try now On 04/01/2014 12:53 PM, Eiran Harel wrote: > Thanks, i can't open the page: > Safari can’t open the page > “ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/fslmaths.fsl.mac” > because Safari can’t load any data from this location. > What is the problem? > Eiran > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Tuesday, April 01, 2014 7:36 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] preprocessing question > > 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-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve >> [gr...@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 >> gr...@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 >> dispose of the e-mail. >> >> >> _______________________________________________ >> 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 > gr...@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 > > _______________________________________________ > 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 gr...@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
