External Email - Use Caution Yup, That solved it! Thank you for your help! I totally missed that. Misque
> On Jul 3, 2023, at 9:36 AM, Huang, Yujing <yhuan...@mgh.harvard.edu> wrote: > > External Email - Use Caution > > > lta_convert looks fine in /Applications/freesurfer/7.4.1/. > > Your ‘export FREESURFER_HOME=Applications/freesurfer/7.4.1’ doesn’t have the > leading ‘/’. > > From: freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> > <freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> On Behalf Of Misque Boswell > Sent: Monday, July 3, 2023 12:30 PM > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu > <mailto:freesurfer@nmr.mgh.harvard.edu>> > Subject: Re: [Freesurfer] Error Help > > External Email - Use Caution > > Thank you, Yujing. Here it is: > > Misques-MBP-3 / % /Applications/freesurfer/7.4.1/bin/lta_convert -all-info > 7.4.1 > > ProgramName: lta_convert ProgramArguments: > /Applications/freesurfer/7.4.1/bin/lta_convert -all-info ProgramVersion: > 7.4.1 TimeStamp: 2023/07/03-16:28:36-GMT BuildTime: Jun 14 2023 00:15:19 > BuildStamp: freesurfer-macOS-darwin_x86_64-7.4.1-20230614-7eb8460 User: > misqueboswell Machine: Misques-MBP-3.local Platform: Darwin > PlatformVersion: 22.2.0 CompilerName: Clang CompilerVersion: 12.0.0 > > Misque > > > On Jul 3, 2023, at 8:55 AM, Huang, Yujing <yhuan...@mgh.harvard.edu > <mailto:yhuan...@mgh.harvard.edu>> wrote: > > External Email - Use Caution > > > Can you run the following at prompt? > > ‘Applications/freesurfer/7.4.1/bin/lta_convert -all-info’ > > I’m not a Mac user. Do you need ‘/’ in front of ‘Application’? > > Yujing > > From: freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> > <freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> On Behalf Of Misque Boswell > Sent: Monday, July 3, 2023 11:44 AM > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu > <mailto:freesurfer@nmr.mgh.harvard.edu>> > Subject: Re: [Freesurfer] Error Help > > External Email - Use Caution > > Hello Yujing, > > Thank you for your response. I followed the directions for setup and sourced > SetUpFreeSurfer.sh as you stated. All goes as planned up to this point. > > Misques-MBP-3 / % export FREESURFER_HOME=Applications/freesurfer/7.4.1 > Misques-MBP-3 / % source $FREESURFER_HOME/SetUpFreeSurfer.sh > > -------- freesurfer-macOS-darwin_x86_64-7.4.1-20230614-7eb8460 -------- > Setting up environment for FreeSurfer/FS-FAST (and FSL) > FREESURFER_HOME Applications/freesurfer/7.4.1 > FSFAST_HOME Applications/freesurfer/7.4.1/fsfast > FSF_OUTPUT_FORMAT nii.gz > SUBJECTS_DIR Applications/freesurfer/7.4.1/subjects > MNI_DIR Applications/freesurfer/7.4.1/mni > FSL_DIR /Users/misqueboswell/fsl > > > Can you check where your recon-all is and if lta_convert is in the > distribution? > 1. which recon-all > > Misques-MBP-3 / % which recon-all > Applications/freesurfer/7.4.1/bin/recon-all > > 2. ls -l <recon-all_path>/lta_convert > > lta_convert executable is in the "Applications/freesurfer/7.4.1/bin/" > (rwxr-xr-x 1 root wheel 2613752 Jun 13 21:21 lta_convert) > > Thank you again for your help! > Misque > > > > On Jul 3, 2023, at 6:26 AM, Huang, Yujing <yhuan...@mgh.harvard.edu > <mailto:yhuan...@mgh.harvard.edu>> wrote: > > Yujing > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" > claiming to > behttps://urldefense.com/v3/__https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer__;!!LIr3w8kk_Xxm!sN-QzRIVQgauHYkWRHOlLN73RfQ78tapdXHzS3ly-UvRXnjZHsJ2Jhr1Mp4d4MTXN_BGoy7Q81Ih8zTkO1twlBA7$ > > <https://secure-web.cisco.com/1I0lheNBosDtxoaOYe7gtwi_iXKu4srfHVaUXAm2BA2jb1L8wAN1i9YwdEMQuJfjGOgzs-qF-xZuG39zw3DNftKLTO3URLadXxsEIN8YL4QVaHs2T2YJpJTplMYGzr6pqPMssCxR97KJ4BFZ_5IdcqC_RERWTHHkzYhPM2h-fg6mb-DRnonKaWVFIZSG3I8LZonuQ4cN4d6Fc0Vh7qLPkbw0togbuucfzDYHUiR0xy2GpFZeqV5lVFNjjgb9Rm7VNhxxM4J0DGhHZEGQEO0Fwj0c8LL5N4iG3s8FN8eaEEumy8YuNnThtuatb4A6EMvYOP8091libuCbvp6PhOJgzDQ/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fsecure-web.cisco.com%2F1llhkHPyg1VHc464O3o5O51eCxsFetE01_fzaJf-QIvsGUJ2Z8n4uhtcqDZgb3amaPKTBrgT-qsrAgFgrZZ34BnHCeES7Bl-2eaXGAVT2vKg_lCx_lurTuwNqGSCn5w4b5Pp-Tg86dmQI4KoL7QVj0inQ90zCijqIWXqAquT8y1snWc311widSuHdHE9PikSUNMOCvolup6hHiyTfHORqzFJ_HNKsZrASMNIaprTT9KLDBfvG5WeJCYUOPOXl49OIeGvgB0fvMA1PhK01YaxwT_dHwiYJFvuY9ZZE7P_-vv4KYWA6oFsyq5wL7Yq1WzTFoJj1BBLkArETihKptxgSng%2Fhttps*3A*2F*2Furldefense.com*2Fv3*2F__https*3A*2F*2Fmail.nmr.mgh.harvard.edu*2Fmailman*2Flistinfo*2Ffreesurfer__*3B*21*21LIr3w8kk_Xxm*21sN-QzRIVQgauHYkWRHOlLN73RfQ78tapdXHzS3ly-UvRXnjZHsJ2Jhr1Mp4d4MTXN_BGoy7Q81Ih8zTkO1twlBA7*24__;JSUlJSUlJSUlJSUlJSUlJQ!!LIr3w8kk_Xxm!pYT-QM34nUuauLh1oa5yoepXqh4cfjGtoRfDKxHxzSHx21TYERVh3lJMQObHieQU2fEoRhO63Znik4dDXIrOMIK4$> > > The information in this e-mail is intended only for the person to whom it is > addressed. 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