration.org</a>></span>
wrote:<br>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-color:rgb(204,204,204);border-left-style:solid;padding-left:1ex">Send
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<br>
When replying, please edit your
Subject line so it is more specific<br>
than "Re: Contents of Gate-users
digest..."<br>
<br>
<br>
Today's Topics:<br>
<br>
1. Parallel hole Collimator (Carlos
Uribe)<br>
2. Re: ASCII output (Carlos Uribe)<br>
3. Re: Process for Photon
Evaporation (Hermann Fuchs)<br>
<br>
<br>
----------------------------------------------------------------------<br>
<br>
Message: 1<br>
Date: Mon, 11 Mar 2013 11:31:41 -0700<br>
From: Carlos Uribe <<a href="mailto:carluri@phas.ubc.ca" target="_blank">carluri@phas.ubc.ca</a>><br>
To: "<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>"<br>
<<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>><br>
Subject: [Gate-users] Parallel hole
Collimator<br>
Message-ID:<br>
<CAPJy_1TcFTKwiEpu_Zicc=+<a href="mailto:UKYN3hfHMjvhumfzWL6AxyZ%2B1Sg@mail.gmail.com" target="_blank">UKYN3hfHMjvhumfzWL6AxyZ+1Sg@mail.gmail.com</a>><br>
Content-Type: text/plain;
charset="iso-8859-1"<br>
<br>
Hello everyone,<br>
<br>
I'm following the user's guide<br>
<a href="http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2:Defining_a_system" target="_blank">http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2:Defining_a_system</a><br>
trying to model a parallel hole
collimator.<br>
<br>
The guide shows the following example:<br>
<br>
/gate/SPECThead/daughters/name colli<br>
<br>
#specify that the parallel beam
collimator setup must be used<br>
/gate/SPECThead/daughters/insert
parallelbeam<br>
<br>
#set the collimator material<br>
/gate/colli/setMaterialName Lead<br>
<br>
#set the collimator dimensions<br>
/gate/colli/geometry/setDimensionX 70
cm<br>
/gate/colli/geometry/setDimensionY 80
cm<br>
<br>
#set the thickness of the collimator<br>
/gate/colli/geometry/setHeight 3 cm<br>
<br>
#specify the hole radius<br>
/gate/colli/geometry/setInnerRadius
0.5 cm<br>
<br>
#set the septal thickness to the
required distance between the holes<br>
/gate/colli/geometry/setSeptalThickness
0.2 cm<br>
/gate/colli/placement/alignToX<br>
/gate/colli/placement/setRotationAxis
0 0 1<br>
/gate/colli/placement/setRotationAngle
-90 deg<br>
<br>
<br>
I'm getting a problem as follows:<br>
<br>
/opt/simulation/gate_v6.2/source/geometry/src/GateVVolume.cc
(l.179): The<br>
material of the volume side hole 1 is
not defined.<br>
<br>
Anyone knows how to fix this?<br>
<br>
Thanks,<br>
<br>
--<br>
Carlos F Uribe<br>
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<br>
------------------------------<br>
<br>
Message: 2<br>
Date: Mon, 11 Mar 2013 12:40:11 -0700<br>
From: Carlos Uribe <<a href="mailto:carluri@phas.ubc.ca" target="_blank">carluri@phas.ubc.ca</a>><br>
To: samira nezhad <<a href="mailto:sn90113@gmail.com" target="_blank">sn90113@gmail.com</a>><br>
Cc: "<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>"<br>
<<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>><br>
Subject: Re: [Gate-users] ASCII output<br>
Message-ID:<br>
<CAPJy_1QZT9uYF1VmobA3Mk2xMfS_2MRTmQfv41x=<a href="mailto:2nVvdJ2ssg@mail.gmail.com" target="_blank">2nVvdJ2ssg@mail.gmail.com</a>><br>
Content-Type: text/plain;
charset="iso-8859-1"<br>
<br>
I had the same problem and here is how
I fixed it<br>
<br>
In the <a href="http://GateConfiguration.h.in" target="_blank">GateConfiguration.h.in</a>
<<a href="http://gateconfiguration.h.in/" target="_blank">http://gateconfiguration.h.in/</a>>
file found<br>
within the home folder of Gate, change
this line:<br>
<br>
<br>
#cmakedefine GATE_USE_FILE
@GATE_USE_FILE@<br>
<br>
<br>
to this:<br>
<br>
#cmakedefine GATE_ANALYSIS_USE_FILE
@GATE_ANALYSIS_USE_FILE@<br>
<br>
<br>
Recompile Gate and it should now work!<br>
<br>
Cheers,<br>
<br>
Carlos<br>
<br>
<br>
