Re: [Freesurfer] implementation on Neurodebian
Hi Knut, Good to know we can speed things up with CUDA. I have a multicore CPU and was wondering if there is a parallelized version of Freesurfer on the CPU. Thanks for the speedup! Best regards, Cartik On Oct 24, 2011, at 4:41 AM, Knut J Bjuland wrote: Hi Cartik You use -use-gpu to offload rendering to the GPU using cuda. Knut J From: cartik.sha...@childmind.orgmailto:cartik.sha...@childmind.org To: knut...@hotmail.commailto:knut...@hotmail.com Subject: Re: [Freesurfer] implementation on Neurodebian Date: Thu, 20 Oct 2011 15:48:10 + Hi Knut: Cool..is this speeding up things by rendering on the GPU. Is there a way to offload computation to the GPU. Best regards, Cartik On Oct 20, 2011, at 10:57 AM, Knut J Bjuland wrote: Hi Cartik If you enable cuda with -use-gpu the recon-all will run faster. Knut J Den 17.10.2011 16:41, skrev Cartik Sharma: Dear Freesurfer developer(s), Is there a way to get Freesurfer run faster on Neurodebian. While the package produces some truly out of the world segmentations and labels for the cortical surface, it seems to take time. For eg: Defect correction and retesellation takes an hour, other steps take longer..I'm not sure if it's the original dataset, the OS platform (i.e Virtual Machine, Neurodebian) or original computational engine itself. Would be happy in efforts and hints to make this run faster. Best regards, Cartik Sharma ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Re: [Freesurfer] implementation on Neurodebian
not yet, although it is something we are working on. cheers Bruce On Mon, 24 Oct 2011, Cartik Sharma wrote: Hi Knut, Good to know we can speed things up with CUDA. I have a multicore CPU and was wondering if there is a parallelized version of Freesurfer on the CPU. Thanks for the speedup! Best regards, Cartik On Oct 24, 2011, at 4:41 AM, Knut J Bjuland wrote: Hi Cartik You use -use-gpu to offload rendering to the GPU using cuda. Knut J From: cartik.sha...@childmind.org To: knut...@hotmail.com Subject: Re: [Freesurfer] implementation on Neurodebian Date: Thu, 20 Oct 2011 15:48:10 + Hi Knut: Cool..is this speeding up things by rendering on the GPU. Is there a way to offload computation to the GPU. Best regards, Cartik On Oct 20, 2011, at 10:57 AM, Knut J Bjuland wrote: Hi Cartik If you enable cuda with -use-gpu the recon-all will run faster. Knut J Den 17.10.2011 16:41, skrev Cartik Sharma: Dear Freesurfer developer(s), Is there a way to get Freesurfer run faster on Neurodebian. While the package produces some truly out of the world segmentations and labels for the cortical surface, it seems to take time. For eg: Defect correction and retesellation takes an hour, other steps take longer..I'm not sure if it's the original dataset, the OS platform (i.e Virtual Machine, Neurodebian) or original computational engine itself. Would be happy in efforts and hints to make this run faster. Best regards, Cartik Sharma ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Re: [Freesurfer] implementation on Neurodebian
Bruce, http://surfer.nmr.mgh.harvard.edu/fswiki/CUDADevelopersGuide#Benchmarks Found this link..clearly impressive, are these benchmarks for GPU enabled cards with CUDA or also with ATI Radeon GPU enabled cards? Best, Cartik On Oct 24, 2011, at 10:30 AM, Bruce Fischl wrote: not yet, although it is something we are working on. cheers Bruce On Mon, 24 Oct 2011, Cartik Sharma wrote: Hi Knut, Good to know we can speed things up with CUDA. I have a multicore CPU and was wondering if there is a parallelized version of Freesurfer on the CPU. Thanks for the speedup! Best regards, Cartik On Oct 24, 2011, at 4:41 AM, Knut J Bjuland wrote: Hi Cartik You use -use-gpu to offload rendering to the GPU using cuda. Knut J From: cartik.sha...@childmind.org To: knut...@hotmail.com Subject: Re: [Freesurfer] implementation on Neurodebian Date: Thu, 20 Oct 2011 15:48:10 + Hi Knut: Cool..is this speeding up things by rendering on the GPU. Is there a way to offload computation to the GPU. Best regards, Cartik On Oct 20, 2011, at 10:57 AM, Knut J Bjuland wrote: Hi Cartik If you enable cuda with -use-gpu the recon-all will run faster. Knut J Den 17.10.2011 16:41, skrev Cartik Sharma: Dear Freesurfer developer(s), Is there a way to get Freesurfer run faster on Neurodebian. While the package produces some truly out of the world segmentations and labels for the cortical surface, it seems to take time. For eg: Defect correction and retesellation takes an hour, other steps take longer..I'm not sure if it's the original dataset, the OS platform (i.e Virtual Machine, Neurodebian) or original computational engine itself. Would be happy in efforts and hints to make this run faster. Best regards, Cartik Sharma ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] implementation on Neurodebian
