Re: [Freesurfer] fwhm vs. fwhm-surf in version 5.0

2010-08-22 Thread Douglas Greve
It is context dependent. When the output is the volume, it does volume smoothing. When the output is the surface, it does surface smoothing. The surface smoothing is better for surfaces because it excludes non-gray tissue types and does not smooth across gyri/sulci. How much better? I don't h

Re: [Freesurfer] how to expand the disk size if I use VirtualBoxFS45

2010-08-22 Thread Pedro Paulo de Magalhães Oliveira Junior
You can create another virtual disk and attach to your virtual machine -- via iPhone iOS4 Em 22/08/2010, às 16:16, Guang Zeng escreveu: > Hi, there, > > I am using VirtualBoxFS45 now, everything is fine. > But I find that after I load the FSVirtualBox.vdi, the default storage space > is about

Re: [Freesurfer] CUDA vs. ATI Stream / OpenCL

2010-08-22 Thread Pedro Paulo de Magalhães Oliveira Junior
Hi I'm not sure if or when FS will have OpenCL support. Notice that not all recon-all steps are GPU ready yet. I wouldn't invest now in Tesla platform. Try the 280 or 480 model instead. Cheers PPJ -- via iPhone iOS4 Em 22/08/2010, às 21:11, Georg Homola escreveu: Yes, I know, but will Free

Re: [Freesurfer] CUDA vs. ATI Stream / OpenCL

2010-08-22 Thread Georg Homola
Yes, I know, but will Freesurfer support ATI Stream and maybe OpenCL in the near future? OpenCL should be something that could run both on ATI and Nvidia GPUs. And then again, is it a good idea to invest money in Nvidia Tesla cards? Cheers, Georg Von: Pedro Paulo de Magalhães Oliveira

Re: [Freesurfer] CUDA vs. ATI Stream / OpenCL

2010-08-22 Thread Pedro Paulo de Magalhães Oliveira Junior
CUDA won't work on ATI. - Pedro Paulo de Magalhães Oliveira Junior Diretor de Operações Netfilter & SpeedComm Telecom -- www.netfilter.com.br -- For mobile: http://www.netfilter.com.br/mobile On Sun, Aug 22, 2010 at 19:04, Geo

[Freesurfer] CUDA vs. ATI Stream / OpenCL

2010-08-22 Thread Georg Homola
Hi Nick (and others), do you already have positive experience with ATI cards, too? We think about buying a new workstation with lots of GPU power so it would be great help to know what really pays off: GeForce GTX 480 or ATI Radeon HD 5870? Or should we go for Nvidia Tesla? What kind of tech specs

[Freesurfer] how to expand the disk size if I use VirtualBoxFS45

2010-08-22 Thread Guang Zeng
Hi, there, I am using VirtualBoxFS45 now, everything is fine. But I find that after I load the FSVirtualBox.vdi, the default storage space is about 8GB. I'd like to use FreeSurfer to run multiple subjects (about 100), and then do group analysis using QDEC, however the 8GB disk space limit wil

[Freesurfer] fwhm vs. fwhm-surf in version 5.0

2010-08-22 Thread Shahin
Hi, In version 5.0 it is mentioned that "- fwhm-surf" is obsolete (I know it is still available). I want to know what "- fwhm" option exactly do when I have already mentioned that I want a surface only processing (by using "-surface self lhrh"). Does it do smoothing on the basis of volum

Re: [Freesurfer] a question about VirtualBoxFS4.5

2010-08-22 Thread Guang Zeng
works now, Thanks a lot! Guang CC: freesurfer@nmr.mgh.harvard.edu From: ytho...@csail.mit.edu To: freesurfer...@hotmail.com Subject: Re: [Freesurfer] a question about VirtualBoxFS4.5 Date: Sun, 22 Aug 2010 11:30:43 -0400 Hi Guang, the error message implies you probably do not have access to tho

Re: [Freesurfer] a question about VirtualBoxFS4.5

2010-08-22 Thread ythomas
Hi Guang, the error message implies you probably do not have access to those files or directory. You should probably ask a sysadmin to do it or if you have admin access, you can probably do something like sudo The sudo command will prompt you type the root password. --Thomas On Aug 22,

[Freesurfer] a question about VirtualBoxFS4.5

2010-08-22 Thread Guang Zeng
Hi, there, I am using VirtualBox45 now. After I installed it, I tested it using tkmedit and tksurfer command, everything looks ok. However, when I try to run a recon-all command, it fails at the mris_volmask step, the error mask I got is: "mris_volmask.bin: error while loading shared librari

[Freesurfer] How to add volume on pial surface in manual editting the trouble shootings

2010-08-22 Thread 李瑾
Dear freesurferers I have faced a problem in editing pial surface in trouble shootings. Since the page https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/PialEdits has showed how to delete volume which is really useful, however, we faced another problem, that is how to add volume. I selected the