I think they should give the same result, but try one or two to confirm
On 6/29/2020 6:12 PM, Yann Quidé wrote:
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Hi Andrew,
Thanks for this. Just a quick follow up question: does that mean I will have to recon all all the other scans that did not show this error with v7.1.1 for consistency, or will it be fine to keep them processed with v7.1.0?
Thanks,
Yann
On 30 Jun 2020, at 2:04 am, Hoopes, Andrew <AHOOPES@mgh.harvard.edu mailto:AHOOPES@mgh.harvard.edu> wrote:
Hi Yann (and anyone else with mri_cc failures on mac), We have a fix that we'll include in an upcoming 7.1.1 patch release. If you'd like a quick local fix, you can update your distribution with the new version of mri_cc by running the following commands (this might require sudo): cd $FREESURFER_HOME/bin rm mri_cc curlhttps://surfer.nmr.mgh.harvard.edu/pub/dist/tmp_patch/mri_cc-O mri_cc chmod +x mri_cc Please let us know if this does not solve your issue. Andrew *From:*<freesurfer-bounces@nmr.mgh.harvard.edu mailto:freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Yann Quidé <yannquide@gmail.com mailto:yannquide@gmail.com> *Reply-To:*FS Help <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu> *Date:*Monday, June 29, 2020 at 2:35 AM *To:*FS Help <freesurfer@nmr.mgh.harvard.edu mailto:freesurfer@nmr.mgh.harvard.edu> *Subject:*Re: [Freesurfer] Error recon-all mri_cc * External Email - Use Caution * Hi team, I appreciate everyone is busy, but did anyone have time to look at my subject? It was uploaded on June 18. It’s called yannquide.tar.gz Thanks for your time. Yann
On 22 Jun 2020, at 12:51 pm, Yann Quidé <yannquide@gmail.com mailto:yannquide@gmail.com> wrote: Hi team, I was just wondering if you received my file and if you had time to look at it? Thanks, Yann
On 18 Jun 2020, at 7:08 am, Yann Quidé <yannquide@gmail.com mailto:yannquide@gmail.com> wrote: Hi Doug, Thanks for this. I sent the file; it’s called yannquide.tar.gz. Yann
On 16 Jun 2020, at 11:56 pm, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote: Can you upload the subject so I can take a look? Instructions below
From the linux command line, Create the file you want to upload, eg, cd $SUBJECTS_DIR tar cvfz subject.tar.gz ./subject Now log into our anonymous FTP site: ftpsurfer.nmr.mgh.harvard.edu http://surfer.nmr.mgh.harvard.edu/ It will ask you for a user name: use "anonymous" (no quotes) It will ask you for a password: use "anonymous" (no quotes) cd transfer/incoming binary put subject.tar.gz Send an email that the file has been and the name of the file.
On 6/15/2020 8:28 PM, Yann Quidé wrote:
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Hi there,
I am using Freesurfer v7.1.0 and encounter an error for few of my subjects only. Recon-all finishes with errors, and it seems this occurs during the segmentation.
What can I do to fix this?
I attached the recon-all log for one of my subject.
Thanks,
Yann
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