From info-volumizer-owner@els.sgi.com Mon Mar 3 13:03:50 2003 Received: (from majordom@localhost) by els.sgi.com (8.12.2/8.12.2/els-2.2) id h23L2TGk838473; Mon, 3 Mar 2003 13:02:29 -0800 (PST) Received: from genome3.dbi.udel.edu (genome3.dbi.udel.edu [128.175.253.195]) by els.sgi.com (8.12.2/8.12.2/els-2.2) with ESMTP id h23L2QYF831583 for ; Mon, 3 Mar 2003 13:02:28 -0800 (PST) Received: from dbi.udel.edu (fuel.dbi.udel.edu [10.0.0.181]) by genome3.dbi.udel.edu (8.11.6+Sun/8.10.2) with ESMTP id h23L6QH04384 for ; Mon, 3 Mar 2003 16:06:28 -0500 (EST) Message-ID: <3E63C7F6.4090803@dbi.udel.edu> Date: Mon, 03 Mar 2003 16:24:06 -0500 From: Praveen Thiagarajan User-Agent: Mozilla/5.0 (X11; U; IRIX64 IP35; en-US; rv:1.3b) Gecko/20030212 X-Accept-Language: en-us, en MIME-Version: 1.0 To: Volumizer Mailing List Subject: [info-volumizer] vzFindCameraPosition() Content-Type: text/plain; charset=us-ascii; format=flowed Content-Transfer-Encoding: 7bit Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi All, I am getting an error message 'Singular Matrix in vzFindCameraPosition()' when running my code in our onyx system. But, the code run w/o this problem in my workstation (fuel). I did not encounter this error yesterday for the same code. It ran fine. I have been having this error from this morning. What could be the problem ? Any sugestions will be greatly appreciated. Thanks, Praveen From info-volumizer-owner@els.sgi.com Wed Mar 5 11:00:21 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h25J0KjN882660; Wed, 5 Mar 2003 11:00:21 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h25J0KJv874576; Wed, 5 Mar 2003 11:00:20 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from tolkor.sgi.com ([198.149.18.6]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h25J0JjN892752 for ; Wed, 5 Mar 2003 11:00:20 -0800 (PST) Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by tolkor.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h245J9kq020471 for ; Mon, 3 Mar 2003 23:19:09 -0600 Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h2457I5H031874 for ; Mon, 3 Mar 2003 21:07:18 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h2456waY031891 for ; Mon, 3 Mar 2003 21:07:18 -0800 (PST) Date: Mon, 3 Mar 2003 21:06:58 -0800 From: Praveen Bhaniramka To: Volumizer Mailing List Subject: Re: [info-volumizer] vzFindCameraPosition() In-Reply-To: <3E63C7F6.4090803@dbi.udel.edu> Message-ID: References: <3E63C7F6.4090803@dbi.udel.edu> MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi, This is an internal error in Volumizer. This would usually be caused if your application does not have a valid OpenGL context or there is some other GL state corruption. Volumizer tries to figure out the current view information but is getting inconsistent values from GL. ogldebug should be able to catch any such GL calls without a valid OpenGL context and show them as warnings. hth, Praveen On Mon, 3 Mar 2003, Praveen Thiagarajan wrote: > > Hi All, > > I am getting an error message > > 'Singular Matrix in vzFindCameraPosition()' > > when running my code in our onyx system. But, the code run w/o this > problem in my workstation (fuel). I did not encounter this error > yesterday for the same code. It ran fine. I have been having this error > from this morning. What could be the problem ? Any sugestions will be > greatly appreciated. > > Thanks, > Praveen > > -- ----------------------------------------------------------------- Praveen Bhaniramka Member of Technical Staff (MTS) praveenb@sgi.com Advanced Graphics Division (650)933-1785 Silicon Graphics, Inc. ----------------------------------------------------------------- From info-volumizer-owner@els.sgi.com Thu Mar 6 05:32:58 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h26DWvjN907706; Thu, 6 Mar 2003 05:32:58 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h26DWvJG918012; Thu, 6 Mar 2003 05:32:57 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from rj.sgi.com (rj.SGI.COM [192.82.208.96]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h26DWujN919965 for ; Thu, 6 Mar 2003 05:32:57 -0800 (PST) Received: from kraftwerk.corp.sgi.com (kraftwerk.corp.sgi.com [192.26.51.114]) by rj.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h26DWunH026299 for ; Thu, 6 Mar 2003 05:32:56 -0800 Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by kraftwerk.corp.sgi.com (8.11.4/8.11.4/ils-2.0) with ESMTP id h26DVta11723051 for ; Thu, 6 Mar 2003 05:31:55 -0800 (PST) mail_from (praveenb@mrcoffee.engr.sgi.com) Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h26DVt5H041663 for ; Thu, 6 Mar 2003 05:31:55 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h26DVtB0041740 for ; Thu, 6 Mar 2003 05:31:55 -0800 (PST) Date: Thu, 6 Mar 2003 05:31:55 -0800 From: Praveen Bhaniramka To: info-volumizer@kraftwerk.corp.sgi.com Subject: [info-volumizer] MipsPro 7.4 C++ Compilers Message-ID: MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Please ignore this mail if you are NOT using the MipsPro 7.4 C++ Compilers (Running /usr/bin/CC -version prints the compiler version). Depending on your system setup, the sample code shipped with Volumizer 2.4 might not compile as is under 7.4 C++ compilers. In order to enable backward compatibility with 7.3.x compilers, you can add the following line at the end of the vzcommondefs file under /usr/share/Volumizer2/src - LC++DEFS += -LANG:std=off:libc_in_namespace_std=off Cheers, Praveen -- ----------------------------------------------------------------- Praveen Bhaniramka Member of Technical Staff (MTS) praveenb@sgi.com Advanced Graphics Division (650)933-1785 Silicon Graphics, Inc. ----------------------------------------------------------------- From info-volumizer-owner@els.sgi.com Tue Mar 11 14:33:51 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2BMXpjN1011524; Tue, 11 Mar 2003 14:33:51 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2BMXpcY1015692; Tue, 11 Mar 2003 14:33:51 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from fit.edu (panther.fit.edu [163.118.5.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2BMXnjN1004106 for ; Tue, 11 Mar 2003 14:33:50 -0800 (PST) Received: from pacific (pacific.eng.fit.edu [163.118.131.162]) by fit.edu (8.12.2+Sun/8.12.2) with ESMTP id h2BMX02c014594; Tue, 11 Mar 2003 17:33:00 -0500 (EST) Date: Tue, 11 Mar 2003 17:33:48 -0500 (EST) From: Pierre Larochelle To: info-volumizer@els.sgi.com cc: Pierre Larochelle Subject: [info-volumizer] Another newbie question Message-ID: MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com A simple question... I have downloaded the latest Volumizer2 API. Many README files in the distribution, e.g. /usr/share/Volumizer2/src/apps/volview/README and /usr/share/Volumizer2/apps/XMLViewer/README refer to another readme file called README.demo Where is this file(s)? I can't find it anywhere in the distribution... - Pierre --- Pierre Larochelle, Ph.D., P.E. Florida Institute of Technology Mechanical Engineering Dept. 150 West University Blvd. Melbourne, FL 32901 (321) 674 - 7274 (off) (321) 674 - 8813 (fax) http://dionne.me.fit.edu/~rassl/ From info-volumizer-owner@els.sgi.com Tue Mar 11 14:50:56 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2BMoujN1018432; Tue, 11 Mar 2003 14:50:56 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2BMoufr1013822; Tue, 11 Mar 2003 14:50:56 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from tolkor.sgi.com (tolkor.SGI.COM [198.149.18.6]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2BMotjN991257 for ; Tue, 11 Mar 2003 14:50:55 -0800 (PST) Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by tolkor.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2BN1lkq029723 for ; Tue, 11 Mar 2003 17:01:47 -0600 Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h2BMnTmt060014; Tue, 11 Mar 2003 14:49:29 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h2BMnSHV060021; Tue, 11 Mar 2003 14:49:28 -0800 (PST) Date: Tue, 11 Mar 2003 14:49:28 -0800 From: Praveen Bhaniramka To: info-volumizer@els.sgi.com cc: Pierre Larochelle Subject: Re: [info-volumizer] Another newbie question In-Reply-To: Message-ID: References: MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Pierre, This is just residual of the old code documentation scheme we were using with Volumizer! The README.demo files have now been replaced by corresponding index.html files in each of the source directories, which you should be able to use your web browser to go thru. /usr/share/Volumizer2/index.html is the top-level HTML file with links to the other directories in the source distribution. This should help you get started. Cheers, Praveen On Tue, 11 Mar 2003, Pierre Larochelle wrote: > A simple question... > > I have downloaded the latest Volumizer2 API. Many README files in the > distribution, e.g. /usr/share/Volumizer2/src/apps/volview/README and > /usr/share/Volumizer2/apps/XMLViewer/README refer to another readme file > called README.demo > > Where is this file(s)? I can't find it anywhere in the distribution... > > - Pierre > > --- > Pierre Larochelle, Ph.D., P.E. > Florida Institute of Technology > Mechanical Engineering Dept. > 150 West University Blvd. > Melbourne, FL 32901 > (321) 674 - 7274 (off) > (321) 674 - 8813 (fax) > http://dionne.me.fit.edu/~rassl/ > > -- ----------------------------------------------------------------- Praveen Bhaniramka Member of Technical Staff (MTS) praveenb@sgi.com Advanced Graphics Division (650)933-1785 Silicon Graphics, Inc. ----------------------------------------------------------------- From info-volumizer-owner@els.sgi.com Tue Mar 11 23:14:36 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C7EajN1009121; Tue, 11 Mar 2003 23:14:36 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2C7EaXG1015090; Tue, 11 Mar 2003 23:14:36 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from rj.sgi.com (rj.SGI.COM [192.82.208.96]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C7EZjN1022892 for ; Tue, 11 Mar 2003 23:14:35 -0800 (PST) Received: from kraftwerk.corp.sgi.com (ils.sgi.com [192.26.51.114]) by rj.