On Sun, Mar 10, 2013 at 3:10 AM,
samira nezhad <<a href="mailto:sn90113@gmail.com" target="_blank">sn90113@gmail.com</a>>
wrote:<br>
<br>
> Dear all,<br>
><br>
> I need to ASCII output but by
gate6.2 i couldn't get it .<br>
> when use this command<br>
> /gate/output/ascii/enable<br>
><br>
> It gives this error message:<br>
><br>
> COMMAND NOT FOUND<br>
><br>
> I appreciate if you guide me,
thanks in advance<br>
><br>
> Best regards,<br>
><br>
><br>
><br>
>
_______________________________________________<br>
> Gate-users mailing list<br>
> <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a><br>
> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a><br>
><br>
> --<br>
> Carlos F Uribe<br>
><br>
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<br>
------------------------------<br>
<br>
Message: 3<br>
Date: Tue, 12 Mar 2013 10:11:10 +0100<br>
From: Hermann Fuchs <<a href="mailto:hermann.fuchs@meduniwien.ac.at" target="_blank">hermann.fuchs@meduniwien.ac.at</a>><br>
To: Carlos Uribe <<a href="mailto:carluri@phas.ubc.ca" target="_blank">carluri@phas.ubc.ca</a>><br>
Cc: "<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>"<br>
<<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>><br>
Subject: Re: [Gate-users] Process for
Photon Evaporation<br>
Message-ID:<br>
<<a href="mailto:1363079470.5371.3.camel@strahlen41.strahlen.meduniwien.ac.at" target="_blank">1363079470.5371.3.camel@strahlen41.strahlen.meduniwien.ac.at</a>><br>
Content-Type: text/plain;
charset="utf-8"<br>
<br>
That is an interesting question.<br>
<br>
Could you keep me informed on your
findings?<br>
If it isn't already in Gate it should
be easy to add.<br>
Just contact me and I can help you
with this or implement it for you.<br>
<br>
Best reards,<br>
Hermann<br>
<br>
On Fri, 2013-03-08 at 12:22 -0800,
Carlos Uribe wrote:<br>
> Hello everybody,<br>
><br>
><br>
><br>
> Can anyone please tell me which
process to add to my Physics list in<br>
> order to see the de-exitation of
the metastable daughter?<br>
><br>
><br>
> The parent follows a beta-minus
decay which works great except I don't<br>
> see the gammas generated by the
metastable daughter.<br>
><br>
><br>
> I am using<br>
> /gate/physics/addProcess
RadioactiveDecay<br>
><br>
><br>
> but apparently, Geant4 handles
the meta-stable states through the<br>
> existing photo-evaporation code;<br>
><br>
><br>
><br>
> How do I set the photon
evaporation process?<br>
><br>
><br>
> Thanks in advance,<br>
> --<br>
><br>
><br>
> Carlos F Uribe<br>
><br>
>
_______________________________________________<br>
> Gate-users mailing list<br>
> <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a><br>
> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a><br>
<br>
<br>
--<br>
-------------<br>
DI Hermann Fuchs<br>
Christian Doppler Laboratory for
Medical Radiation Research for
Radiation Oncology<br>
Department of Radiation Oncology<br>
Medical University Vienna<br>
W?hringer G?rtel 18-20<br>
A-1090 Wien<br>
<br>
Tel. <a href="tel:%2B%2043%20%2F%201%20%2F%2040%20400%207271" value="+431404007271" target="_blank">+ 43 / 1 / 40 400
7271</a><br>
Mail. <a href="mailto:hermann.fuchs@meduniwien.ac.at" target="_blank">hermann.fuchs@meduniwien.ac.at</a><br>
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<br>
End of Gate-users Digest, Vol 82,
Issue 20<br>
******************************************<br>
</blockquote>
</div>
<br>
</div>
</div>
<br>
_______________________________________________<br>
Gate-users mailing list<br>
<a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a><br>
<a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users<br clear="all">
<div><br>
</div>
-- <br>
Carlos F Uribe </a></blockquote>
</div>
</div>
<br>
<fieldset></fieldset>
<br>
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Carlos F Uribe<br clear="all"><div><br></div>-- <br>Carlos F Uribe
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