<div dir="ltr"><div><div>Hi, </div>I forgot to answer this point but <a href="http://vv.creatis.insa-lyon.fr/">vv</a> can also open dicom rt doses, then you can save it in any other format. </div>Simon </div><div class="gmail_extra"> <div class="gmail_quote">On Wed, Mar 18, 2015 at 3:23 PM, Luc SIMON <<a href="mailto:uhqd75@gmail.com" target="_blank">uhqd75@gmail.com</a>> wrote: <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Thank you David.<div>For information, I found an answer to my question. To convert (raw/mhd) gate output in Dicom RT Dose : SlicerRT works.</div><div>I did not test if the output (.dcm) is well accepted by a commercial TPS, but I will test ASAP.</div><div>Luc</div><div> </div><div> </div></div><div class="gmail_extra"> <div class="gmail_quote">2015-03-18 12:06 GMT+01:00 <<a href="mailto:gate-users-request@lists.opengatecollaboration.org" target="_blank">gate-users-request@lists.opengatecollaboration.org</a>>: <blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Send Gate-users mailing list submissions to <a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a> To subscribe or unsubscribe via the World Wide Web, visit <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> or, via email, send a message with subject or body 'help' to <a href="mailto:gate-users-request@lists.opengatecollaboration.org" target="_blank">gate-users-request@lists.opengatecollaboration.org</a> You can reach the person managing the list at <a href="mailto:gate-users-owner@lists.opengatecollaboration.org" target="_blank">gate-users-owner@lists.opengatecollaboration.org</a> When replying, please edit your Subject line so it is more specific than "Re: Contents of Gate-users digest..." Today's Topics: 1. Re: Exemple RT : crash (David Sarrut) ---------------------------------------------------------------------- Message: 1 Date: Wed, 18 Mar 2015 12:58:09 +0100 From: David Sarrut <<a href="mailto:David.Sarrut@creatis.insa-lyon.fr" target="_blank">David.Sarrut@creatis.insa-lyon.fr</a>> To: Simon Rit <<a href="mailto:simon.rit@creatis.insa-lyon.fr" target="_blank">simon.rit@creatis.insa-lyon.fr</a>> Cc: gate-users <<a href="mailto:gate-users@lists.opengatecollaboration.org" target="_blank">gate-users@lists.opengatecollaboration.org</a>>, Luc SIMON <<a href="mailto:uhqd75@gmail.com" target="_blank">uhqd75@gmail.com</a>> Subject: Re: [Gate-users] Exemple RT : crash Message-ID: <CAKTJC4C7sWULBPQ1cLhROy-53=<a href="mailto:o_fAOFjTPiRxhNyuKBbK_3-Q@mail.gmail.com" target="_blank">o_fAOFjTPiRxhNyuKBbK_3-Q@mail.gmail.com</a>> Content-Type: text/plain; charset="utf-8" Hello, it is now corrected in the "develop" branch (it will be available in the public repository soon <a href="https://github.com/OpenGATE/Gate" target="_blank">https://github.com/OpenGATE/Gate</a> ). thanks to the two Simons David On Tue, Mar 17, 2015 at 5:55 PM, Simon Rit <<a href="mailto:simon.rit@creatis.insa-lyon.fr" target="_blank">simon.rit@creatis.insa-lyon.fr</a>> wrote: > Hi Luc, > The idea is that only the md5 checksum is in the repository and the file > should be automatically downloaded from midas. Clearly, looking at the file > examples/CMakeLists.txt, the file is missing which is why it's not been > downloaded. I'll discuss with David to correct this but in the meantime, > it's available on Midas: > <a href="http://midas3.kitware.com/midas/community/28" target="_blank">http://midas3.kitware.com/midas/community/28</a> > Simon > > On Tue, Mar 17, 2015 at 4:40 PM, Luc SIMON <<a href="mailto:uhqd75@gmail.com" target="_blank">uhqd75@gmail.com</a>> wrote: > >> Dear Gaters, >> >> >> Sorry for multiple questions but when downloading data used for >> Example_Radiotherapy, I think a .raw file is missing : patient-4mm.raw >> (Example3) >> >> Again on mac it is not obvious to understand what file in MD5/ is the >> good .raw used for an example (see list hereafter, as it is displayed using >> ls command). >> >> But using the .md5 information it is possible to compute the size (in >> bytes). >> >> >> In Example2, patient-2mm is a 126x126x111 image of short (2 bytes) = >> 3524472 bytes. In this list it is the 8th file. It is possible to create a >> symbolic link to this file and example2 works very well >> >> >> In Example3, patient-4mm is a 63x93x55 image of short = 436590 bytes. No >> file has this size in the list. >> >> To summarize, can someone send me patient-4mm.raw ? (<a href="mailto:uhqd75@gmail.com" target="_blank">uhqd75@gmail.com</a>) >> >> >> Thanks for any help >> >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:39 >> 044a158a2617c05ed8fb657a27ed23ff >> >> -rw-r--r-- 1 lucsimon admin 6013 16 mar 14:14 >> 04f319a267d3f20a2836b342dde554fe >> >> -rw-r--r-- 1 lucsimon admin 14444 16 mar 13:35 >> 0a63785ee8d79c3031523f20c0b7c4cc >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:38 >> 0ecbce48f40182180e886377904c8a5b >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:40 >> 1567a80b4d198d884be028994c0b35b2 >> >> -rw-r--r-- 1 lucsimon admin 17234 16 mar 14:14 >> 1a089668c2065750ecd32b7eb4bc07e9 >> >> -rw-r--r-- 1 lucsimon admin 6033 16 mar 14:14 >> 28f1577fc46f36527c70ca6b86009c10 >> >> -rw-r--r-- 1 lucsimon admin 3524472 16 mar 14:15 >> 2c44e3a8f824a414f0b6531ece16c528 >> >> -rw-r--r-- 1 lucsimon admin 32768 16 mar 14:14 >> 3e3549ed281ff3219949e98733ffff12 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:36 >> 4373ca3fd7b365b6a327b4f443abac50 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:39 >> 466062ad3402869b3fed72652ecaea76 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:36 >> 494a61c7968269d98f8ccf35bfb0dfdd >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:39 >> 4d2109f58e05d361e7a0e5ff6169fc58 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:40 >> 4ec2181490f547e767f4c599791c42e3 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:38 >> 5ca0fd75b6c76fb7cc18e782dfc14576 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:38 >> 6277cb5a4c6e724161c8cf3595f885c1 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:39 >> 63d5e31f2052aace22eb2b448488f462 >> >> -rw-r--r-- 1 lucsimon admin 202400 16 mar 14:15 >> 6837c84a3b563d7829cc3f0ebb3af306 >> >> -rw-r--r-- 1 lucsimon admin 896857 16 mar 14:14 >> 6bc219efcd1616741eead7ab202cc936 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:37 >> 6e1dd112c3ff48913d55e5754ccb0510 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:35 >> 730355e81d3c478e92b09f3764f126c4 >> >> -rw-r--r-- 1 lucsimon admin 741888 16 mar 14:15 >> 7d0f34d6f76c685996172c82ca62970f >> >> -rw-r--r-- 1 lucsimon admin 31367800 16 mar 14:17 >> 83d961494d5b44d76fccb1922012897f >> >> -rw-r--r-- 1 lucsimon admin 8192000 16 mar 14:17 >> 941d3cdb79120113a6330bc19882ff31 >> >> -rw-r--r-- 1 lucsimon admin 1024000 16 mar 14:18 >> 988b1744961f639cab0b2c160809b527 >> >> -rw-r--r-- 1 lucsimon admin 250563 16 mar 14:20 >> 