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2C7EZnH020579 for ; Tue, 11 Mar 2003 23:14:35 -0800 Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by kraftwerk.corp.sgi.com (8.11.4/8.11.4/ils-2.0) with ESMTP id h2C7DZa13064337 for ; Tue, 11 Mar 2003 23:13:35 -0800 (PST) mail_from (praveenb@mrcoffee.engr.sgi.com) Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h2C7DAmt061477; Tue, 11 Mar 2003 23:13:10 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h2C7ChXY061469; Tue, 11 Mar 2003 23:13:10 -0800 (PST) Date: Tue, 11 Mar 2003 23:12:43 -0800 From: Praveen Bhaniramka To: Thyaganathan Seperamaniam cc: info-volumizer@kraftwerk.corp.sgi.com Subject: [info-volumizer] Re: volumizer In-Reply-To: Message-ID: References: MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Thyaga, What kind of problems are you having specifically? We have found some issues with the dicomToIFL converter for certain DICOM data sets. Anyone else know of other dicom tools that might be available on the web that Thyaga could use? Cheers, Praveen On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > hi Praveen, > > Im thyaga from university malaya. malaysia. > > currently im working with volumizer to visualize medical images (ie CT and MR images) > i manage to make 3d volumes of ACR/NEMA images using dicom converters, but i cant > convert dcm images. When i convert tiff images, its not showing what i wanted., something > is wrong with the way it interpolate. > > can you suggest me some good reference for volumizer. thanks > > regards > thyaga > -- ----------------------------------------------------------------- Praveen Bhaniramka Member of Technical Staff (MTS) praveenb@sgi.com Advanced Graphics Division (650)933-1785 Silicon Graphics, Inc. ----------------------------------------------------------------- From info-volumizer-owner@els.sgi.com Wed Mar 12 00:16:56 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C8GujN958427; Wed, 12 Mar 2003 00:16:56 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2C8GuaD1000507; Wed, 12 Mar 2003 00:16:56 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from zok.sgi.com (zok.SGI.COM [204.94.215.101]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C8GojN1001998 for ; Wed, 12 Mar 2003 00:16:51 -0800 (PST) Received: from sgisgp.singapore.sgi.com (sgisgp.singapore.sgi.com [134.14.84.2]) by zok.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with SMTP id h2C8Gn9n015969 for ; Wed, 12 Mar 2003 00:16:50 -0800 Received: from sgp-apsa002e--n.singapore.sgi.com by sgisgp.singapore.sgi.com via ESMTP (950413.SGI.8.6.12/930416.SGI) id QAA18990; Wed, 12 Mar 2003 16:28:22 +0800 Received: by sgp-apsa002e--n.singapore.sgi.com with Internet Mail Service (5.5.2655.55) id ; Wed, 12 Mar 2003 16:12:56 +0800 Message-ID: <5D772A9A582CD711BB6F00062938EE3E06383D@sgp-apsa002e--n.singapore.sgi.com> From: Ong Tze Lin To: "'info-volumizer@els.sgi.com'" , Thyaganathan Seperamaniam Cc: info-volumizer@kraftwerk.corp.sgi.com Subject: RE: [info-volumizer] Re: volumizer Date: Wed, 12 Mar 2003 16:12:54 +0800 MIME-Version: 1.0 X-Mailer: Internet Mail Service (5.5.2655.55) Content-Type: text/plain; charset="iso-8859-1" Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Thyaga, Long time no see, how are you? I have used David Clunie's tools (available from his website, www.dclunie.com I think) on Linux and Windows to successfully convert DICOM and other formats to tiff. Also MRICro have a free viewer package for Linux and Windows that will allow limited conversions. I actually skip using dicomToIFL, relying instead on these tools above to do conversion direct to tiff, since DICOM 'standards' seem to vary. Then I use the tiff conversion files that come with volumizer to create a 3dtiff. Cheers, Tze Lin -- Ong Tze Lin | Principal Consultant | SGI ICON Region (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 89 Science Park Drive #03-06 Singapore 118 261 > -----Original Message----- > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > Sent: Wednesday, March 12, 2003 3:13 PM > To: Thyaganathan Seperamaniam > Cc: info-volumizer@kraftwerk.corp.sgi.com > Subject: [info-volumizer] Re: volumizer > > > Hi Thyaga, > > What kind of problems are you having specifically? We have found some > issues with the dicomToIFL converter for certain DICOM data sets. > > Anyone else know of other dicom tools that might be available > on the web > that Thyaga could use? > > Cheers, > Praveen > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > hi Praveen, > > > > Im thyaga from university malaya. malaysia. > > > > currently im working with volumizer to visualize medical > images (ie CT and MR images) > > i manage to make 3d volumes of ACR/NEMA images using dicom > converters, but i cant > > convert dcm images. When i convert tiff images, its not > showing what i wanted., something > > is wrong with the way it interpolate. > > > > can you suggest me some good reference for volumizer. thanks > > > > regards > > thyaga > > > > -- > ----------------------------------------------------------------- > Praveen Bhaniramka Member of Technical Staff (MTS) > praveenb@sgi.com Advanced Graphics Division > (650)933-1785 Silicon Graphics, Inc. > ----------------------------------------------------------------- > From info-volumizer-owner@els.sgi.com Wed Mar 12 00:17:59 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C8HxjN1008802; Wed, 12 Mar 2003 00:17:59 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2C8Hwfa999696; Wed, 12 Mar 2003 00:17:58 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from zok.sgi.com (zok.SGI.COM [204.94.215.101]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C8HwjN1013320 for ; Wed, 12 Mar 2003 00:17:58 -0800 (PST) Received: from kraftwerk.corp.sgi.com (ils.sgi.com [192.26.51.114]) by zok.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2C8Hw9n016070 for ; Wed, 12 Mar 2003 00:17:58 -0800 Received: from sgisgp.singapore.sgi.com (sgisgp.singapore.sgi.com [134.14.84.2]) by kraftwerk.corp.sgi.com (8.11.4/8.11.4/ils-2.0) with SMTP id h2C8Gva12935008 for ; Wed, 12 Mar 2003 00:16:57 -0800 (PST) mail_from (tzelin@sgi.com) Received: from sgp-apsa002e--n.singapore.sgi.com by sgisgp.singapore.sgi.com via ESMTP (950413.SGI.8.6.12/930416.SGI) id QAA18990; Wed, 12 Mar 2003 16:28:22 +0800 Received: by sgp-apsa002e--n.singapore.sgi.com with Internet Mail Service (5.5.2655.55) id ; Wed, 12 Mar 2003 16:12:56 +0800 Message-ID: <5D772A9A582CD711BB6F00062938EE3E06383D@sgp-apsa002e--n.singapore.sgi.com> From: Ong Tze Lin To: "'info-volumizer@els.sgi.com'" , Thyaganathan Seperamaniam Cc: info-volumizer@kraftwerk.corp.sgi.com Subject: RE: [info-volumizer] Re: volumizer Date: Wed, 12 Mar 2003 16:12:54 +0800 MIME-Version: 1.0 X-Mailer: Internet Mail Service (5.5.2655.55) Content-Type: text/plain; charset="iso-8859-1" Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Thyaga, Long time no see, how are you? I have used David Clunie's tools (available from his website, www.dclunie.com I think) on Linux and Windows to successfully convert DICOM and other formats to tiff. Also MRICro have a free viewer package for Linux and Windows that will allow limited conversions. I actually skip using dicomToIFL, relying instead on these tools above to do conversion direct to tiff, since DICOM 'standards' seem to vary. Then I use the tiff conversion files that come with volumizer to create a 3dtiff. Cheers, Tze Lin -- Ong Tze Lin | Principal Consultant | SGI ICON Region (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 89 Science Park Drive #03-06 Singapore 118 261 > -----Original Message----- > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > Sent: Wednesday, March 12, 2003 3:13 PM > To: Thyaganathan Seperamaniam > Cc: info-volumizer@kraftwerk.corp.sgi.com > Subject: [info-volumizer] Re: volumizer > > > Hi Thyaga, > > What kind of problems are you having specifically? We have found some > issues with the dicomToIFL converter for certain DICOM data sets. > > Anyone else know of other dicom tools that might be available > on the web > that Thyaga could use? > > Cheers, > Praveen > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > hi Praveen, > > > > Im thyaga from university malaya. malaysia. > > > > currently im working with volumizer to visualize medical > images (ie CT and MR images) > > i manage to make 3d volumes of ACR/NEMA images using dicom > converters, but i cant > > convert dcm images. When i convert tiff images, its not > showing what i wanted., something > > is wrong with the way it interpolate. > > > > can you suggest me some good reference for volumizer. thanks > > > > regards > > thyaga > > > > -- > ----------------------------------------------------------------- > Praveen Bhaniramka Member of Technical Staff (MTS) > praveenb@sgi.com Advanced Graphics Division > (650)933-1785 Silicon Graphics, Inc. > ----------------------------------------------------------------- > From info-volumizer-owner@els.sgi.com Wed Mar 12 01:06:40 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C96ejN655378; Wed, 12 Mar 2003 01:06:40 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2C96ea71019824; Wed, 12 Mar 2003 01:06:40 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from hotmail.com (dav17.sea2.hotmail.com [207.68.164.121]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2C96cjN995886 for ; Wed, 12 Mar 2003 01:06:39 -0800 (PST) Received: from mail pickup service by hotmail.com with Microsoft SMTPSVC; Wed, 12 Mar 2003 01:06:38 -0800 X-Originating-IP: [202.185.109.198] From: "Thyaganathan Seperamaniam" To: Cc: "Ong Tze Lin" References: <5D772A9A582CD711BB6F00062938EE3E06383D@sgp-apsa002e--n.singapore.sgi.com> Subject: Re: [info-volumizer] Re: volumizer Date: Wed, 12 Mar 2003 17:06:38 +0800 MIME-Version: 1.0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: 7bit X-Priority: 3 X-MSMail-Priority: Normal X-Mailer: Microsoft Outlook Express 6.00.2720.3000 X-MimeOLE: Produced By Microsoft MimeOLE V6.00.2600.0000 Message-ID: X-OriginalArrivalTime: 12 Mar 2003 09:06:38.0334 (UTC) FILETIME=[B06A59E0:01C2E876] Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Tze Lin, i convert the medical images into tiff (using windows), and then convert to luminance tiff (using IRIX imgview function). when i stack up all the images together using iflto3Dtiff, it creates the volume, but its not what it suppose to be. there is some gap between every slice. how should i give "z value" ? thanks ----- Original Message ----- From: "Ong Tze Lin" To: ; "Thyaganathan