<div dir="ltr"><div>Please have a look here:</div><div> </div><div><a href="http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2">http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2</a></div><div> </div> <div><a href="http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2:Source">http://wiki.opengatecollaboration.org/index.php/Users_Guide_V6.2:Source</a></div></div><div class="gmail_extra"> <div>Loīc </div> <div class="gmail_quote">2013/5/14 Joulaeizadeh, (L) , Mrs <<a href="mailto:LJoulaeizadeh@vsl.nl" target="_blank">LJoulaeizadeh@vsl.nl</a>> <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"> <div lang="NL" vlink="purple" link="blue"><div>Hi Loic, Thanks for your answer. That means with the method I described in the previous email, if I use 1 for the intensity and skip (/gate/source/PBS/SetSpotIntensityAsNbProtons true ) then I should be able to write the results per spot in output file. Is that correct? Could you please send me the address of wiki? For the pencil beam I found only a short description in the wiki. Thanks again<div class="im">Leila <a title="Holand Metrology" href="http://www.hollandmetrology.nl" target="_blank"></a> <table style="width:958px;min-height:211px" border="0" cellspacing="0" cellpadding="0"><tbody> <tr> <td width="94"><a title="" href="http://www.vsl.nl/" target="_blank"></a><a title="" href="http://www.vsl.nl" target="_blank"><img style="width: 68px; min-height: 160px;" border="0" hspace="0" alt="" src="cid:vsl_logo_rgba5772.jpg" width="68" height="160"></a></td> <td> VSL Mrs (L) Joulaeizadeh PhD Research Scientist - Ionizing Radiation Standards D <a href="tel:%2B31%2015%202691681" target="_blank" value="+31152691681">+31 15 2691681</a> T +31 15 2691500 <a title="" href="http://www.vsl.nl/" target="_blank">www.vsl.nl</a> <a title="Disclaimer VSL" href="http://www.vsl.nl/disclaimer" target="_blank">DISCLAIMER</a></td></tr></tbody></table> </div><div style="border-width:1pt medium medium;border-style:solid none none;border-color:rgb(181,196,223) currentColor currentColor;padding:3pt 0cm 0cm">From: Loic Grevillot [mailto:<a href="mailto:loic.grevillot@gmail.com" target="_blank">loic.grevillot@gmail.com</a>] Sent: dinsdag 14 mei 2013 13:37<div><div class="h5"> To: Joulaeizadeh, (L) , Mrs Cc: <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> Subject: Re: [Gate-users] Spot scanning using Pencil beam</div></div></div><div><div class="h5"> <div><div>Hi,</div> <div> </div><div>So, just to be clear in what we are talking about:</div><div>- spot canning is a treatment technique in which you scan a pencil beam </div><div>- a treatment is made of one or several field of treatment</div><div>- a field is made of different energy layers, creating a kind of "SOBP" </div><div>- a layer is made of spots</div><div>- each spot has a position X, Y, an energy E and an intensity (or weight) given in MU or number of protons (/gate/source/PBS/SetSpotIntensityAsNbProtons true ) </div><div> </div><div>The delivery of a field is "random", in the sense that each spot of the field is delivered according to its intensity: a spot with intensity 2 will be sampled 2 times more frequently that a spot with intensity 1 ( see wiki documentation). </div><div> </div><div>So either you can modify the source code, so that the field delivery is not random, or you can run simulations spot by spot, simply by modifying your [plan_description_file] according to your needs. </div><div>This second option seems to me the better option. </div><div> </div><div>Sincerly, </div><div> </div><div>LG </div><div> </div></div><div> <div>Loīc</div> <div>2013/5/14 Joulaeizadeh, (L) , Mrs <<a href="mailto:LJoulaeizadeh@vsl.nl" target="_blank">LJoulaeizadeh@vsl.nl</a>><div><div>Hi, Is there really not a way to separate the dose pattern of different spots in the output? In my simulation, if I for example simulate 100 protons for two spot scanning and change the name of the output file after every 50 protons simulated, still in every output file I see a mixture of dose pattern from both spots. In the plan description file, I define the spot position and use the weight of 50 as the number of protons should be simulated for that spot. In addition in the main macro I use /gate/source/PBS/SetSpotIntensityAsNbProtons true Where Im making mistake to your opinion? p.s.: Loic its impractical to run the simulation for every spot separately even if I use the command SetNotAllowedFielsID 1. Thanks <div>Leila <table style="width:718.5pt;min-height:211px" border="0" cellspacing="0" cellpadding="0" width="958"><tbody><tr><td style="padding:0cm;width:70.5pt" width="94"><a title="" href="http://www.vsl.nl" target="_blank"><img border="0" src="cid:image001.jpg@01CE50AB.19EEE780" width="68" height="160"></a> </td><td style="padding:0cm"> VSL Mrs (L) Joulaeizadeh PhD Research Scientist - Ionizing Radiation Standards D <a href="tel:%2B31%2015%202691681" target="_blank">+31 15 2691681</a> T <a href="tel:%2B31%2015%202691500" target="_blank" value="+31152691500">+31 15 2691500</a> <a title="" href="http://www.vsl.nl/" target="_blank">www.vsl.nl</a> <a title="Disclaimer