9a0f3582f30c7eeb852f59d35f667af2 >> >> -rw-r--r-- 1 lucsimon admin 47507823 16 mar 13:43 >> 9c0989256d3b6e9b213359cd4a3b6daa >> >> -rw-r--r-- 1 lucsimon admin 74624346 16 mar 14:14 >> a44e7bc7c3f2690a9e94e4ef4c5d3f1a >> >> -rw-r--r-- 1 lucsimon admin 4096000 16 mar 14:18 >> a607dceeb0a8db6558814c45ae1644a0 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:38 >> a9cd0e61d8f9f0a033b5ebb9054aebe1 >> >> -rw-r--r-- 1 lucsimon admin 59737 16 mar 14:14 >> ad591f0a5086c223402a5269b8188cd2 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:37 >> af5b5dbef7a9aa37d1b554d2fab7bdd0 >> >> -rw-r--r-- 1 lucsimon admin 30781160 16 mar 14:20 >> baf4a6c7958099ca39965928f010e7c6 >> >> -rw-r--r-- 1 lucsimon admin 3524472 16 mar 14:15 >> beb6101f5b3daa7e16624c623759269c >> >> -rw-r--r-- 1 lucsimon admin 4050 16 mar 14:14 >> c545ad7e01cad56e198b19994c6e72b7 >> >> -rw-r--r-- 1 lucsimon admin 272317 16 mar 14:15 >> c9263ddc7a4e21e32440480227f01a42 >> >> -rw-r--r-- 1 lucsimon admin 1880832 16 mar 14:20 >> d322322593c0961abf1eda0bbf871b63 >> >> -rw-r--r-- 1 lucsimon admin 4000000 16 mar 14:20 >> d4a8046c37d2f02c885c0a0946f68926 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:37 >> d5a777f0731cae74ec51e94eff676385 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:37 >> d746dd3bf5942a29c470aefff9280236 >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:40 >> dd78d8a34738054369705f879e9c4b4b >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:38 >> ee84d77dc3ebd445548c5b0950c6558e >> >> -rw-r--r-- 1 lucsimon admin 4194304 16 mar 13:36 >> ef43ddc95ae120b5d05eb09cb9371e2a >> >> -rw-r--r-- 1 lucsimon admin 226795 16 mar 14:14 >> f7fe754b3cc066c664c5b408166d93e9 >> >> -rw-r--r-- 1 lucsimon admin 3407872 16 mar 14:15 >> f942d5a94d90ccfaa2bbc5823b790c44 >> >> 2015-03-16 8:33 GMT+01:00 David Sarrut <<a href="mailto:David.Sarrut@creatis.insa-lyon.fr" target="_blank">David.Sarrut@creatis.insa-lyon.fr</a> >> >: >> >>> Hello Luc, >>> >>> did the file patient-2mm.raw exists ? An image is stored with 2 files : >>> A.mhd (the header) and A.raw (the pixel data). >>> >>> If not, in cmake, set GATE_DOWNLOAD_EXAMPLES_DATA to ON to download the >>> data >>> >>> welcome back to Gate ;) >>> David >>> >>> On Thu, Mar 12, 2015 at 10:46 PM, Luc SIMON <<a href="mailto:uhqd75@gmail.com" target="_blank">uhqd75@gmail.com</a>> wrote: >>> >>>> Dear Gaters >>>> >>>> It is a real pleasure to me to come back here after a 12 years break. I >>>> worked previously in Lausanne at the very beginning of Gate v1... >>>> I am going to use Gate again for new purposes, in particular in RT. >>>> Well... a lot to learn with all these new features. >>>> I start with a newbee question, but if someone can help... >>>> >>>> I installed GATE V7 on a mac book Yosemite 10.10.2 >>>> my configuration is at the end of this email, hereafter. >>>> >>>> Well It half works. >>>> I execute some exemples of Geant4 and GATE with success >>>> (PETcylindrilcal is ok with visualization !!) >>>> But I try to execute Radiotherapy examples and it doesn't work. >>>> >>>> I tried example_Radiotherapy/example2/mac/main-NPV1.mac >>>> >>>> and it doesnt work. >>>> The following command : >>>> >>>> Idle> /control/execute mac/start.mac >>>> >>>> gives : >>>> >>>> [Core-0] Initialization of geometry >>>> >>>> MetaImage: Read: Cannot open data file >>>> >>>> GateMHDImage.cc (l.185): MHD File cannot be read: data/patient-2mm.mhd >>>> >>>> >>>> I checked the rwx rights of