Seperamaniam" Cc: Sent: Wednesday, March 12, 2003 4:12 PM Subject: RE: [info-volumizer] Re: volumizer > Hi Thyaga, > > Long time no see, how are you? > > I have used David Clunie's tools (available from his website, > www.dclunie.com I think) on Linux and Windows to successfully convert DICOM > and other formats to tiff. > > Also MRICro have a free viewer package for Linux and Windows that will allow > limited conversions. > > I actually skip using dicomToIFL, relying instead on these tools above to do > conversion direct to tiff, since DICOM 'standards' seem to vary. Then I use > the tiff conversion files that come with volumizer to create a 3dtiff. > > Cheers, > Tze Lin > > -- > Ong Tze Lin | Principal Consultant | SGI ICON Region > (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 > 89 Science Park Drive #03-06 Singapore 118 261 > > > -----Original Message----- > > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > > Sent: Wednesday, March 12, 2003 3:13 PM > > To: Thyaganathan Seperamaniam > > Cc: info-volumizer@kraftwerk.corp.sgi.com > > Subject: [info-volumizer] Re: volumizer > > > > > > Hi Thyaga, > > > > What kind of problems are you having specifically? We have found some > > issues with the dicomToIFL converter for certain DICOM data sets. > > > > Anyone else know of other dicom tools that might be available > > on the web > > that Thyaga could use? > > > > Cheers, > > Praveen > > > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > > > hi Praveen, > > > > > > Im thyaga from university malaya. malaysia. > > > > > > currently im working with volumizer to visualize medical > > images (ie CT and MR images) > > > i manage to make 3d volumes of ACR/NEMA images using dicom > > converters, but i cant > > > convert dcm images. When i convert tiff images, its not > > showing what i wanted., something > > > is wrong with the way it interpolate. > > > > > > can you suggest me some good reference for volumizer. thanks > > > > > > regards > > > thyaga > > > > > > > -- > > ----------------------------------------------------------------- > > Praveen Bhaniramka Member of Technical Staff (MTS) > > praveenb@sgi.com Advanced Graphics Division > > (650)933-1785 Silicon Graphics, Inc. > > ----------------------------------------------------------------- > > From info-volumizer-owner@els.sgi.com Wed Mar 12 03:47:08 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CBl8jN1006650; Wed, 12 Mar 2003 03:47:08 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2CBl89Y1005169; Wed, 12 Mar 2003 03:47:08 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from rj.sgi.com (rj.SGI.COM [192.82.208.96]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CBl7jN1008223 for ; Wed, 12 Mar 2003 03:47:07 -0800 (PST) Received: from relay1.corp.sgi.com (ether-spindle.corp.sgi.com [192.26.51.29]) by rj.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2CBl6nH002287 for ; Wed, 12 Mar 2003 03:47:06 -0800 Received: from mtv-atc-605e--n.corp.sgi.com (mtv-atc-605e--n.corp.sgi.com [192.26.60.86]) by relay1.corp.sgi.com (980427.SGI.8.8.8/970903.SGI.AUTOCF) via ESMTP id DAA32427; Wed, 12 Mar 2003 03:46:35 -0800 (PST) Received: by mtv-atc-605e--n.corp.sgi.com with Internet Mail Service (5.5.2655.55) id ; Wed, 12 Mar 2003 03:46:34 -0800 Message-ID: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com> From: Bob Kozdemba To: "'info-volumizer@els.sgi.com'" , Thyaganathan Seperamaniam Cc: info-volumizer@kraftwerk.corp.sgi.com Subject: RE: [info-volumizer] Re: volumizer Date: Wed, 12 Mar 2003 03:46:27 -0800 MIME-Version: 1.0 X-Mailer: Internet Mail Service (5.5.2655.55) Content-Type: text/plain; charset="iso-8859-1" Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com > I have used David Clunie's tools (available from his website, > www.dclunie.com I think) on Linux and Windows to successfully > convert DICOM > and other formats to tiff. I've been working with dicom quite a bit lately and I probably need to launch a web site with this stuff but anyhow... I agree that Dave's toolkit is very useful and I use it under Linux mainly because it compiled straight out of the box. I suspect it would also build under Irix if the gnu compilers were loaded. The toolkit not only has support for dicom, but also some of the dicom-like proprietary formats such as GEMS. There is a neat little viewer included called "dcdisp", but it requires an 8-bit PsuedoColor Visual so under Linux you will have to start X as such (startx -- -depth 8). The "dccdump" program will dump the dicom header so you can extract the pixel width, height, size and slice thickness which come in handy for volview scaling parameters. Below is a typical scenario I go through to convert a stack of 16-bit dicom images. I've ran into problems with "iflTo3Dtiff" and better luck with "imgcopy" so I go from dicom->raw->3Dtiff. # Linux foreach f (*.dcm) dctoraw $f $f.raw end cat *.raw > tmp # Irix imgcopy tmp#raw%size=$width,$height,$slices,1%type=ushort%color=luminance volume.tif The other format I see often is "analyze" which uses separate image(raw) and header files. I found a white paper on the internet that described the header format and included source code for dumping the header. Let me know if anyone needs this. Koz > > Also MRICro have a free viewer package for Linux and Windows > that will allow > limited conversions. > > I actually skip using dicomToIFL, relying instead on these > tools above to do > conversion direct to tiff, since DICOM 'standards' seem to > vary. Then I use > the tiff conversion files that come with volumizer to create > a 3dtiff. > > Cheers, > Tze Lin > > -- > Ong Tze Lin | Principal Consultant | SGI ICON Region > (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 > 89 Science Park Drive #03-06 Singapore 118 261 > > > -----Original Message----- > > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > > Sent: Wednesday, March 12, 2003 3:13 PM > > To: Thyaganathan Seperamaniam > > Cc: info-volumizer@kraftwerk.corp.sgi.com > > Subject: [info-volumizer] Re: volumizer > > > > > > Hi Thyaga, > > > > What kind of problems are you having specifically? We have > found some > > issues with the dicomToIFL converter for certain DICOM data sets. > > > > Anyone else know of other dicom tools that might be available > > on the web > > that Thyaga could use? > > > > Cheers, > > Praveen > > > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > > > hi Praveen, > > > > > > Im thyaga from university malaya. malaysia. > > > > > > currently im working with volumizer to visualize medical > > images (ie CT and MR images) > > > i manage to make 3d volumes of ACR/NEMA images using dicom > > converters, but i cant > > > convert dcm images. When i convert tiff images, its not > > showing what i wanted., something > > > is wrong with the way it interpolate. > > > > > > can you suggest me some good reference for volumizer. thanks > > > > > > regards > > > thyaga > > > > > > > -- > > ----------------------------------------------------------------- > > Praveen Bhaniramka Member of Technical Staff (MTS) > > praveenb@sgi.com Advanced Graphics Division > > (650)933-1785 Silicon Graphics, Inc. > > ----------------------------------------------------------------- > > > From info-volumizer-owner@els.sgi.com Wed Mar 12 03:48:10 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CBm9jN1016860; Wed, 12 Mar 2003 03:48:10 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2CBm9S91000157; Wed, 12 Mar 2003 03:48:09 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from zok.sgi.com (zok.SGI.COM [204.94.215.101]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CBm7jN1025615 for ; Wed, 12 Mar 2003 03:48:08 -0800 (PST) Received: from kraftwerk.corp.sgi.com (ils.sgi.com [192.26.51.114]) by zok.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2CBm79n026663 for ; Wed, 12 Mar 2003 03:48:07 -0800 Received: from relay1.corp.sgi.com (ether-spindle.corp.sgi.com [192.26.51.29]) by kraftwerk.corp.sgi.com (8.11.4/8.11.4/ils-2.0) with ESMTP id h2CBl7a13128732 for ; Wed, 12 Mar 2003 03:47:07 -0800 (PST) mail_from (koz@sgi.com) Received: from mtv-atc-605e--n.corp.sgi.com (mtv-atc-605e--n.corp.sgi.com [192.26.60.86]) by relay1.corp.sgi.com (980427.SGI.8.8.8/970903.SGI.AUTOCF) via ESMTP id DAA32427; Wed, 12 Mar 2003 03:46:35 -0800 (PST) Received: by mtv-atc-605e--n.corp.sgi.com with Internet Mail Service (5.5.2655.55) id ; Wed, 12 Mar 2003 03:46:34 -0800 Message-ID: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com> From: Bob Kozdemba To: "'info-volumizer@els.sgi.com'" , Thyaganathan Seperamaniam Cc: info-volumizer@kraftwerk.corp.sgi.com Subject: RE: [info-volumizer] Re: volumizer Date: Wed, 12 Mar 2003 03:46:27 -0800 MIME-Version: 1.0 X-Mailer: Internet Mail Service (5.5.2655.55) Content-Type: text/plain; charset="iso-8859-1" Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com > I have used David Clunie's tools (available from his website, > www.dclunie.com I think) on Linux and Windows to successfully > convert DICOM > and other formats to tiff. I've been working with dicom quite a bit lately and I probably need to launch a web site with this stuff but anyhow... I agree that Dave's toolkit is very useful and I use it under Linux mainly because it compiled straight out of the box. I suspect it would also build under Irix if the gnu compilers were loaded. The toolkit not only has support for dicom, but also some of the dicom-like proprietary formats such as GEMS. There is a neat little viewer included called "dcdisp", but it requires an 8-bit PsuedoColor Visual so under Linux you will have to start X as such (startx -- -depth 8). The "dccdump" program will dump the dicom header so you can extract the pixel width, height, size and slice thickness which come in handy for volview scaling parameters. Below is a typical scenario I go through to convert a stack of 16-bit dicom images. I've ran into problems with "iflTo3Dtiff" and better luck with "imgcopy" so I go from dicom->raw->3Dtiff. # Linux foreach f (*.dcm) dctoraw $f $f.raw end cat *.raw > tmp # Irix imgcopy tmp#raw%size=$width,$height,$slices,1%type=ushort%color=luminance volume.tif The other format I see often is "analyze" which uses separate image(raw) and header files. I found a white paper on the internet that described the header