<div dir="ltr">Hi Marcin,<br><br>Now RAW output (in Gate_v4.0.0) could do the same thing, is less boring, and could be as precise as you want.<br>This output directly stores in a raw matrix (float 32 bits format) the sourcePosX, Y and Z position of each detected events (Singles and/or Coincidences).<br>
Then you can visualize it with any imaging tool (ImageJ for example).<br><br>Cheers,<br>Simon<br><br><div class="gmail_quote">On Wed, Oct 8, 2008 at 11:49 AM, Marcin Balcerzyk <span dir="ltr"><<a href="mailto:m.balcerzyk@pluri.ucm.es">m.balcerzyk@pluri.ucm.es</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<div link="blue" vlink="purple" lang="ES">
<div>
<p><span lang="EN-US">Message: 2</span></p>
<p><span lang="EN-US">Date: Fri, 3 Oct 2008 12:53:55 +0100</span></p>
<p><span lang="EN-US">From: "Liliana Caldeira"
<<a href="mailto:llcaldeira@gmail.com" target="_blank">llcaldeira@gmail.com</a>></span></p>
<p><span lang="EN-US">Subject: [Gate-users] Visualize Source</span></p>
<p><span lang="EN-US">To: "Users Gate"
<<a href="mailto:gate-users@lists.healthgrid.org" target="_blank">gate-users@lists.healthgrid.org</a>></span></p>
<p><span lang="EN-US">Message-ID:</span></p>
<p><span lang="EN-US"> <<a href="mailto:d5669d5a0810030453q12f59aa9hbf69f1aad44ad62e@mail.gmail.com" target="_blank">d5669d5a0810030453q12f59aa9hbf69f1aad44ad62e@mail.gmail.com</a>></span></p>
<p><span lang="EN-US">Content-Type: text/plain;
charset=ISO-8859-1</span></p><div class="Ih2E3d">
<p><span lang="EN-US"> </span></p>
<p><span lang="EN-US">Hello everyone!</span></p>
<p><span lang="EN-US"> </span></p>
<p><span lang="EN-US">How can I visualize a source? I can see
everything except the source.</span></p>
<p><span lang="EN-US">I just want to be sure I locate it
right.</span></p>
<p><span lang="EN-US">I am trying to simulate according to
NEMA-NU 2001. It is a cylinder with a line source inside (both 70 cm length ).</span></p>
<p><span lang="EN-US"> </span></p>
</div><p>Thank you,</p>
<p>Liliana Caldeira</p>
<p><span lang="PL"> </span></p>
<p><span lang="PL">Hi Liliana.</span></p>
<p><span lang="PL"> </span></p>
<p><span lang="EN-US">Depending on what you want to do:</span></p>
<p><span lang="EN-US"> </span></p>
<p style="text-indent: -18pt;"><span lang="EN-US"><span>1.<span>
</span></span></span><span lang="EN-US">To visualize the VOLUME where
the source is located, there is no command for visualize the source, as far as
I know. Instead create a daughter object to the world which has the same shape and
location that your source (remember HalfZ trick for a source), visualize it
normally, but do not attach any sensitive detector to it.</span></p>
<p style="text-indent: -18pt;"><span lang="EN-US"><span>2.<span>
</span></span></span><span lang="EN-US">To see the ACTIVITY in the
source is a bit more tricky: </span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>a.<span>
</span></span></span><span lang="EN-US">Run your simulation for some
reasonable time, that you for example have a few thousands of decay events,
specifying a root output and what type of events of the source you want to see:</span></p>
<p style="margin-left: 108pt; text-indent: -108pt;"><span lang="EN-US"><span><span>
</span>i.<span>
</span></span></span><span lang="EN-US">Enable root output /gate/output/root/setFileName
myFile</span></p>
<p style="margin-left: 108pt; text-indent: -108pt;"><span lang="EN-US"><span><span>
</span>ii.<span>
</span></span></span><span lang="EN-US">/gate/output/root/setRootSinglesFlag
1 if you wish to see source events which lead to detected singles</span></p>
<p style="margin-left: 108pt; text-indent: -108pt;"><span lang="EN-US"><span><span>
</span>iii.<span>
</span></span></span><span lang="EN-US">/gate/output/root/setRootCoincidencesFlag
1 if you wish to see source events which lead to detected coincidences</span></p>
<p style="margin-left: 108pt; text-indent: -108pt;"><span lang="EN-US"><span><span>
</span>iv.<span>
</span></span></span><span lang="EN-US">I discourage you to view source
events from Hits tree, as the events would be doubled, and very large, but it
can be done.</span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>b.<span>
</span></span></span><span lang="EN-US">Start root, enter TBrowser t
command, and browse for your root file myFile.root, open it that you see in the
right pane trees (folders), for example Singles and Coincidences as minimum.</span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>c.<span>
</span></span></span><span lang="EN-US">RIGHT-click, the tree you want
to visualize, for example Singles. Choose StartViewer command, just before the
second horizontal line. This opens a TreeViewer.</span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>d.<span>
</span></span></span><span lang="EN-US">In right pane you will see
x:empty, y:empty, z:empty . Drag onto respective ones leaves: sourcePosX,
sourcePosY, sourcePosZ.</span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>e.<span>
</span></span></span><span lang="EN-US">In the left lower corner the
first button, next to STOP is Draw current selection. Press it. This
opens a 3D mouse rotable XYZ view of the events. </span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>f.<span>
</span></span></span><span lang="EN-US">If there is too many of them
(like Singles), try to draw Coincidences.</span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>g.<span>
</span></span></span><span lang="EN-US">With this method you can view
detected events, using globalPosX, Y, Z variables. You cannot view the
scanner geometry with this.</span></p>
<p style="margin-left: 72pt; text-indent: -18pt;"><span lang="EN-US"><span>h.<span>
</span></span></span><span lang="EN-US">What I wrote, applies to Gate
3.0.0 and related root 5.12. It looks, that Gate 4.0.0 does not provide the
ability to visualize the source either.</span></p>
<p><span lang="EN-US"> </span></p>
<p><span lang="EN-US">I hope that helps.</span></p>
<p><span lang="EN-US"> </span></p>
<p><span lang="PL">Marcin Balcerzyk</span></p>
<p>Universidad Compultense de Madrid</p>
<p> </p>
</div>
</div>
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