the file patient-2mm.mhd >>>> >>>> and it is ok (rwxrwxrwx) >>>> >>>> >>>> Can someone has the same problem ? >>>> >>>> I must add that I changed >>>> >>>> #/vis/open OGLIQt >>>> to >>>> >>>> /vis/open OGLSX >>>> >>>> because it didn't work with OGLIQt >>>> >>>> Thank you >>>> >>>> >>>> >>>> >>>> >>>> >>>> config : >>>> >>>> CMAKE 3.1.3 >>>> >>>> xcode 6.1.1 >>>> >>>> xquartz 2.7.7 >>>> >>>> cmake 2.8.12.2 >>>> >>>> CLHEP 2.1.3.1 >>>> >>>> root v5.34.26 >>>> >>>> GEANT4.9.6p04 >>>> >>>> GATE v7.0 >>>> >>>> -- >>>> ___________________ >>>> >>>> SIMON Luc, PhD >>>> 28, rue Pierre Barthes >>>> 31500 Toulouse >>>> >>>> _______________________________________________ >>>> Gate-users mailing list >>>> <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a> >>>> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> >>>> >>> >>> >>> >>> -- >>> David Sarrut, Phd >>> Directeur de recherche CNRS >>> CREATIS, UMR CNRS 5220, Inserm U 1044 >>> Centre de lutte contre le cancer L?on B?rard >>> 28 rue La?nnec, 69373 Lyon cedex 08 >>> Tel : 04 78 78 51 51 / 06 74 72 05 42 >>> <a href="http://www.creatis.insa-lyon.fr/~dsarrut" target="_blank">http://www.creatis.insa-lyon.fr/~dsarrut</a> >>> _________________________________ >>> "2 + 2 = 5, for extremely large values of 2" >>> _________________________________ >>> >> >> >> >> -- >> ___________________ >> >> SIMON Luc, PhD >> IUCT-Oncopole / CRCT Team 15 >> >> >> _______________________________________________ >> Gate-users mailing list >> <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a> >> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> >> > > > _______________________________________________ > Gate-users mailing list > <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a> > <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> > -- David Sarrut, Phd Directeur de recherche CNRS CREATIS, UMR CNRS 5220, Inserm U 1044 Centre de lutte contre le cancer L?on B?rard 28 rue La?nnec, 69373 Lyon cedex 08 Tel : 04 78 78 51 51 / 06 74 72 05 42 <a href="http://www.creatis.insa-lyon.fr/~dsarrut" target="_blank">http://www.creatis.insa-lyon.fr/~dsarrut</a> _________________________________ "2 + 2 = 5, for extremely large values of 2" _________________________________ -------------- next part -------------- An HTML attachment was scrubbed... URL: <<a href="http://lists.opengatecollaboration.org/mailman/private/gate-users/attachments/20150318/792b94a0/attachment.html" target="_blank">http://lists.opengatecollaboration.org/mailman/private/gate-users/attachments/20150318/792b94a0/attachment.html</a>> ------------------------------ _______________________________________________ Gate-users mailing list <a href="mailto:Gate-users@lists.opengatecollaboration.org" target="_blank">Gate-users@lists.opengatecollaboration.org</a> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> End of Gate-users Digest, Vol 106, Issue 27 ******************************************* </blockquote></div> <div> </div>-- <div>___________________ SIMON Luc, PhD 28, rue Pierre Barthes 31500 Toulouse</div> </div> _______________________________________________ Gate-users mailing list <a href="mailto:Gate-users@lists.opengatecollaboration.org">Gate-users@lists.opengatecollaboration.org</a> <a href="http://lists.opengatecollaboration.org/mailman/listinfo/gate-users" target="_blank">http://lists.opengatecollaboration.org/mailman/listinfo/gate-users</a> </blockquote></div> </div>