format and included source code for dumping the header. Let me know if anyone needs this. Koz > > Also MRICro have a free viewer package for Linux and Windows > that will allow > limited conversions. > > I actually skip using dicomToIFL, relying instead on these > tools above to do > conversion direct to tiff, since DICOM 'standards' seem to > vary. Then I use > the tiff conversion files that come with volumizer to create > a 3dtiff. > > Cheers, > Tze Lin > > -- > Ong Tze Lin | Principal Consultant | SGI ICON Region > (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 > 89 Science Park Drive #03-06 Singapore 118 261 > > > -----Original Message----- > > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > > Sent: Wednesday, March 12, 2003 3:13 PM > > To: Thyaganathan Seperamaniam > > Cc: info-volumizer@kraftwerk.corp.sgi.com > > Subject: [info-volumizer] Re: volumizer > > > > > > Hi Thyaga, > > > > What kind of problems are you having specifically? We have > found some > > issues with the dicomToIFL converter for certain DICOM data sets. > > > > Anyone else know of other dicom tools that might be available > > on the web > > that Thyaga could use? > > > > Cheers, > > Praveen > > > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > > > hi Praveen, > > > > > > Im thyaga from university malaya. malaysia. > > > > > > currently im working with volumizer to visualize medical > > images (ie CT and MR images) > > > i manage to make 3d volumes of ACR/NEMA images using dicom > > converters, but i cant > > > convert dcm images. When i convert tiff images, its not > > showing what i wanted., something > > > is wrong with the way it interpolate. > > > > > > can you suggest me some good reference for volumizer. thanks > > > > > > regards > > > thyaga > > > > > > > -- > > ----------------------------------------------------------------- > > Praveen Bhaniramka Member of Technical Staff (MTS) > > praveenb@sgi.com Advanced Graphics Division > > (650)933-1785 Silicon Graphics, Inc. > > ----------------------------------------------------------------- > > > From info-volumizer-owner@els.sgi.com Wed Mar 12 07:17:22 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CFHLjN1038072; Wed, 12 Mar 2003 07:17:22 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2CFHLcf1038187; Wed, 12 Mar 2003 07:17:21 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from agswitch.bsd.uchicago.edu ([128.135.94.16]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CFHJjN1011421 for ; Wed, 12 Mar 2003 07:17:20 -0800 (PST) Received: (from fdech@localhost) by agswitch.bsd.uchicago.edu (8.11.6/8.11.6) id h2CFHHA11974; Wed, 12 Mar 2003 09:17:17 -0600 Date: Wed, 12 Mar 2003 09:17:17 -0600 From: Fred Dech To: Bob Kozdemba Cc: "'info-volumizer@els.sgi.com'" , Thyaganathan Seperamaniam , info-volumizer@kraftwerk.corp.sgi.com Subject: Re: [info-volumizer] Re: volumizer Message-ID: <20030312091717.K29144@agswitch.bsd.uchicago.edu> References: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline User-Agent: Mutt/1.2.5.1i In-Reply-To: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com>; from koz@sgi.com on Wed, Mar 12, 2003 at 03:46:27AM -0800 Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Dr. Clunie's tools will build under IRIX. i use them in IRIX along with the CTN toolkit in order to deal with Dicom related issues. Unfortunately, either I'm too stupid, or Dave's commenting is lacking (he also writes code with lines that run around 150+ characters per), I've never been able to get a handle on his class structure. I'd love to build a loader using his C++ toolkit rather than CTN, which is written in C and has some compliancy issues. But I've never been able to make heads nor tails of Dave's code. by the way. does anyone out there happen to know what happened to the CTN libs. http://wuerlim.wustl.edu/DICOM/index.html sends you on a wild goose chase. coincidentally, i spent an hour last week trying to track down a newer version. thanks. --fred -- Fred Dech fdech@uchicago.edu University of Chicago Dept. of Surgery Ph: (773) 834-8359, Fax: (773) 702-0564 On Wed, Mar 12, 2003 at 03:46:27AM -0800, Bob Kozdemba wrote: > > > I have used David Clunie's tools (available from his website, > > www.dclunie.com I think) on Linux and Windows to successfully > > convert DICOM > > and other formats to tiff. > > I've been working with dicom quite a bit lately and I probably need to > launch a web site with this stuff but anyhow... > > I agree that Dave's toolkit is very useful and I use it under Linux mainly > because it compiled straight out of the box. I suspect it would also build > under Irix if the gnu compilers were loaded. The toolkit not only has > support for dicom, but also some of the dicom-like proprietary formats such > as GEMS. There is a neat little viewer included called "dcdisp", but it > requires an 8-bit PsuedoColor Visual so under Linux you will have to start X > as such (startx -- -depth 8). The "dccdump" program will dump the dicom > header so you can extract the pixel width, height, size and slice thickness > which come in handy for volview scaling parameters. > > Below is a typical scenario I go through to convert a stack of 16-bit dicom > images. I've ran into problems with "iflTo3Dtiff" and better luck with > "imgcopy" so I go from dicom->raw->3Dtiff. > > # Linux > foreach f (*.dcm) > dctoraw $f $f.raw > end > cat *.raw > tmp > # Irix > imgcopy tmp#raw%size=$width,$height,$slices,1%type=ushort%color=luminance > volume.tif > > The other format I see often is "analyze" which uses separate image(raw) and > header files. I found a white paper on the internet that described the > header format and included source code for dumping the header. Let me know > if anyone needs this. > > Koz > > > > > Also MRICro have a free viewer package for Linux and Windows > > that will allow > > limited conversions. > > > > I actually skip using dicomToIFL, relying instead on these > > tools above to do > > conversion direct to tiff, since DICOM 'standards' seem to > > vary. Then I use > > the tiff conversion files that come with volumizer to create > > a 3dtiff. > > > > Cheers, > > Tze Lin > > > > -- > > Ong Tze Lin | Principal Consultant | SGI ICON Region > > (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 > > 89 Science Park Drive #03-06 Singapore 118 261 > > > > > -----Original Message----- > > > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > > > Sent: Wednesday, March 12, 2003 3:13 PM > > > To: Thyaganathan Seperamaniam > > > Cc: info-volumizer@kraftwerk.corp.sgi.com > > > Subject: [info-volumizer] Re: volumizer > > > > > > > > > Hi Thyaga, > > > > > > What kind of problems are you having specifically? We have > > found some > > > issues with the dicomToIFL converter for certain DICOM data sets. > > > > > > Anyone else know of other dicom tools that might be available > > > on the web > > > that Thyaga could use? > > > > > > Cheers, > > > Praveen > > > > > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > > > > > hi Praveen, > > > > > > > > Im thyaga from university malaya. malaysia. > > > > > > > > currently im working with volumizer to visualize medical > > > images (ie CT and MR images) > > > > i manage to make 3d volumes of ACR/NEMA images using dicom > > > converters, but i cant > > > > convert dcm images. When i convert tiff images, its not > > > showing what i wanted., something > > > > is wrong with the way it interpolate. > > > > > > > > can you suggest me some good reference for volumizer. thanks > > > > > > > > regards > > > > thyaga > > > > > > > > > > -- > > > ----------------------------------------------------------------- > > > Praveen Bhaniramka Member of Technical Staff (MTS) > > > praveenb@sgi.com Advanced Graphics Division > > > (650)933-1785 Silicon Graphics, Inc. > > > ----------------------------------------------------------------- > > > > > From info-volumizer-owner@els.sgi.com Wed Mar 12 07:18:29 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CFITjN1039826; Wed, 12 Mar 2003 07:18:29 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2CFITh6985078; Wed, 12 Mar 2003 07:18:29 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from zok.sgi.com (zok.SGI.COM [204.94.215.101]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CFIRjN1041006 for ; Wed, 12 Mar 2003 07:18:27 -0800 (PST) Received: from kraftwerk.corp.sgi.com (kraftwerk.corp.sgi.com [192.26.51.114]) by zok.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2CFIR9n006008 for ; Wed, 12 Mar 2003 07:18:27 -0800 Received: from nodin.corp.sgi.com (nodin.corp.sgi.com [192.26.51.193]) by kraftwerk.corp.sgi.com (8.11.4/8.11.4/ils-2.0) with ESMTP id h2CFHRa13065626 for ; Wed, 12 Mar 2003 07:17:27 -0800 (PST) mail_from (fdech@agswitch.bsd.uchicago.edu) Received: from corsair.corp.sgi.com (corsair.sgi.com [192.26.67.33]) by nodin.corp.sgi.com (8.12.3/8.11.4/nodin-1.0) with ESMTP id h2CFHOok21397494 for ; Wed, 12 Mar 2003 07:17:24 -0800 (PST) Received: from agswitch.bsd.uchicago.edu (agswitch.bsd.uchicago.edu [128.135.94.16]) by corsair.corp.sgi.com (8.12.6/8.12.6/freebsd-nospam-3.1) with ESMTP id h2CFHNt7062938 for ; Wed, 12 Mar 2003 07:17:24 -0800 (PST) Received: (from fdech@localhost) by agswitch.bsd.uchicago.edu (8.11.6/8.11.6) id h2CFHHA11974; Wed, 12 Mar 2003 09:17:17 -0600 Date: Wed, 12 Mar 2003 09:17:17 -0600 From: Fred Dech To: Bob Kozdemba Cc: "'info-volumizer@els.sgi.com'" , Thyaganathan Seperamaniam , info-volumizer@kraftwerk.corp.sgi.com Subject: Re: [info-volumizer] Re: volumizer Message-ID: <20030312091717.K29144@agswitch.bsd.uchicago.edu> References: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline User-Agent: Mutt/1.2.5.1i In-Reply-To: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com>; from koz@sgi.com on Wed, Mar 12, 2003 at 03:46:27AM -0800 Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Dr. Clunie's tools will build under IRIX. i use them in IRIX along with the CTN toolkit in order to deal with Dicom related issues. Unfortunately, either I'm too stupid, or Dave's commenting is lacking (he also writes code with lines that run around 150+ characters per), I've never been able to get a handle on his class structure. I'd love to build a loader using his C++ toolkit rather than CTN, which is written in C and has some compliancy