No. Cuda only runs in NVidia hardware. - Pedro Paulo de Magalhães Oliveira Junior Netfilter SpeedComm Telecom -- www.netfilter.com.br -- For mobile: http://itunes.apple.com/br/artist/netfilter/id365306441 On Mon, Oct 24, 2011 at 13:01, Cartik Sharma cartik.sha...@childmind.orgwrote: Bruce, http://surfer.nmr.mgh.harvard.edu/fswiki/CUDADevelopersGuide#Benchmarks Found this link..clearly impressive, are these benchmarks for GPU enabled cards with CUDA or also with ATI Radeon GPU enabled cards? Best, Cartik On Oct 24, 2011, at 10:30 AM, Bruce Fischl wrote: not yet, although it is something we are working on. cheers Bruce On Mon, 24 Oct 2011, Cartik Sharma wrote: Hi Knut, Good to know we can speed things up with CUDA. I have a multicore CPU and was wondering if there is a parallelized version of Freesurfer on the CPU. Thanks for the speedup! Best regards, Cartik On Oct 24, 2011, at 4:41 AM, Knut J Bjuland wrote: Hi Cartik You use -use-gpu to offload rendering to the GPU using cuda. Knut J From: cartik.sha...@childmind.org To: knut...@hotmail.com Subject: Re: [Freesurfer] implementation on Neurodebian Date: Thu, 20 Oct 2011 15:48:10 + Hi Knut: Cool..is this speeding up things by rendering on the GPU. Is there a way to offload computation to the GPU. Best regards, Cartik On Oct 20, 2011, at 10:57 AM, Knut J Bjuland wrote: Hi Cartik If you enable cuda with -use-gpu the recon-all will run faster. Knut J Den 17.10.2011 16:41, skrev Cartik Sharma: Dear Freesurfer developer(s), Is there a way to get Freesurfer run faster on Neurodebian. While the package produces some truly out of the world segmentations and labels for the cortical surface, it seems to take time. For eg: Defect correction and retesellation takes an hour, other steps take longer..I'm not sure if it's the original dataset, the OS platform (i.e Virtual Machine, Neurodebian) or original computational engine itself. Would be happy in efforts and hints to make this run faster. Best regards, Cartik Sharma ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Re: [Freesurfer] implementation on Neurodebian
just CUDA for now. Bruce On Mon, 24 Oct 2011, Cartik Sharma wrote: Bruce, http://surfer.nmr.mgh.harvard.edu/fswiki/CUDADevelopersGuide#Benchmarks Found this link..clearly impressive, are these benchmarks for GPU enabled cards with CUDA or also with ATI Radeon GPU enabled cards? Best, Cartik On Oct 24, 2011, at 10:30 AM, Bruce Fischl wrote: not yet, although it is something we are working on. cheers Bruce On Mon, 24 Oct 2011, Cartik Sharma wrote: Hi Knut, Good to know we can speed things up with CUDA. I have a multicore CPU and was wondering if there is a parallelized version of Freesurfer on the CPU. Thanks for the speedup! Best regards, Cartik On Oct 24, 2011, at 4:41 AM, Knut J Bjuland wrote: Hi Cartik You use -use-gpu to offload rendering to the GPU using cuda. Knut J From: cartik.sha...@childmind.org To: knut...@hotmail.com Subject: Re: [Freesurfer] implementation on Neurodebian Date: Thu, 20 Oct 2011 15:48:10 + Hi Knut: Cool..is this speeding up things by rendering on the GPU. Is there a way to offload computation to the GPU. Best regards, Cartik On Oct 20, 2011, at 10:57 AM, Knut J Bjuland wrote: Hi Cartik If you enable cuda with -use-gpu the recon-all will run faster. Knut J Den 17.10.2011 16:41, skrev Cartik Sharma: Dear Freesurfer developer(s), Is there a way to get Freesurfer run faster on Neurodebian. While the package produces some truly out of the world segmentations and labels for the cortical surface, it seems to take time. For eg: Defect correction and retesellation takes an hour, other steps take longer..I'm not sure if it's the original dataset, the OS platform (i.e Virtual Machine, Neurodebian) or original computational engine itself. Would be happy in efforts and hints to make this run faster. Best regards, Cartik Sharma ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
[Freesurfer] implementation on Neurodebian
Dear Freesurfer developer(s), Is there a way to get Freesurfer run faster on Neurodebian. While the package produces some truly out of the world segmentations and labels for the cortical surface, it seems to take time. For eg: Defect correction and retesellation takes an hour, other steps take longer..I'm not sure if it's the original dataset, the OS platform (i.e Virtual Machine, Neurodebian) or original computational engine itself. Would be happy in efforts and hints to make this run faster. Best regards, Cartik Sharma ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
