It looks like a corrupted file. Try renaming/deleting lh.orig.nofix,
regenerating it, then seeing if mris_smooth works.

On 08/22/2018 10:44 AM, Paysing Wu wrote:
>
>         External Email - Use Caution
>
> Hi FreeSurfer Developers,
>
> I was running recon-all and it stoped at smooth1. The command is:
> recon-all -i T1image.nii.gz -s subject_name -all
>
> Below is error message on the screen:
> #@# Smooth1 lh Mon Aug 20 23:51:55 EDT 2018
> /Volumes/AERS_BACKUP/Data/OSA/FREESURFER/OSA_048/scripts
> \n mris_smooth -nw -seed 1234 ../surf/lh.orig.nofix
> ../surf/lh.smoothwm.nofix \n
> setting seed for random number generator to 1234
> mris_smooth(27701,0x7fffec01b3c0) malloc: ***
> mach_vm_map(size=13835344293369151488) failed (error code=3)
> *** error: can't allocate region
> *** set a breakpoint in malloc_error_break to debug
> TAGskip: tag=-8454144, failed to calloc 4286513152 bytes!
>
> Cannot allocate memory
> Darwin lspfis-imac.uphs.upenn.edu <http://lspfis-imac.uphs.upenn.edu>
> 16.7.0 Darwin Kernel Version 16.7.0: Fri Apr 27 17:59:46 PDT 2018;
> root:xnu-3789.73.13~1/RELEASE_X86_64 x86_64
>
> recon-all -s OSA_048 exited with ERRORS at Mon Aug 20 23:51:55 EDT 2018
> Although the message looks like the shortage of memory, it could run a
> few weeks ago. So, I really doubt memory is the main reason (the
> physical memory is 40GB)...The only difference before and after I can
> run is I reinstall the same version of Matlab 2016b by accident. Do
> you think I have to change some setting to run it?
>
> Also, I've looked for solutions and couldn't find a one which really
> fits my problem. Would you please help me trouble-shoot this issue?
> Thank you so much.
>
> 1) FreeSurfer version: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c
> 2) Platform: macOS Sierra version 10.12.6, with physical memory 40GB
> 3) uname -a: Darwin lspfis-imac.uphs.upenn.edu
> <http://lspfis-imac.uphs.upenn.edu> 16.7.0 Darwin Kernel Version
> 16.7.0: Fri Apr 27 17:59:46 PDT 2018;
> root:xnu-3789.73.13~1/RELEASE_X86_64 x86_64
> 4) recon-all.log: see attached
>
>
> Best,
>
> PH
>
>
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