Re: [Freesurfer] recon-all finished without error but no results

2022-07-15 Thread Boa Sorte Silva, Narlon
External Email - Use Caution Hi Zixuan, I would try keeping the input and output folders separate (i.e., use a different output folder). Also, usually we don’t need to specific the subject’s directory in the command line if it’s already set up in the environment. Nárlon Cássio

Re: [Freesurfer] Image Edits

2022-07-15 Thread Fischl, Bruce
Hi Rachel It depends on what you mean by "higher quality". I think if you change the magnification on the save snapshot window it will increase the effective resolution of the image, regardless of what format you save it in (png, tif, jpg) , but maybe Ruopeng has a better idea? Cheers Bruce

Re: [Freesurfer] FSLOUTPUTTYPE=NIFTI_PAIR: Command not found

2022-07-15 Thread fsbuild
External Email - Use Caution Hello Deanna, Something is executing the “export” command which is fine in bash or sh, but not in csh or tcsh (which needs “setenv”). export: Command not found.You could try manually running the scripts that get sourced with “tcsh -xf” to better see i

[Freesurfer] Image Edits

2022-07-15 Thread Rachel Wagner
External Email - Use Caution Hello all! I hope you are all keeping well. I was wondering if there was a way to save images from freeview that are higher quality than png? In addition, is there a way to set the color bar scale from 0 to 1 and hopefully at 10 internals 0, 0.1, 0.

[Freesurfer] ATTACHMENT REMOVED--asegstats2table

2022-07-15 Thread John Absher
Please be advised, This message contained one or more of the following prohibited file types: (.zip,.bat,.exe,.pif,.scr). The file(s) have been automatically removed from the message, in order to protect the privacy of our patients and employees, and to protect the integrity of our systems and

[Freesurfer] FSLOUTPUTTYPE=NIFTI_PAIR: Command not found

2022-07-15 Thread Deanna Aghbashian
External Email - Use Caution Hello FreeSurfer Developers, I have set up with terminal in tcsh, and it was working without error. However, when I logged on late last week I got an error in setting up environment for FreeSurfer on Mac OS Monterey Version 12.4 freesurfer-

[Freesurfer] Pass code

2022-07-15 Thread Ulysses Bernardet
External Email - Use Caution Hi, I would like to request the pass code for the FreeSurfer Virtual VM image. Cheers, Ulysses Dr Ulysses Bernardet Assistant Professor of Computer Science cybernetic human lab cs.aston.ac.uk/chl College of Engineering and Physical Sciences Asto