<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hello RTK Users,<div class=""><br class=""></div><div class="">I’m just getting started using RTK as part of my graduate research and was hoping that someone might be able to help me sort out an issue I’ve been having reconstructing a 3D CBCT image dataset while applying a 4D deformation field — I’m reconstructing with ~2400 projections and the 4D DVF has been generated by transformix (.mhd format). I followed, for the most part, the MCCBCTReconstruction example on the RTK Wiki.</div><div class=""><br class=""></div><div class="">While reconstructing, rtkfdk reads in all of the projections to memory, begins the ‘Reconstructing and Writing’ phase and proceeds for a few seconds before hanging — it doesn’t exit or fault, just drops to 0% CPU while retaining the projections in memory. </div><div class=""><br class=""></div><div class="">By writing some basic debug messages into the source code, I’ve been able to determine that the issue lies somewhere at <b class=""><i class="">m_Deformation->Update()</i></b> [Line 99 of code/rtkFDKWarpBackProjectionImageFilter.txx]. It appears that thread 0 makes it past the <b class=""><i class="">m_Deformation->SetFrame(iProj)</i></b> line, but never makes it past the subsequent update. I’m wondering if this has anything to do with the size of the DVF generated by transformix: <i class=""><b class="">approximately 4.0GB (512x100x512x10 image, 4-channels, FLOAT).</b></i></div><div class=""><br class=""></div><div class="">Just to provide a little more background information, I’m running RTK on a 32 core Sun Server (8x Quad-Core AMD Opteron 8356, 2.3Ghz) with 64GB of memory running Ubuntu 14.04. RTK was built using the default ‘Release’ make configuration and linked to ITK 4.5.2. Elastix and Transformix are both the latest version, 4.7.</div><div class=""><br class=""></div><div class="">Has anyone else run into a similar issue with reconstructing a similar image, or does anyone have any thoughts as to how to resolve this sort of issue?</div><div class=""><br class=""></div><div class="">Thanks in advance!</div><div class=""><br class=""></div><div class="">— Matt</div><div class=""><br class=""><div apple-content-edited="true" class="">
<div class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">__</div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Matthew J. Riblett<br class="">Virginia Commonwealth University<br class="">Department of Radiation Oncology<br class="">Medical Physics Graduate Program<br class=""><br class="">Office: Sanger Hall, Room B1-013</div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">401 College Street | P.O. Box 980058</div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Richmond, Virginia 23298<br class=""><br class="">VCU Email:<span class="Apple-tab-span" style="white-space: pre;"> </span><span class="Apple-tab-span" style="white-space: pre;"> </span> <a href="mailto:riblettmj@vcu.edu" class="">riblettmj@vcu.edu</a><br class="">MCV Office Phone:<span class="Apple-tab-span" style="white-space: pre;"> </span> +1.804.628.4858<br class=""></div></div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><br class=""></div><div style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><br class=""></div></div></div></body></html>