That is weird. You can get a copy from here

ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/fslmaths.fsl.mac

copy it to

$FREESURFER_HOME/bin/fslmaths.fsl

On 04/01/2014 12:25 PM, Eiran Harel wrote:
> Hi Doug,
> No, it does not exist.
> What should i do?
> Thanks,
> Eiran
> ________________________________________
> From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [greve@nmr.mgh.harvard.edu]
> Sent: Tuesday, April 01, 2014 7:16 PM
> To: freesurfer@nmr.mgh.harvard.edu
> Subject: Re: [Freesurfer] preprocessing question
>
> does $FREESURFER_HOME/bin/fslmaths.fsl exist?
>
> On 04/01/2014 03:59 AM, Eiran Harel wrote:
>> Dear freesurfers,
>> I have installed freesurfer and fsl on my Mac:
>> *
>> *
>> *-------- freesurfer-Darwin-snowleopard-i686-stable-pub-v5.3.0 --------*
>> *Setting up environment for FreeSurfer/FS-FAST (and FSL)*
>> *FREESURFER_HOME   /Applications/freesurfer*
>> *FSFAST_HOME       /Applications/freesurfer/fsfast*
>> *FSF_OUTPUT_FORMAT nii.gz*
>> *SUBJECTS_DIR      /Applications/freesurfer/subjects*
>> *MNI_DIR           /Applications/freesurfer/mni*
>> *FSL_DIR           /usr/local/fsl*
>>
>> I am trying to run Preproc-sess command:
>>
>> *preproc-sess -s bsmt102 -surface fsaverage lhrh -mni305 -fwhm 5 -fsd
>> bold -stc odd -per-run -force*
>>
>> and get this error:
>>
>> *mkbrainmask -i template.nii.gz -o masks/brain.nii.gz -thresh 0.1
>> -ndil 1 -nerode 0*
>> *ERROR: cannot find either fslmaths for avwmaths*
>> *
>> *
>> Any suggestions?
>> Thanks!
>> Eiran
>>
>>
>>
>>
>> <http://www.tasmc.org.il/be-well/Pages/default.aspx>
>> <https://www.facebook.com/ichilov.medical>
>> <http://twitter.com/tasmc1>   <http://www.youtube.com/tasmc1>
>> <http://www.tasmc.org.il/sites/en/Pages/default.aspx>
>>
>>
>>
>>
>> _______________________________________________
>> Freesurfer mailing list
>> Freesurfer@nmr.mgh.harvard.edu
>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> --
> Douglas N. Greve, Ph.D.
> MGH-NMR Center
> greve@nmr.mgh.harvard.edu
> Phone Number: 617-724-2358
> Fax: 617-726-7422
>
> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
> www.nmr.mgh.harvard.edu/facility/filedrop/index.html
> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> The information in this e-mail is intended only for the person to whom it is
> addressed. If you believe this e-mail was sent to you in error and the e-mail
> contains patient information, please contact the Partners Compliance HelpLine at
> http://www.partners.org/complianceline . If the e-mail was sent to you in error
> but does not contain patient information, please contact the sender and properly
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>
>
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>
>

--
Douglas N. Greve, Ph.D.
MGH-NMR Center
greve@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422

Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/

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