VSL" href="http://www.vsl.nl/disclaimer" target="_blank">DISCLAIMER</a> </td></tr></tbody></table> </div><div style="border-width:1pt medium medium;border-style:solid none none;border-color:currentColor;padding:3pt 0cm 0cm"> From: Loic Grevillot [mailto:<a href="mailto:loic.grevillot@gmail.com" target="_blank">loic.grevillot@gmail.com</a>] Sent: dinsdag 7 mei 2013 12:17<div><div> To: Joulaeizadeh, (L) , Mrs Cc: <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> Subject: Re: [Gate-users] Spot scanning using Pencil beam</div></div></div><div><div> <div><div>I do not understand exactly your issues, but what I know is that if you run one simulation for one spot, you have the dose for this spot. </div><div>I you do so for each spot, you will have a different output for each spot, which is I think answer your first questions.</div><div>You can then sum-up all doses for all spots together if you like. </div><div>If you wish to obtain directly one output per spot in a single simulation, you have to modify the source code I guess.</div><div> </div> <div>Hope this help,</div><div> </div><div>Loīc</div><div> </div> </div><div> <div>Loīc</div> <div>2013/5/7 Joulaeizadeh, (L) , Mrs <<a href="mailto:LJoulaeizadeh@vsl.nl" target="_blank">LJoulaeizadeh@vsl.nl</a>> <div><div>Hi Loic,I need to run the simulation of all the spots once since I need to use different output files of one simulation to later calculate the heat transport by time in a water phantom. Any other idea to solve the problem?<div> Leila <table style="width:718.5pt;min-height:211px" border="0" cellspacing="0" cellpadding="0" width="958"> <tbody><tr><td style="padding:0cm;width:70.5pt" width="94"><a title="" href="http://www.vsl.nl" target="_blank"><img border="0" src="cid:image001.jpg@01CE50AB.19EEE780" width="68" height="160"></a> </td><td style="padding:0cm"> VSL Mrs (L) Joulaeizadeh PhD Research Scientist - Ionizing Radiation Standards D <a href="tel:%2B31%2015%202691681" target="_blank">+31 15 2691681</a> T <a href="tel:%2B31%2015%202691500" target="_blank">+31 15 2691500</a> <a title="" href="http://www.vsl.nl/" target="_blank">www.vsl.nl</a> <a title="Disclaimer VSL" href="http://www.vsl.nl/disclaimer" target="_blank">DISCLAIMER</a> </td></tr></tbody></table> </div><div style="border-width:1pt medium medium;border-style:solid none none;border-color:currentColor;padding:3pt 0cm 0cm"> From: Loic Grevillot [mailto:<a href="mailto:loic.grevillot@gmail.com" target="_blank">loic.grevillot@gmail.com</a>] Sent: dinsdag 7 mei 2013 11:51 To: Joulaeizadeh, (L) , Mrs Cc: <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> Subject: Re: [Gate-users] Spot scanning using Pencil beam </div><div> <div><div>You may try to run one simulation for the first spot and another for the second spot, or to separate them per field, using this command: </div><div>#/gate/source/PBS/setNotAllowedFieldID 1</div></div></div><div> <div>Loīc</div> <div><div>2013/5/7 Joulaeizadeh, (L) , Mrs <<a href="mailto:LJoulaeizadeh@vsl.nl" target="_blank">LJoulaeizadeh@vsl.nl</a>></div><div><div><div> Dear Gate-Users,I would like to scan two separate spots using a proton pencil beam. I would like to scan the first spot, write the dose in a first output file (can be root file), then scan the second spot and write the dose in the second output file. The problem is that one dose file is not specified to one spot and in every dose file I see the information of two spots. Does anyone know how can I have separate output per separate spot? My planning file and main macro are attached to this email in case you would like to have a look. Any help would be appreciated. Leila </div> </div><table style="width:718.5pt;min-height:211px" border="0" cellspacing="0" cellpadding="0" width="958"> <tbody><tr><td style="padding:0cm;width:70.5pt" width="94"></td><td style="padding:0cm"><a title="" href="http://www.vsl.nl" target="_blank"> VSL</a> <div><a title="" href="http://www.vsl.nl" target="_blank"> Mrs (L) Joulaeizadeh PhD</a> <a title="" href="http://www.vsl.nl" target="_blank"> Research Scientist - Ionizing Radiation Standards</a> <a title="" href="http://www.vsl.nl" target="_blank"> D +31 15 2691681</a> <a title="" href="http://www.vsl.nl" target="_blank"> T +31 15 2691500 </a> <a title="" href="http://www.vsl.nl" target="_blank"> </a><a title="" href="http://www.vsl.nl" target="_blank"> www.vsl.nl</a> <a title="" href="http://www.vsl.nl" target="_blank"> </a> <a title="" href="http://www.vsl.nl" target="_blank"> DISCLAIMER</a> </div></td></tr></tbody></table><a title="" href="http://www.vsl.nl" target="_blank"> </a> <a title="" href="http://www.vsl.nl" target="_blank"> </a><a title="" href="http://www.vsl.nl" target="_blank"> </a> </div><div><a title="" href="http://www.vsl.nl" target="_blank"> _______________________________________________ Gate-users mailing list Gate-users@lists.opengatecollaboration.org http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a></div></div><a title="" href="http://www.vsl.nl" target="_blank"> </a> </div></div></div></div> </div></div></div></div></div></div> </div></div></div></div></div></blockquote></div> </div>