Re: [Freesurfer] Support for GPU on Freesurfer
No, not any more. We used to have it, but it was too hard to maintain. You can always run in parallel on the CPU (-threads N) On 4/3/2024 2:58 PM, Camargo, Aldo wrote: External Email - Use Caution Hi there, I was wondering if there is support for GPU on FreeSurfer. I really would like to use it on GPU because is taking 9 hours per subject to recon-all. Thanks a lot and have a nice day, Aldo Camargo Senior Postdoctoral Fellow at the University of Maryland, Baltimore ___ 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 Mass General Brigham Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline> . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
Re: [Freesurfer] Support for GPU on Freesurfer
External Email - Use Caution Use of parallelization depends upon the order of how the data needs to be processed. The recon-all command is not single command, but a wrapper command that runs a sequence or pipeline of many lower level freesurfer commands in a certain order. It’s not unexpected for recon-all of the subject bert data to take ~8 hours on a consumer (non-server, non-cluster), stand-alone machine, e.g. recent Intel I9 chip with 8 physical (performance) ~3 GHz cores, 8 virtual cores, 32G of DDR4 RAM and an SSD drive. If you have access to a computing cluster, you could try running recon-all there - which should reduce the processing time. - R. On Apr 3, 2024, at 14:58, Camargo, Aldo acama...@som.umaryland.edu wrote:External Email - Use CautionHi there,I was wonderingif there is support for GPU on FreeSurfer. I really would like to use it on GPU because is taking 9 hours per subject to recon-all.Thanks a lot and have a nice day,Aldo CamargoSenior Postdoctoral Fellow at the University of Maryland, Baltimore___Freesurfer mailing listfreesur...@nmr.mgh.harvard.eduhttps://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 Mass General Brigham Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline> . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
[Freesurfer] Support for GPU on Freesurfer
External Email - Use Caution Hi there, I was wondering if there is support for GPU on FreeSurfer. I really would like to use it on GPU because is taking 9 hours per subject to recon-all. Thanks a lot and have a nice day, Aldo Camargo Senior Postdoctoral Fellow at the University of Maryland, Baltimore ___ 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 Mass General Brigham Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline <https://www.massgeneralbrigham.org/complianceline> . Please note that this e-mail is not secure (encrypted). If you do not wish to continue communication over unencrypted e-mail, please notify the sender of this message immediately. Continuing to send or respond to e-mail after receiving this message means you understand and accept this risk and wish to continue to communicate over unencrypted e-mail.
