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Dear Zhengzhi ,</div>
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You are right saying the documentation about voxelized phantom is deprecated, especially for image insertion.<br>
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Here is some working code for a typical phantom. Be careful of the path in your code and in your image header and everything should be fine.</div>
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However, I cannot answer for the visu.<br>
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Cheers,</div>
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Emilie</div>
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<span>/gate/source/addSource voxel voxel<br>
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<div>/gate/source/voxel/reader/insert image<br>
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<div>/gate/source/voxel/imageReader/translator/insert range<br>
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<div>/gate/source/voxel/imageReader/rangeTranslator/readTable {path-to-activity-dat-from-this-mac}<br>
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<div>/gate/source/voxel/imageReader/rangeTranslator/describe 1<br>
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<div># The default position of the voxellized source is in the 1^{st}<br>
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<div># quarter. So the voxellized source has to be shifted over half its<br>
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<div># dimension (dimension = dimImgXYZ * dimVoxXYZ)in the negative direction on each axis<br>
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<div>/gate/source/voxel/setPosition -90 -90 -90 mm<br>
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<div>/gate/source/voxel/imageReader/readFile {path-to-header-from-this-mac}<br>
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<div>/gate/source/voxel/gps/particle e+<br>
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<div>/gate/source/voxel/gps/energytype Fluor18<br>
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<div>/gate/source/voxel/setForcedUnstableFlag true<br>
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<div>/gate/source/voxel/setForcedHalfLife 6586.2 s<br>
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<div>/gate/source/voxel/gps/angtype iso<br>
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<div>/gate/source/voxel/dump 1<br>
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<span>/gate/source/list</span></div>
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<div id="divRplyFwdMsg" dir="ltr"><font style="font-size:11pt" face="Calibri, sans-serif" color="#000000"><b>De :</b> Gate-users <gate-users-bounces@lists.opengatecollaboration.org> de la part de Zhengzhi Liu <zliu36@stanford.edu><br>
<b>Envoyé :</b> 26 février 2020 18:59<br>
<b>À :</b> gate-users@lists.opengatecollaboration.org <gate-users@lists.opengatecollaboration.org>; lomahu@gmail.com <lomahu@gmail.com>; 강한규 <lovehangulp@naver.com><br>
<b>Objet :</b> [Gate-users] Voxelized source and phantom in benchImageNavigators</font>
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<div dir="ltr">Dear Han Gyu, Howard, and Gate users,
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<div>(I noticed from the previous emails that you two are using voxelized source and phantom, thus I send this email to you. )</div>
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<div>I tried to import voxelized source and phantom in PET GATE simulation by following the <a href="https://can01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FOpenGATE%2FGate%2Ftree%2Fdevelop%2Fbenchmarks%2FbenchImageNavigators%2Fpet&data=02%7C01%7CEmilie.Odette.Gaudin%40USherbrooke.ca%7C5a0fdfecb92f41327dee08d7bb181412%7C3a5a8744593545f99423b32c3a5de082%7C0%7C0%7C637183584400280037&sdata=EWD5fXak7Z6BJEkq10UUv3BD%2F4r6eNyw3caHQrS9C7w%3D&reserved=0" originalsrc="https://github.com/OpenGATE/Gate/tree/develop/benchmarks/benchImageNavigators/pet" shash="FIFnoI+Q3EsKKLvmWo6/flUHSUxt1B4A6WxXCqAG0igYjxtNwEOucvgN5oQLGbmdFdnGxuacyPiOp9OfAaUsWhtIYZhz9Qmc6/NAe93fk20nYOJjZC/Y3Khq3dyW3obCWkWPb8WKyEf5nWNIPe3LLelOG2Q8KDiiuhPobP2n6KE=" target="_blank">benchImageNavigators</a>
example provided in GATE 8.2 package. However, I can't even get example code work. I have two problems with the example code: <br>
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<li>Visualization issue: the qt viewer would automatically close and leaves me no time to visually check the voxelized source or voxelized phantom;</li><li>Running issue: the example can't run and keep throwing the warning message as shown in the attached screenshot, and no actual output is generated but an empty root file. </li></ol>
<div>I believe importing PET/CT image has become very mature in GATE simulation. Could anyone give any help with running this example code? </div>
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<div>I am very appreciative of your help. </div>
<div>Sincerely,</div>
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<div>Zhengzhi </div>
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