issues. But I've never been able to make heads nor tails of Dave's code. by the way. does anyone out there happen to know what happened to the CTN libs. http://wuerlim.wustl.edu/DICOM/index.html sends you on a wild goose chase. coincidentally, i spent an hour last week trying to track down a newer version. thanks. --fred -- Fred Dech fdech@uchicago.edu University of Chicago Dept. of Surgery Ph: (773) 834-8359, Fax: (773) 702-0564 On Wed, Mar 12, 2003 at 03:46:27AM -0800, Bob Kozdemba wrote: > > > I have used David Clunie's tools (available from his website, > > www.dclunie.com I think) on Linux and Windows to successfully > > convert DICOM > > and other formats to tiff. > > I've been working with dicom quite a bit lately and I probably need to > launch a web site with this stuff but anyhow... > > I agree that Dave's toolkit is very useful and I use it under Linux mainly > because it compiled straight out of the box. I suspect it would also build > under Irix if the gnu compilers were loaded. The toolkit not only has > support for dicom, but also some of the dicom-like proprietary formats such > as GEMS. There is a neat little viewer included called "dcdisp", but it > requires an 8-bit PsuedoColor Visual so under Linux you will have to start X > as such (startx -- -depth 8). The "dccdump" program will dump the dicom > header so you can extract the pixel width, height, size and slice thickness > which come in handy for volview scaling parameters. > > Below is a typical scenario I go through to convert a stack of 16-bit dicom > images. I've ran into problems with "iflTo3Dtiff" and better luck with > "imgcopy" so I go from dicom->raw->3Dtiff. > > # Linux > foreach f (*.dcm) > dctoraw $f $f.raw > end > cat *.raw > tmp > # Irix > imgcopy tmp#raw%size=$width,$height,$slices,1%type=ushort%color=luminance > volume.tif > > The other format I see often is "analyze" which uses separate image(raw) and > header files. I found a white paper on the internet that described the > header format and included source code for dumping the header. Let me know > if anyone needs this. > > Koz > > > > > Also MRICro have a free viewer package for Linux and Windows > > that will allow > > limited conversions. > > > > I actually skip using dicomToIFL, relying instead on these > > tools above to do > > conversion direct to tiff, since DICOM 'standards' seem to > > vary. Then I use > > the tiff conversion files that come with volumizer to create > > a 3dtiff. > > > > Cheers, > > Tze Lin > > > > -- > > Ong Tze Lin | Principal Consultant | SGI ICON Region > > (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 > > 89 Science Park Drive #03-06 Singapore 118 261 > > > > > -----Original Message----- > > > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > > > Sent: Wednesday, March 12, 2003 3:13 PM > > > To: Thyaganathan Seperamaniam > > > Cc: info-volumizer@kraftwerk.corp.sgi.com > > > Subject: [info-volumizer] Re: volumizer > > > > > > > > > Hi Thyaga, > > > > > > What kind of problems are you having specifically? We have > > found some > > > issues with the dicomToIFL converter for certain DICOM data sets. > > > > > > Anyone else know of other dicom tools that might be available > > > on the web > > > that Thyaga could use? > > > > > > Cheers, > > > Praveen > > > > > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > > > > > hi Praveen, > > > > > > > > Im thyaga from university malaya. malaysia. > > > > > > > > currently im working with volumizer to visualize medical > > > images (ie CT and MR images) > > > > i manage to make 3d volumes of ACR/NEMA images using dicom > > > converters, but i cant > > > > convert dcm images. When i convert tiff images, its not > > > showing what i wanted., something > > > > is wrong with the way it interpolate. > > > > > > > > can you suggest me some good reference for volumizer. thanks > > > > > > > > regards > > > > thyaga > > > > > > > > > > -- > > > ----------------------------------------------------------------- > > > Praveen Bhaniramka Member of Technical Staff (MTS) > > > praveenb@sgi.com Advanced Graphics Division > > > (650)933-1785 Silicon Graphics, Inc. > > > ----------------------------------------------------------------- > > > > > From info-volumizer-owner@els.sgi.com Wed Mar 12 08:54:28 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CGsSjN1038938; Wed, 12 Mar 2003 08:54:28 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2CGsR6i1026006; Wed, 12 Mar 2003 08:54:27 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from rj.sgi.com (rj.SGI.COM [192.82.208.96]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2CGsRjN1033678 for ; Wed, 12 Mar 2003 08:54:27 -0800 (PST) Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by rj.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2CGsQnH021909 for ; Wed, 12 Mar 2003 08:54:26 -0800 Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h2CGr1mt063449 for ; Wed, 12 Mar 2003 08:53:01 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h2CGqpvv063488 for ; Wed, 12 Mar 2003 08:53:01 -0800 (PST) Date: Wed, 12 Mar 2003 08:52:51 -0800 From: Praveen Bhaniramka To: "'info-volumizer@els.sgi.com'" Subject: [info-volumizer] Please do not send "reply-all" messages! In-Reply-To: <20030312091717.K29144@agswitch.bsd.uchicago.edu> Message-ID: References: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com> <20030312091717.K29144@agswitch.bsd.uchicago.edu> MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi All, The "reply-to" address for info-volumizer messages is set to the list's posting address, info-volumizer@els.sgi.com. So please do not use "reply-all" when replying to messages on the list. Doing so might send multiple copies to the list! Cheers, Praveen From info-volumizer-owner@els.sgi.com Wed Mar 12 18:06:54 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2D26rjN1047595; Wed, 12 Mar 2003 18:06:53 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2D26rdJ1031336; Wed, 12 Mar 2003 18:06:53 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from hotmail.com (dav69.sea2.hotmail.com [207.68.164.204]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2D26qjN1019151 for ; Wed, 12 Mar 2003 18:06:52 -0800 (PST) Received: from mail pickup service by hotmail.com with Microsoft SMTPSVC; Wed, 12 Mar 2003 18:06:52 -0800 X-Originating-IP: [202.185.109.198] From: "Thyaganathan Seperamaniam" To: References: <0B5A22454A17D6119D76006094A34B47AC3E91@mtv-atc-605e--n.corp.sgi.com> <20030312091717.K29144@agswitch.bsd.uchicago.edu> Subject: Re: [info-volumizer] Re: volumizer Date: Thu, 13 Mar 2003 10:06:52 +0800 MIME-Version: 1.0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: 7bit X-Priority: 3 X-MSMail-Priority: Normal X-Mailer: Microsoft Outlook Express 6.00.2720.3000 X-MimeOLE: Produced By Microsoft MimeOLE V6.00.2600.0000 Message-ID: X-OriginalArrivalTime: 13 Mar 2003 02:06:52.0002 (UTC) FILETIME=[369AD420:01C2E905] Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com i manage to search ftp server with CTN files... ftp://ftp.erl.wustl.edu/pub/dicom/software/ctn/ regards thyaga ----- Original Message ----- From: "Fred Dech" To: "Bob Kozdemba" Cc: ; "Thyaganathan Seperamaniam" ; Sent: Wednesday, March 12, 2003 11:17 PM Subject: Re: [info-volumizer] Re: volumizer > Dr. Clunie's tools will build under IRIX. i use them in IRIX along with the > CTN toolkit in order to deal with Dicom related issues. > > Unfortunately, either I'm too stupid, or Dave's commenting is lacking > (he also writes code with lines that run around 150+ characters per), I've > never been able to get a handle on his class structure. I'd love to build a > loader using his C++ toolkit rather than CTN, which is written in C and has > some compliancy issues. But I've never been able to make heads nor tails of > Dave's code. > > by the way. does anyone out there happen to know what happened to the CTN > libs. > http://wuerlim.wustl.edu/DICOM/index.html sends you on a wild goose chase. > coincidentally, i spent an hour last week trying to track down a newer version. > > thanks. > > --fred > -- > Fred Dech fdech@uchicago.edu > University of Chicago Dept. of Surgery > Ph: (773) 834-8359, Fax: (773) 702-0564 > > On Wed, Mar 12, 2003 at 03:46:27AM -0800, Bob Kozdemba wrote: > > > > > I have used David Clunie's tools (available from his website, > > > www.dclunie.com I think) on Linux and Windows to successfully > > > convert DICOM > > > and other formats to tiff. > > > > I've been working with dicom quite a bit lately and I probably need to > > launch a web site with this stuff but anyhow... > > > > I agree that Dave's toolkit is very useful and I use it under Linux mainly > > because it compiled straight out of the box. I suspect it would also build > > under Irix if the gnu compilers were loaded. The toolkit not only has > > support for dicom, but also some of the dicom-like proprietary formats such > > as GEMS. There is a neat little viewer included called "dcdisp", but it > > requires an 8-bit PsuedoColor Visual so under Linux you will have to start X > > as such (startx -- -depth 8). The "dccdump" program will dump the dicom > > header so you can extract the pixel width, height, size and slice thickness > > which come in handy for volview scaling parameters. > > > > Below is a typical scenario I go through to convert a stack of 16-bit dicom > > images. I've ran into problems with "iflTo3Dtiff" and better luck with > > "imgcopy" so I go from dicom->raw->3Dtiff. > > > > # Linux > > foreach f (*.dcm) > > dctoraw $f $f.raw > > end > > cat *.raw > tmp > > # Irix > > imgcopy tmp#raw%size=$width,$height,$slices,1%type=ushort%color=luminance > > volume.tif > > > > The other format I see often is "analyze" which uses separate image(raw) and > > header files. I found a white paper on the internet that described the > > header format and included source code for dumping the header. Let me know > > if anyone needs this. > > > > Koz > > > > > > > > Also MRICro have a free viewer package for Linux and Windows > > > that will allow > > > limited conversions. > > > > > > I actually skip using dicomToIFL, relying instead on these > > > tools above to do > > > conversion direct to tiff, since DICOM 'standards' seem to > > > vary. Then I use > > > the tiff conversion files that come with volumizer to