Re: [Freesurfer] freesurfer-linux-ubuntu18_amd64-7.3.2.tar.gz is missing mri_make_bem_surfaces binary
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Hello John, The mri_make_bem_surfaces command had been put in the attic and removed from all platform builds, but was added back for some OS’s used by a different imaging project back in 2020. It was not restored for CentOS6 and Ubuntu18 builds. I don’t think that command has been updated/supported since ~2001. We have discontinued CentOS6 builds and I suspect Ubuntu18 will be next since Ubuntu18 LTS (long term stable release) expires in Q1 2023 since both Ubuntu 20 and Ubuntu 22 now have LTS releases. - R.
On Aug 17, 2022, at 15:07, Jon Houck <jon.houck@gmail.com> wrote: External Email - Use Caution Hi,It looks like the ubuntu 18 download for freesurfer 7.3.2 (freesurfer-linux-ubuntu18_x86_64-7.3.2-20220804-6354275) doesn't have the binary for mri_make_bem_surfaces. The file in this version is a bash script that prints the message "error: mri_make_bem_surfaces has been removed from this version of freesurfer. For further information, please post to the help list at freesurfer@nmr.mgh.harvard.edu".. The file isn't listed in 'attic' anymore on github, but for ubuntu 18 seems to be handled as if it was. The tarballs for the other 4 linux distributions are fine and only the ubuntu 18 tarball and .deb have this issue. Is this intentional? I didn't see anything in the release notes -- apologies if I missed something there.ThanksJon Houck_______________________________________________Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer%E2%80%8B
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That makes sense, thanks for the explanation. Yes, MNE & MNE-python still rely on the command, which was how I noticed the issue.
Best
Jon
On Wed, Aug 17, 2022 at 7:13 PM fsbuild fsbuild@contbay.com wrote:
Hello John,
The mri_make_bem_surfaces command had been put in the attic and removed from all platform builds, but was added back for some OS’s used by a different imaging project back in 2020. It was not restored for CentOS6 and Ubuntu18 builds. I don’t think that command has been updated/supported since ~2001. We have discontinued CentOS6 builds and I suspect Ubuntu18 will be next since Ubuntu18 LTS (long term stable release) expires in Q1 2023 since both Ubuntu 20 and Ubuntu 22 now have LTS releases.
- R.
On Aug 17, 2022, at 15:07, Jon Houck jon.houck@gmail.com wrote:
External Email - Use CautionHi,
It looks like the ubuntu 18 download for freesurfer 7.3.2 (freesurfer-linux-ubuntu18_x86_64-7.3.2-20220804-6354275) doesn't have the binary for mri_make_bem_surfaces. The file in this version is a bash script that prints the message "error: mri_make_bem_surfaces has been removed from this version of freesurfer. For further information, please post to the help list at freesurfer@nmr.mgh.harvard.edu".
The file isn't listed in 'attic' anymore on github, but for ubuntu 18 seems to be handled as if it was. The tarballs for the other 4 linux distributions are fine and only the ubuntu 18 tarball and .deb have this issue. Is this intentional? I didn't see anything in the release notes -- apologies if I missed something there..
Thanks
Jon Houck _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1-FrN79O0GRm9lZO9kL_q4Esdt2Fjc35_eRWkTlgNzIbe07...
freesurfer@nmr.mgh.harvard.edu
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fsbuild -
Jon Houck