Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-09-23 Thread Douglas N. Greve
On 9/23/2021 11:05 AM, Corinna Bauer wrote: External Email - Use Caution Hi Doug, I'm about to start edits on subjects that have been re-processed in 7.2 using the -fill flag. Before doing so, can you clarify/verify that we edit the new filled.mgz just the same as we would the

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-08-12 Thread fsbuild
External Email - Use Caution Hello Michael, Point taken. The issue with the exclusion of files under the ./mni directory did not change any source code and no binaries were re-compiled. The timestamps did change on all the files listed under

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-08-12 Thread Michael Krause
External Email - Use Caution Hi, On 7/21/21 8:20 PM, fsbuild wrote: > External Email - Use Caution > > Hello Kiyotaka, > > Please try refreshing your copy/install of the Ubuntu 7.2.0 distribution as > the packages have been updated to fix the warning below. I

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-22 Thread Kiyotaka Nemoto
External Email - Use Caution Dear R, Thank you very much! I followed your instructions, and it worked perfectly. Best regards, Kiyotaka On Thu, Jul 22, 2021 at 3:20 AM fsbuild wrote: > Hello Kiyotaka, > > Please try refreshing your copy/install of the Ubuntu 7.2.0

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-21 Thread fsbuild
External Email - Use Caution Hello Kiyotaka, Please try refreshing your copy/install of the Ubuntu 7.2.0 distribution as the packages have been updated to fix the warning below. I think you were using the installer, so you could try the commands below to download and

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-21 Thread Douglas N. Greve
Yes, just run recon-all with the -fill option to regenerated the filled.mgz (it will be the same filled.mgz but it will have a colortable embedded; it will also create filled.auto.mgz to help keep track of the edits). The just edit filled.mgz and proceed as normal. When you edit, make sure you

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-21 Thread Aaron Tanenbaum
External Email - Use Caution Read the release notes. Can I with the new version run a recon-all over processed 7.1.1. I am interested in the ability to edit filled.mgz and applying this to 7.1.1 recons. On Mon, Jul 19, 2021 at 5:46 PM Douglas N. Greve wrote: > We are please

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-20 Thread Kiyotaka Nemoto
External Email - Use Caution The default path you show me is exactly what I want! Thank you! Kiyotaka On Tue, Jul 20, 2021 at 8:23 PM fsbuild wrote: > While it does not currently work to change the default install path, that > default install path for the .deb (and .rpm) 7.2.0

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-20 Thread fsbuild
External Email - Use Caution While it does not currently work to change the default install path, that default install path for the .deb (and .rpm) 7.2.0 installer files is /usr/local/freesurfer/7.2.0 (which reads like the path you want to use). If you already have different

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-20 Thread Kiyotaka Nemoto
External Email - Use Caution Hello R, Thank you for letting me know that the deb file is now available. It's so useful for Ubuntu users to install FreeSurfer using the deb file. Can I ask you one more question? Can I specify the install directory using the deb file? I manage

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-20 Thread fsbuild
External Email - Use Caution Hello Kiyotaka, You may not need to be concerned about that warning. You can suppress it by setting the following in your shell environment. $ export NO_MINC=1 For Ubuntu linux, if you have sudo/root/admin privileges, then you could try running the

Re: [Freesurfer] Announcing FreeSurfer version 7.2

2021-07-19 Thread Kiyotaka Nemoto
External Email - Use Caution Dear Doug, Thank you for the announcement of 7.2.0 update. I updated using freesurfer-linux-ubuntu18_amd64.tar.gz and noticed that the 'mni' directory is missing. As a result, now the shell shows warning about MNI =

[Freesurfer] Announcing FreeSurfer version 7.2

2021-07-19 Thread Douglas N. Greve
We areĀ  please to announce version 7.2. Mostly bug fixes and behind-the-scenes enhancements. But there are a few new goodies and one new "known issue" about defacing. Check out https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes doug ___