create > > > a 3dtiff. > > > > > > Cheers, > > > Tze Lin > > > > > > -- > > > Ong Tze Lin | Principal Consultant | SGI ICON Region > > > (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 > > > 89 Science Park Drive #03-06 Singapore 118 261 > > > > > > > -----Original Message----- > > > > From: Praveen Bhaniramka [mailto:praveenb@mrcoffee.engr.sgi.com] > > > > Sent: Wednesday, March 12, 2003 3:13 PM > > > > To: Thyaganathan Seperamaniam > > > > Cc: info-volumizer@kraftwerk.corp.sgi.com > > > > Subject: [info-volumizer] Re: volumizer > > > > > > > > > > > > Hi Thyaga, > > > > > > > > What kind of problems are you having specifically? We have > > > found some > > > > issues with the dicomToIFL converter for certain DICOM data sets. > > > > > > > > Anyone else know of other dicom tools that might be available > > > > on the web > > > > that Thyaga could use? > > > > > > > > Cheers, > > > > Praveen > > > > > > > > On Wed, 12 Mar 2003, Thyaganathan Seperamaniam wrote: > > > > > > > > > hi Praveen, > > > > > > > > > > Im thyaga from university malaya. malaysia. > > > > > > > > > > currently im working with volumizer to visualize medical > > > > images (ie CT and MR images) > > > > > i manage to make 3d volumes of ACR/NEMA images using dicom > > > > converters, but i cant > > > > > convert dcm images. When i convert tiff images, its not > > > > showing what i wanted., something > > > > > is wrong with the way it interpolate. > > > > > > > > > > can you suggest me some good reference for volumizer. thanks > > > > > > > > > > regards > > > > > thyaga > > > > > > > > > > > > > -- > > > > ----------------------------------------------------------------- > > > > Praveen Bhaniramka Member of Technical Staff (MTS) > > > > praveenb@sgi.com Advanced Graphics Division > > > > (650)933-1785 Silicon Graphics, Inc. > > > > ----------------------------------------------------------------- > > > > > > > > From info-volumizer-owner@els.sgi.com Thu Mar 13 12:12:23 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2DKCNjN1054861; Thu, 13 Mar 2003 12:12:23 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2DKCN2s1069112; Thu, 13 Mar 2003 12:12:23 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from fit.edu (panther.fit.edu [163.118.5.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2DKCMjN1069921 for ; Thu, 13 Mar 2003 12:12:22 -0800 (PST) Received: from pacific (pacific.eng.fit.edu [163.118.131.162]) by fit.edu (8.12.2+Sun/8.12.2) with ESMTP id h2DKBXTa026378; Thu, 13 Mar 2003 15:11:33 -0500 (EST) Date: Thu, 13 Mar 2003 15:12:21 -0500 (EST) From: Pierre Larochelle To: info-volumizer@els.sgi.com cc: fdech@uchicago.edu, Pierre Larochelle Subject: [info-volumizer] IRIX builds... Message-ID: MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Fred and everyone, I have tried to build Clunie's dicom3 tools package (both the work-in-progress and the old package) under IRIX 6.5. Both without success. If you know of any tips/tricks to help get this package to build they would be appreciated. - Pierre Fred wrote: Dr. Clunie's tools will build under IRIX. i use them in IRIX along with the CTN toolkit in order to deal with Dicom related issues. --fred --- Pierre Larochelle, Ph.D., P.E. Florida Institute of Technology Mechanical Engineering Dept. 150 West University Blvd. Melbourne, FL 32901 (321) 674 - 7274 (off) (321) 674 - 8813 (fax) http://dionne.me.fit.edu/~rassl/ From info-volumizer-owner@els.sgi.com Thu Mar 13 12:34:09 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2DKY8jN1063444; Thu, 13 Mar 2003 12:34:09 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2DKY8Cu1069974; Thu, 13 Mar 2003 12:34:08 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from agswitch.bsd.uchicago.edu (agswitch.bsd.uchicago.edu [128.135.94.16]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2DKY7jN1050705 for ; Thu, 13 Mar 2003 12:34:08 -0800 (PST) Received: (from fdech@localhost) by agswitch.bsd.uchicago.edu (8.11.6/8.11.6) id h2DKY5v13414; Thu, 13 Mar 2003 14:34:05 -0600 Date: Thu, 13 Mar 2003 14:34:05 -0600 From: Fred Dech To: Pierre Larochelle Cc: info-volumizer@els.sgi.com Subject: [info-volumizer] Re: IRIX builds... Message-ID: <20030313143405.G13107@agswitch.bsd.uchicago.edu> References: Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline User-Agent: Mutt/1.2.5.1i In-Reply-To: ; from pierrel@fit.edu on Thu, Mar 13, 2003 at 03:12:21PM -0500 Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com hi Pierre. i told Bob Kozdemba that as soon as i've got some breathing time, i'll put together a tarball of the binaries i was able to build. as i told Bob, i built them a few years ago and remember vaguely that building them in IRIX was about as enjoyable as a herniated disc. so i can't give you pointers on how to build. but when i've got the binaries together and on some anon ftp site, i'll fire off an email and let people know. it should be within a week... maybe 2. --fred On Thu, Mar 13, 2003 at 03:12:21PM -0500, Pierre Larochelle wrote: > > Fred and everyone, > > I have tried to build Clunie's dicom3 tools package (both the > work-in-progress and the old package) under IRIX 6.5. Both without > success. If you know of any tips/tricks to help get this package to build > they would be appreciated. > > - Pierre > > Fred wrote: > > Dr. Clunie's tools will build under IRIX. i use them in > IRIX along with > the CTN toolkit in order to deal with Dicom related issues. > > --fred > > --- > Pierre Larochelle, Ph.D., P.E. > Florida Institute of Technology > Mechanical Engineering Dept. > 150 West University Blvd. > Melbourne, FL 32901 > (321) 674 - 7274 (off) > (321) 674 - 8813 (fax) > http://dionne.me.fit.edu/~rassl/ > From info-volumizer-owner@els.sgi.com Fri Mar 14 22:51:48 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2F6pljN1096216; Fri, 14 Mar 2003 22:51:48 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2F6plQk1100808; Fri, 14 Mar 2003 22:51:47 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from mailhub-3.iastate.edu (mailhub-3.iastate.edu [129.186.140.13]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2F6pkjN1095907 for ; Fri, 14 Mar 2003 22:51:46 -0800 (PST) Received: from mailout-1.iastate.edu (mailout-1.iastate.edu [129.186.140.1]) by mailhub-3.iastate.edu (8.9.3/8.9.3) with SMTP id AAA11077 for ; Sat, 15 Mar 2003 00:51:45 -0600 Received: from webmail-12.iastate.edu(129.186.140.32) by mailout-1.iastate.edu via csmap id 31859; Sat, 15 Mar 2003 00:51:35 -0600 (CST) To: info-volumizer@els.sgi.com From: Moonho Park Subject: [info-volumizer] Volumizer Date: Sat, 15 Mar 2003 00:51:43 -0600 (CST) X-Mailer: Endymion MailMan Professional Edition v3.0.14 ISU Version mp6.05 Message-Id: <435101521036730@webmail.iastate.edu> Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Volumizer People, I'm now using Volumizer in Performer, pfVolume to see MRI/CT data of human head as volumetric data. BTW, I want to insert surgery instruments which are 3D polygon models, into the volumetric human head as if a surgeon performed an operation on a patient. Is it possible? Any comment will be appreciated. Thanks. Moonho From info-volumizer-owner@els.sgi.com Tue Mar 18 07:55:14 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2IFtEjN1158362; Tue, 18 Mar 2003 07:55:14 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2IFtEFK1159878; Tue, 18 Mar 2003 07:55:14 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from agswitch.bsd.uchicago.edu ([128.135.94.16]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2IFtDjN1161360 for ; Tue, 18 Mar 2003 07:55:13 -0800 (PST) Received: (from fdech@localhost) by agswitch.bsd.uchicago.edu (8.11.6/8.11.6) id h2IFtCI26585 for info-volumizer@els.sgi.com; Tue, 18 Mar 2003 09:55:12 -0600 Date: Tue, 18 Mar 2003 09:55:12 -0600 From: Fred Dech To: info-volumizer@els.sgi.com Subject: [info-volumizer] DICOM tickle. Message-ID: <20030318095512.Y6535@agswitch.bsd.uchicago.edu> Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline User-Agent: Mutt/1.2.5.1i Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com hi Volumizers. i've not yet put together the David Clunie SGI binary surprise package. i will get to it before the end of the week, Lord willing. in the meantime. a colleague who administers our hospital's PACS turned me on to some stuff that may well be useful to some of you. Go to www.offis.de, pick English as your language, go to projects, and download the DICOM toolkit. i need it in order to generate queries to our hospital's radiological databases. but the web description mentions DICOM to TIFF support, too. i have downloaded it, but have not yet attempted to build it in IRIX, so YMMV! if i understand it right, it has a Pearl wrapper which would allow one to *possibly* convert DICOM to TIFF by using simple Pearl scripts to access the libraries. NOTE: it is not unlikely that i'm completely wrong ;^) enjoy. --fred From info-volumizer-owner@els.sgi.com Thu Mar 20 01:43:18 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2K9hIjN1190867; Thu, 20 Mar 2003 01:43:18 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2K9hIe21192494; Thu, 20 Mar 2003 01:43:18 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from tolkor.sgi.com ([198.149.18.6]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2K9hGjN1182619 for ; Thu, 20 Mar 2003 01:43:17 -0800 (PST) Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by tolkor.