<html> <head> <meta http-equiv="Content-Type" content="text/html; charset=iso-8859-1"> </head> <body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "> Hi Taro! <div><br> </div> <div>Look at the message it's giving you carefully, then look at your macro.</div> <div><br> </div> <div>You gave an activity range data file for your phantom definition, which is wrong.</div> <div><br> </div> <div>For a voxelized phantom, you need to give it an attenuation range data file. In the activity range file, there are no materials; that's why the message says it's looking for material " " in your material database.</div> <div><br> </div> <div>Have a look at the Voxelized Phantom/Source example in the Gate folder. You need an activity range file and an attenuation range file.</div> <div><br> </div> <div>Cheers!<br> <div apple-content-edited="true"><span class="Apple-style-span" style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: 2; text-align: -webkit-auto; text-indent: 0px; text-transform: none; white-space: normal; widows: 2; word-spacing: 0px; border-spacing: 0px; -webkit-text-decorations-in-effect: none; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px; font-size: medium; "> <div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "> <div>Marc</div> <div><br> </div> <div><br> </div> <div><br> </div> <div>__________________________</div> <div><br> </div> <div>Marc Chamberland, MSc</div> PhD candidate<br> Department of Physics<br> Carleton University<br> Ottawa (ON)</div> </span></div> <br> <div> <div>Le 2012-09-09 à 10:14 PM, <<a href="mailto:dankemori@yahoo.co.jp">dankemori@yahoo.co.jp</a>></div> <div> a écrit :</div> <br class="Apple-interchange-newline"> <blockquote type="cite"> <div> <div style="background-color: rgb(255, 255, 255); font-family: 'MS PGothic', sans-serif; font-size: 12pt; "> <div style="font-family: 'MS PGothic', sans-serif; font-size: 12pt; ">Hello dear GATE users.</div> <div style="font-family: 'MS PGothic', sans-serif; font-size: 12pt; "><br> </div> <div style="font-family: 'MS PGothic', sans-serif; font-size: 12pt; ">I'm trying to simulate a Voxelized Phantom(Brain Phantom) in a PET system now.</div> <div style="font-family: 'MS PGothic', sans-serif; font-size: 12pt; ">I defined phantom and source according to Users Guide as follows</div> <div style="font-family: 'MS PGothic', sans-serif; font-size: 12pt; "><br> </div> <div> <div><font face="MS PGothic, sans-serif"># B R A I N P H A N T O M</font></div> <div><font face="MS PGothic, sans-serif">/gate/world/daughters/name hoffman</font></div> <div><font face="MS PGothic, sans-serif">/gate/world/daughters/insert parameterizedBoxMatrix</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/geometry/insertReader interfile</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/interfileReader/insertTranslator range</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/interfileReader/rangeTranslator/readTable activityRange.dat</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/interfileReader/rangeTranslator/describe 1</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/interfileReader/readFile hof3.h33</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/placement/setTranslation 0. 0. 0. mm</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/placement/setRotationAxis 1 0 0</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/placement/setRotationAngle 0 deg</font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/attachVoxelPhantomSD</font></div> <div><font face="MS PGothic, sans-serif"><br> </font></div> <div><font face="MS PGothic, sans-serif">/gate/hoffman/addOutput doseOutput</font></div> <div><font face="MS PGothic, sans-serif">/gate/output/doseOutput/saveUncertainty true</font></div> <div><font face="MS PGothic, sans-serif">/gate/output/doseOutput/setFileName hoffman_paraDose.bin</font></div> <div><font face="MS PGothic, sans-serif"><br> </font></div> <div><font face="MS PGothic, sans-serif"> <div>#<span class="Apple-tab-span" style="white-space:pre"> </span>B R A I N </div> <div>/gate/source/addSource voxel voxel</div> <div>/gate/source/voxel/reader/insert interfile </div> <div>/gate/source/voxel/interfileReader/translator/insert range</div> <div>/gate/source/voxel/interfileReader/rangeTranslator/readTable