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2K9sdkq031997 for ; Thu, 20 Mar 2003 03:54:40 -0600 Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h2K9fomt092761 for ; Thu, 20 Mar 2003 01:41:50 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h2K9few0092805 for ; Thu, 20 Mar 2003 01:41:50 -0800 (PST) Date: Thu, 20 Mar 2003 01:41:40 -0800 From: Praveen Bhaniramka To: info-volumizer@els.sgi.com Subject: Re: [info-volumizer] Volumizer In-Reply-To: <435101521036730@webmail.iastate.edu> Message-ID: References: <435101521036730@webmail.iastate.edu> MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Moonho, Try running - perfly /usr/share/Volumizer2/data/XML/simple.vz \ /usr/share/Performer/data/cow.obj This would render the Volumetric data along with the polygonal model for the cow! The same technique can be used by your application to mix volumetric data with polygonal data sets. Cheers, Praveen On Sat, 15 Mar 2003, Moonho Park wrote: > Hi Volumizer People, > > I'm now using Volumizer in Performer, pfVolume to see MRI/CT data of human > head as volumetric data. BTW, I want to insert surgery instruments which are > 3D polygon models, into the volumetric human head as if a surgeon performed an > operation on a patient. Is it possible? Any comment will be appreciated. > Thanks. > > Moonho > > > > -- ----------------------------------------------------------------- Praveen Bhaniramka Member of Technical Staff (MTS) praveenb@sgi.com Advanced Graphics Division (650)933-1785 Silicon Graphics, Inc. ----------------------------------------------------------------- From info-volumizer-owner@els.sgi.com Thu Mar 27 20:22:04 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2S4M4jN1365503; Thu, 27 Mar 2003 20:22:04 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2S4M3kx1373439; Thu, 27 Mar 2003 20:22:03 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from hotmail.com (dav29.sea2.hotmail.com [207.68.164.86]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2S4M1jN1354001 for ; Thu, 27 Mar 2003 20:22:03 -0800 (PST) Received: from mail pickup service by hotmail.com with Microsoft SMTPSVC; Thu, 27 Mar 2003 20:22:01 -0800 Received: from 202.185.109.198 by DAV29.sea2.internal.hotmail.com with DAV; Fri, 28 Mar 2003 04:22:01 +0000 X-Originating-IP: [202.185.109.198] X-Originating-Email: [p96thya@hotmail.com] From: "Thyaganathan Seperamaniam" To: References: <435101521036730@webmail.iastate.edu> Subject: [info-volumizer] SoCube.h Date: Fri, 28 Mar 2003 12:22:01 +0800 MIME-Version: 1.0 Content-Type: text/plain; charset="iso-8859-1" Content-Transfer-Encoding: 7bit X-Priority: 3 X-MSMail-Priority: Normal X-Mailer: Microsoft Outlook Express 6.00.2720.3000 X-MimeOLE: Produced By Microsoft MimeOLE V6.00.2600.0000 Message-ID: X-OriginalArrivalTime: 28 Mar 2003 04:22:01.0790 (UTC) FILETIME=[949C85E0:01C2F4E1] Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com hi i tried compiling the glut.cxx code (volumizer example code), but it requires Vo2Loaders.o (that is generated by making /usr/share/Volumizer2/src/lib) but the problem, when i tried compiling the loader, it's asking SoCube.h that should be in (./Inventor/nodes/). inside my inventor i dont have nodes folder and the header files. i have inventor install in my irix 6.5 any tips ?? thanks thyaga From info-volumizer-owner@els.sgi.com Thu Mar 27 22:30:43 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2S6UhjN1374201; Thu, 27 Mar 2003 22:30:43 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2S6Uh2t1350042; Thu, 27 Mar 2003 22:30:43 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from rj.sgi.com (rj.SGI.COM [192.82.208.96]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2S6UgjN1372458 for ; Thu, 27 Mar 2003 22:30:42 -0800 (PST) Received: from mrcoffee.engr.sgi.com (mrcoffee.engr.sgi.com [192.102.96.154]) by rj.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2S6UgnH011321 for ; Thu, 27 Mar 2003 22:30:42 -0800 Received: from mrcoffee.engr.sgi.com (localhost [127.0.0.1]) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5) with ESMTP id h2S6TGmt122873 for ; Thu, 27 Mar 2003 22:29:16 -0800 (PST) Received: from localhost (praveenb@localhost) by mrcoffee.engr.sgi.com (SGI-8.12.5/8.12.5/Submit) with ESMTP id h2S6T65k122863 for ; Thu, 27 Mar 2003 22:29:16 -0800 (PST) Date: Thu, 27 Mar 2003 22:29:06 -0800 From: Praveen Bhaniramka To: info-volumizer@els.sgi.com Subject: Re: [info-volumizer] SoCube.h In-Reply-To: Message-ID: References: <435101521036730@webmail.iastate.edu> MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi Thyaga, What version of Volumizer are you using? The library name for the sample loaders has been changed to libvzLoaders.so starting Volumizer 2.3. You should be able to compile the simple pguide example using the following (see the pguide, chapter 2, 'Compiling... ' section) - % CC -o glut.o glut.cxx -c -I/usr/share/Volumizer2/src/lib % CC -o viewer glut.o -L/usr/share/Volumizer2/lib/ -lvz -lvzLoaders -lglut -lGLU -lGL -lXmu -lX11 The source for loaders is present in /usr/share/Volumizer2/src/lib/loaders and should compile readily as long as you have ifl_dev installed on your system. The compile error you are getting is probably for the Inventor node in /usr/share/Volumizer2/src/lib/Inventor which requires inventor_dev. You should safely be able to ignore this error for your case anyway :-) Cheers, Praveen On Fri, 28 Mar 2003, Thyaganathan Seperamaniam wrote: > hi > > i tried compiling the glut.cxx code (volumizer example code), but it > requires > Vo2Loaders.o (that is generated by making /usr/share/Volumizer2/src/lib) > > but the problem, when i tried compiling the loader, it's asking SoCube.h > that should be in (./Inventor/nodes/). inside my inventor i dont have nodes > folder > and the header files. > > i have inventor install in my irix 6.5 > > any tips ?? > > thanks > thyaga > -- ----------------------------------------------------------------- Praveen Bhaniramka Member of Technical Staff (MTS) praveenb@sgi.com Advanced Graphics Division (650)933-1785 Silicon Graphics, Inc. ----------------------------------------------------------------- From info-volumizer-owner@els.sgi.com Fri Mar 28 09:53:02 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2SHr2jN1382603; Fri, 28 Mar 2003 09:53:02 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h2SHr21P1379440; Fri, 28 Mar 2003 09:53:02 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from rj.sgi.com (rj.SGI.COM [192.82.208.96]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h2SHr1jN1390292 for ; Fri, 28 Mar 2003 09:53:01 -0800 (PST) Received: from kraftwerk.corp.sgi.com (ils.sgi.com [192.26.51.114]) by rj.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with ESMTP id h2SHr1nH022791 for ; Fri, 28 Mar 2003 09:53:01 -0800 Received: from nodin.corp.sgi.com (nodin.corp.sgi.com [192.26.51.193]) by kraftwerk.corp.sgi.com (8.11.4/8.11.4/ils-2.0) with ESMTP id h2SHq1x2950148 for ; Fri, 28 Mar 2003 09:52:01 -0800 (PST) mail_from (mark_sank03@mal.com) Received: from corsair.corp.sgi.com (corsair.sgi.com [192.26.67.33]) by nodin.corp.sgi.com (8.12.8/8.11.4/nodin-1.0) with ESMTP id h2SHq14L27059346 for ; Fri, 28 Mar 2003 09:52:01 -0800 (PST) Received: from corsair.corp.sgi.com (localhost [127.0.0.1]) by corsair.corp.sgi.com (8.12.8/8.12.6/freebsd-sendmail_sa_mtv-1.0) with ESMTP id h2SHpwOt017117 for ; Fri, 28 Mar 2003 09:52:00 -0800 (PST) X-Possible-Spam: the addition of this header was triggered by: mal2212.com.failing.dns.checks:helo Received: from mal2212.com (node-c-7788.a2000.nl [62.194.119.136]) by corsair.corp.sgi.com (8.12.8/8.12.6/freebsd-nospam-3.1) with SMTP id h2SHp70U017049 for ; Fri, 28 Mar 2003 09:51:08 -0800 (PST) Message-Id: <200303281751.h2SHp70U017049@corsair.corp.sgi.com> From: "MICHEAL SANKOH JNR." To: info-volumizer@kraftwerk.corp.sgi.com Subject: [info-volumizer] URGENT RESPONSES NEEDED Date: Fri, 28 Mar 2003 18:51:12 +0100 MIME-Version: 1.0 Content-Type: multipart/mixed; boundary="ccc10596-602b-4fa2-8181-5da263f55394" X-Spam-Status: No, hits=6.6 required=7.0 tests=FROM_ENDS_IN_NUMS,MSG_ID_ADDED_BY_MTA_3, NIGERIAN_TRANSACTION_1,RISK_FREE,SPAM_PHRASE_05_08, SUBJ_ALL_CAPS,SUPERLONG_LINE,US_DOLLARS,US_DOLLARS_4 version=2.43 X-Spam-Level: ****** Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com This is a multi-part message in MIME format --ccc10596-602b-4fa2-8181-5da263f55394 Content-Type: text/plain; charset=iso-8859-1 Content-Transfer-Encoding: quoted-printable URGENT ASSISTANCE NEEDED WITH ABSOLUTE TRUST IN GOD AND DUE RESPECT TO YOU, I WRITE TO YOU THIS LETTER = WHICH I BELIEVE YOU WOULD BE OF GREAT ASSISTANCE TO ME AND WOULD KEEP THE = INFORMATION CONFIDENTIAL. I AM MICHEAL SANKOH, A SON TO FODAY SANKOH, THE = REBEL LEADER IN SIERRA LEONE WARRING FACTIONS, I AM ABSOLUTELY AGAINST THE = UNENDING POLITICAL CRISES IN MY COUNTRY THAT HAS RESULTED TO A MISSIVE = DESTRUCTION OF HUMAN LIVES AND PROPERTY WHICH IS CURRENTLY IN THE WORLD NEWS. = ON THIS LAST ASSAULT BY THE FORCES. I ESCAPED TO THE NETHERLAND THROUGH THE = HELP OF UNITED NATIONS SOLDIERS WHO ARE THERE ON A PEACE MISSION. ON ARRIVAL = TO AMSTERDAM, I WENT DIRECTLY TO THE ASSYLUM CAMP, TO SEEK FOR POLITICAL = ASSYLUM, I WAS ASCEPTED, and BEFORE THE WAR HE DEPOSITED A TOTAL SUM $10.500 = MILLION USD IN TWO TRUNK BOXES WITH A SAFE DEPOSIT WITH FINANCE HOUSE. HE = DEPOSITED THEM AS FAMILY VALUABLES IN THE NAME OF HIS SON MICHAEL SANKOH. I = AM LOOKING FOR A RELIABLE AND TRUST WORTHY PARTNER FROM A DIFFERENT = COUNTRIES FROM THE NETHERLANDS SINCE THE LAW OF THE NETHERLANDS PROHIBIT A = REFUGEE (ASYLUM SEEKER) TO OPEN ACCOUNT OR TO BE INVOLVED IN ANY FINANCIAL = TRANSACTION.MOREOVER, THE NETHERLANDS FOREIGN EXCHANGE POLICY DOES NOT ALLOW SUCH INVESTMENT FROM = ASYLUM SEEKERS.I AM FACED WITH THE DILEMA OF INVESTING THIS AMOUNT OF MONEY = IN THE NETHERLANDS FOR THE FEAR OF GOING THROUGH THE SAME EXPERIENCE IN = FUTURE SINCE BOTH COUNTRIES HAVE SIMILAR HISTORY. I HUMBLY SOLICIT FOR YOUR = ASSISTANCE IN THE FOLLOWING: 1) PAY A SHORT WORKING DAY VISIT TO AMSTERDAM THE NETHERLANDS SO THAT WE SEE = FACE TO FACE, HAVE A TABLE TALK THAT WOULD CREATE CONFIDENCE IN ME THAT THE = FUND WOULD BE SAFE IN YOUR HANDS AND HAVE HAVE AN AGREEMENT FROM A ADVOCATE, = WHICH WILL BE DULY AND LEGALLY SIGN IN HIS CHAMBERS BEFORE TAKEN ANY STEP IN = THIS TRANSACTION. 2GET ALL THE NECESSARY DOCUMENT REGARDING THIS TRANSACTION AND CLAIM THE = BOXES FROM THE SECURITY COMPANY, OPEN AN ACCOUNT IN YOUR NAME WITH A LOCAL = BANK HERE AND DEPOSIT THE MONEY FOR ONWARD TRANSFER TO YOUR DESIGNATED = ACCOUNTS OVERSEAS. 3) MAKE A GOOD ARRANGEMENT FOR INVESTMENT AND DO INVEST THE MONEY FOR ME. I = AM WILLING TO GIVE YOU SOME PERCENTAGE FOR YOUR ASSISTANCE AND ON THIS, I = OFFER YOU 15%. 5% WOULD BE USED TO OFFSET EVERY EXPENSES TO BE INCURRED AND = TAXES OR CHARGES TO BE PAID IN THE COURSE ON THE TRANSACTION WHILE 80% WOULD = BE INVESTED AND YOU GET YOUR WAGE MONTHLY FOR MANAGING THE 80%. I ASSURE YOU = THAT THE TRANSACTION IS RISK FREE AND COULD BE COMPLETED UPON YOUR ARRIVAL IF = YOU WOULD BE OF ASSISTANCE TO ME, PLEASE FORWARD YOUR REPLY THROUGH MY = PRIVATE EMAIL ADDRESS AND CALL ME ON MY TELEPHONE LINE: 0031629343835 FOR = FURTHER DISCUSSION, AND REMEMBER CONFIDENTIAL SINCE I AM STILL WITH THE = NETHERLANDS GOVERNMENT. THANKS AND GOD BLESS MICHEAL SANKOH JNR. --ccc10596-602b-4fa2-8181-5da263f55394-- From info-volumizer-owner@els.sgi.com Mon Mar 31 16:18:45 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h310IjjN1411575; Mon, 31 Mar 2003 16:18:45 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h310IjMn1402417; Mon, 31 Mar 2003 16:18:45 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from fit.edu (fit.edu [163.118.5.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h310IhjN1427862 for ; Mon, 31 Mar 2003 16:18:44 -0800 (PST) Received: from pacific (pacific.eng.fit.edu [163.118.131.162]) by fit.edu (8.12.2+Sun/8.12.2) with ESMTP id h310Hw7F019325; Mon, 31 Mar 2003 19:17:58 -0500 (EST) Date: Mon, 31 Mar 2003 19:18:42 -0500 (EST) From: Pierre Larochelle To: info-volumizer@els.sgi.com cc: Pierre Larochelle Subject: [info-volumizer] DICOM to 3Dtiff files Message-ID: MIME-Version: 1.0 Content-Type: TEXT/PLAIN; charset=US-ASCII Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Volumizer Peoples, What am I missing folks... I am having a of a time creating 3Dtiff files from DICOM data. Here's the procedure I am trying: (1) I have raw dicom files in a directory. I use DICOM Works (http://dicom.online.fr/) (a nice FREE windows based dicom viewer and converter) to export/convert the raw dicom data to TIFF files. (2) I then ftp these tiff files to my SGI. (3) Of course the tiff files are in RGB color mode. So I wrote a simple little imgtcl script to convert the tiff files to Luminance color model using ilColorImg. (4) I view the images and check them with imgview and imginfo and they appear fine. (5) I use iflto3Dtiff to stack them up into a 3D tiff file. The file is generated ok. imginfo on the 3Dtiff file looks ok (the right dimensions, luminance, etc.). When I try and simply look at the 3Dtiff file in volview (volview -volume myfile.tif) I see garbage. I see some stuff but it makes no sense relative to the 2D tiff slices. What am I missing folks? fyi: Initially I tried dicomToIFL. What a waste. I couldn't get that to work on any dicom data less than 5 years old. Any ideas or suggestions would be appreciated. I'm going a little crazy over this... can't believe it's this hard. I must be missing something simple/stupid... Thanks in advance. - Pierre From info-volumizer-owner@els.sgi.com Mon Mar 31 16:30:41 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h310UfjN1409819; Mon, 31 Mar 2003 16:30:41 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h310Ufwd1422690; Mon, 31 Mar 2003 16:30:41 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from octopus.com.au (octopus.com.au [61.8.3.8]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h310UdjN1427385 for ; Mon, 31 Mar 2003 16:30:40 -0800 (PST) Received: from localhost (localhost [127.0.0.1]) by octopus.com.au (Postfix) with ESMTP id 75F6BD7AB0F for ; Tue, 1 Apr 2003 10:30:31 +1000 (EST) Received: from octopus.com.au (unknown [203.217.61.133]) (using TLSv1 with cipher RC4-MD5 (128/128 bits)) (No client certificate requested) by octopus.com.au (Postfix) with ESMTP id 01C84D7AB0C for ; Tue, 1 Apr 2003 10:30:31 +1000 (EST) Message-ID: <3E88DDAD.7060809@octopus.com.au> Date: Tue, 01 Apr 2003 10:30:37 +1000 From: Duraid Madina User-Agent: Mozilla/5.0 (Windows; U; Windows NT 5.1; en-US; rv:1.4a) Gecko/20030329 X-Accept-Language: en-us, en MIME-Version: 1.0 To: info-volumizer@els.sgi.com Subject: [info-volumizer] A portable volumizer? Content-Type: text/plain; charset=us-ascii; format=flowed Content-Transfer-Encoding: 7bit X-Virus-Scanned: by AMaViS new-20020517 Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com Hi all, Is there any effort to make Volumizer depend only on OpenGL, so it could run on other systems (e.g. Altix systems, if and when SGI get around to releasing video hardware for them)? Curious, Duraid From info-volumizer-owner@els.sgi.com Mon Mar 31 16:46:59 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h310kwjN1416106; Mon, 31 Mar 2003 16:46:58 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h310kwx21431368; Mon, 31 Mar 2003 16:46:58 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from agswitch.bsd.uchicago.edu (agswitch.bsd.uchicago.edu [128.135.94.16]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h310kvjN1402900 for ; Mon, 31 Mar 2003 16:46:57 -0800 (PST) Received: (from fdech@localhost) by agswitch.bsd.uchicago.edu (8.11.6/8.11.6) id h310ktW04553; Mon, 31 Mar 2003 18:46:55 -0600 Date: Mon, 31 Mar 2003 18:46:55 -0600 From: Fred Dech To: Pierre Larochelle Cc: info-volumizer@els.sgi.com Subject: Re: [info-volumizer] DICOM to 3Dtiff files Message-ID: <20030331184655.J1995@agswitch.bsd.uchicago.edu> References: Mime-Version: 1.0 Content-Type: text/plain; charset=us-ascii Content-Disposition: inline User-Agent: Mutt/1.2.5.1i In-Reply-To: ; from pierrel@fit.edu on Mon, Mar 31, 2003 at 07:18:42PM -0500 Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com i donno if this'll help you, Pierre... tomorrow. i WILL tar up David Clunie's SGI binaries and put 'em on a website or ftp site. someone please remind me tomorrow morning. --fred On Mon, Mar 31, 2003 at 07:18:42PM -0500, Pierre Larochelle wrote: > > Volumizer Peoples, > > What am I missing folks... > > I am having a of a time > creating 3Dtiff files from DICOM data. > > Here's the procedure I am trying: > > (1) I have raw dicom files in a directory. I use > DICOM Works (http://dicom.online.fr/) (a nice FREE windows based dicom > viewer and converter) to export/convert the raw dicom data to TIFF files. > > (2) I then ftp these tiff files to my SGI. > > (3) Of course the tiff files are in RGB color mode. So I wrote a simple > little imgtcl script to convert the tiff files to Luminance color model > using ilColorImg. > > (4) I view the images and check them with imgview and > imginfo and they appear fine. > > (5) I use iflto3Dtiff to stack them up into a 3D tiff file. The file is > generated ok. imginfo on the 3Dtiff file looks ok (the right dimensions, > luminance, etc.). When I try and simply look at the 3Dtiff file in > volview (volview -volume myfile.tif) I see garbage. I see some stuff but > it makes no sense relative to the 2D tiff slices. What am I missing > folks? > > fyi: Initially I tried dicomToIFL. What a waste. I couldn't get that to > work on any dicom data less than 5 years old. > > Any ideas or suggestions would be appreciated. I'm going a little crazy > over this... can't believe it's this hard. I must be missing something > simple/stupid... > > Thanks in advance. > > - Pierre From info-volumizer-owner@els.sgi.com Mon Mar 31 17:13:21 2003 Received: from els.sgi.com (localhost [127.0.0.1]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h311DLjN1410561; Mon, 31 Mar 2003 17:13:21 -0800 (PST) Received: (from majordom@localhost) by els.sgi.com (8.12.8/8.12.8/Submit) id h311DLGd1438507; Mon, 31 Mar 2003 17:13:21 -0800 (PST) X-Authentication-Warning: els.sgi.com: majordom set sender to owner-info-volumizer@els.sgi.com using -f Received: from zok.sgi.com (zok.SGI.COM [204.94.215.101]) by els.sgi.com (8.12.8/8.12.2/els-2.2) with ESMTP id h311DKjN1442042 for ; Mon, 31 Mar 2003 17:13:20 -0800 (PST) Received: from sgisgp.singapore.sgi.com (sgisgp.singapore.sgi.com [134.14.84.2]) by zok.sgi.com (8.12.2/8.12.2/linux-outbound_gateway-1.2) with SMTP id h311DJuY010443 for ; Mon, 31 Mar 2003 17:13:20 -0800 Received: from sgp-apsa002e--n.singapore.sgi.com by sgisgp.singapore.sgi.com via ESMTP (950413.SGI.8.6.12/930416.SGI) for id JAA09106; Tue, 1 Apr 2003 09:25:00 +0800 Received: by sgp-apsa002e--n.singapore.sgi.com with Internet Mail Service (5.5.2655.55) id ; Tue, 1 Apr 2003 09:09:18 +0800 Message-ID: <5D772A9A582CD711BB6F00062938EE3E0638E1@sgp-apsa002e--n.singapore.sgi.com> From: Ong Tze Lin To: "'info-volumizer@els.sgi.com'" Subject: RE: [info-volumizer] DICOM to 3Dtiff files Date: Tue, 1 Apr 2003 09:09:17 +0800 MIME-Version: 1.0 X-Mailer: Internet Mail Service (5.5.2655.55) Content-Type: text/plain; charset="iso-8859-1" Sender: owner-info-volumizer@els.sgi.com Precedence: bulk Reply-To: info-volumizer@els.sgi.com I did something similar up to step (5) when I found I was feeding my single images to iflto3dtiff in the wrong order; my filenames were: image1, image2 ... image10, image20... image100. So I padded the filenames to %03d ( image001, image002 ..image010 ... image100 ) and everthing was ok... hope this helps... Cheers, Tze Lin -- Ong Tze Lin | Principal Consultant | SGI ICON Region (D) +65 6771 0219 (F) +65 6779 3650 (H) +65 9832 7125 89 Science Park Drive #03-06 Singapore 118 261 > -----Original Message----- > From: Pierre Larochelle [mailto:pierrel@fit.edu] > Sent: Tuesday, April 01, 2003 8:19 AM > To: info-volumizer@els.sgi.com > Cc: Pierre Larochelle > Subject: [info-volumizer] DICOM to 3Dtiff files > > > Volumizer Peoples, > > What am I missing folks... > > I am having a of a time > creating 3Dtiff files from DICOM data. > > Here's the procedure I am trying: > > (1) I have raw dicom files in a directory. I use > DICOM Works (http://dicom.online.fr/) (a nice FREE windows based dicom > viewer and converter) to export/convert the raw dicom data to > TIFF files. > > (2) I then ftp these tiff files to my SGI. > > (3) Of course the tiff files are in RGB color mode. So I > wrote a simple > little imgtcl script to convert the tiff files to Luminance > color model > using ilColorImg. > > (4) I view the images and check them with imgview and > imginfo and they appear fine. > > (5) I use iflto3Dtiff to stack them up into a 3D tiff file. > The file is > generated ok. imginfo on the 3Dtiff file looks ok (the right > dimensions, > luminance, etc.). When I try and simply look at the 3Dtiff file in > volview (volview -volume myfile.tif) I see garbage. I see > some stuff but > it makes no sense relative to the 2D tiff slices. What am I missing > folks? > > fyi: Initially I tried dicomToIFL. What a waste. I couldn't > get that to > work on any dicom data less than 5 years old. > > Any ideas or suggestions would be appreciated. I'm going a > little crazy > over this... can't believe it's this hard. I must be missing > something > simple/stupid... > > Thanks in advance. > > - Pierre >