activityRange.dat</div> <div>/gate/source/voxel/interfileReader/rangeTranslator/describe 1</div> <div>/gate/source/voxel/interfileReader/readFile hof.h33</div> <div>/gate/source/voxel/interfileReader/verbose 1</div> <div>/gate/source/voxel/setType backtoback</div> <div>/gate/source/voxel/setAccolinearityFlag true</div> <div>/gate/source/voxel/setAccoValue 0.5 deg</div> <div>/gate/source/voxel/gps/particle gamma</div> <div>/gate/source/voxel/gps/energytype Mono</div> <div>/gate/source/voxel/gps/monoenergy 0.511 MeV</div> <div>/gate/source/voxel/gps/angtype iso</div> <div>/gate/source/voxel/gps/mintheta 0. deg</div> <div>/gate/source/voxel/gps/maxtheta 180. deg</div> <div>/gate/source/voxel/gps/minphi 0. deg</div> <div>/gate/source/voxel/gps/maxphi 360. deg</div> <div>/gate/source/voxel/gps/confine NULL</div> <div>/gate/source/voxel/setPosition -128. -128. 0. mm</div> <div>/gate/source/voxel/dump 1</div> <div><br> </div> <div><br> </div> <div><br> </div> <div>But I had the following warnings:</div> <div><br> </div> <div>-----------------------------------------------------------------------------------------------</div> <div><br> </div> <div> <div>PreInit> /gate/world/daughters/insert parameterizedBoxMatrix</div> <div>/gate/world/daughters/insert parameterizedBoxMatrix</div> <div>GateVoxelBoxParameterizedInserter::ConstructGeometry - Warning ! ConstructGeometry called without a reader</div> <div>world_L is registered to the default region.</div> <div> Volume of the same name and copy number ("world_P", copy 0) still exists and is being used.</div> <div> WARNING: This does not necessarily guarantee it's the same</div> <div> volume you originally specified in /vis/scene/add/.</div> <div>/vis/scene/notifyHandlers scene-0</div> <div><br> </div> <div>PreInit> /gate/hoffman/geometry/insertReader interfile</div> <div>/gate/hoffman/geometry/insertReader interfile</div> <div><br> </div> <div>PreInit> /gate/hoffman/interfileReader/insertTranslator range</div> <div>/gate/hoffman/interfileReader/insertTranslator range</div> <div><br> </div> <div>PreInit> /gate/hoffman/interfileReader/rangeTranslator/readTable activityRange.dat</div> <div>/gate/hoffman/interfileReader/rangeTranslator/readTable activityRange.dat</div> <div>GateGeometryVoxelRangeTranslator::ReadFile : fileName: activityRange.dat</div> <div> GateMDBFile::ReadItem: I could not find the item '' in section [Materials] of the material database. </div> <div> GateMaterialDatabase: could not download the definition for ''</div> <div>GateMaterialDatabase: failed to read the material '' in the database file!</div> <div><br> </div> <div>PreInit> /gate/hoffman/interfileReader/rangeTranslator/describe 1</div> <div>/gate/hoffman/interfileReader/rangeTranslator/describe 1</div> <div> Range Translator</div> <div><br> </div> <div>!!! GateMDBFile::LookForElementIndbStream: </div> <div><span class="Apple-tab-span" style="white-space:pre"></span>I could not find any section [Materials] in the material database file. </div> <div><span class="Apple-tab-span" style="white-space:pre"></span>You should check the database file.</div> <div><span class="Apple-tab-span" style="white-space:pre"></span>Computation aborted!!!</div> <div><br> </div> <div><br> </div> <div>*** G4Exception: Aborting execution ***</div> <div>Aborted</div> <div><br> </div> <div>----------------------------------------------------------------------------------------------- <br> </div> <div><br> </div> <div><br> </div> <div>Any kind of hints or solutions to my problem are appreciated.</div> <div><br> </div> <div><br> </div> <div>Thank you </div> <div><br> </div> <div>*************************</div> <div>Taro Kanamaru</div> <div><br> </div> <div>Tohoku University Japan</div> <div><br> </div> <div>email: <a href="mailto:dankemori@yahoo.co.jp">dankemori@yahoo.co.jp</a></div> <div>************************* <br> </div> </div> </font></div> </div> </div> </div> _______________________________________________<br> Gate-users mailing list<br> <a href="mailto:Gate-users@lists.opengatecollaboration.org">Gate-users@lists.opengatecollaboration.org</a><br> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</blockquote> </div> <br> </div> </body> </html>