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> 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 $FREESURFER_HOME/SetUpFreeSurfer.sh > > -------- freesurfer-macOS-darwin_x86_64-7.4.1-20230614-7eb8460 -------- > Setting up environment for FreeSurfer/FS-FAST (and FSL) > FREESURFER_HOME Applications/freesurfer/7.4.1 > FSFAST_HOME Applications/freesurfer/7.4.1/fsfast > FSF_OUTPUT_FORMAT nii.gz > SUBJECTS_DIR Applications/freesurfer/7.4.1/subjects > MNI_DIR Applications/freesurfer/7.4.1/mni > FSL_DIR /Users/misqueboswell/fsl > > > Can you check where your recon-all is and if lta_convert is in the > distribution? > 1. which recon-all > > Misques-MBP-3 / % which recon-all > Applications/freesurfer/7.4.1/bin/recon-all > > 2. ls -l <recon-all_path>/lta_convert > > lta_convert executable is in the "Applications/freesurfer/7.4.1/bin/" > (rwxr-xr-x 1 root wheel 2613752 Jun 13 21:21 lta_convert) > > Thank you again for your help! > Misque > > > On Jul 3, 2023, at 6:26 AM, Huang, Yujing <yhuan...@mgh.harvard.edu > <mailto:yhuan...@mgh.harvard.edu>> wrote: > > Yujing > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://secure-web.cisco.com/1x7-iXfneky-jzp11ff3I-aCt_UI8EsQmFRF5hcetkzkhHP5qSa1ltbP0ELg7FuuNkipBhZ248lYbiOVEcL8XEx_pmgDvH2VAHoH5Nk3s2VeJnn3-F3drTPPYaKQ4N6FRLNA3Jacf-Jckpu1zsrpqgg3wJyQ5gIL8RtNeI2AKW0GilRifrL38q2S6ZxPxzT_WZz37Zy4ByxquRxBwJ-zlS5LXIr-AOZ9DvdJjhXAbKsvlkNnLy5migJ3eYwkethTnt33Iv1HI9YCX3L5K9t7p3NJrYWV_PME31tcjutTPhN-n6vNe7vPio3EG6lrKiX1Lu8pDumxpEaEN5jy-zsNtzQ/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer__;!!LIr3w8kk_Xxm!sN-QzRIVQgauHYkWRHOlLN73RfQ78tapdXHzS3ly-UvRXnjZHsJ2Jhr1Mp4d4MTXN_BGoy7Q81Ih8zTkO1twlBA7$ > > 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 Mass General Brigham > Compliance HelpLine at > https://secure-web.cisco.com/1LRVUyjHR_ZB4-coqFkN84fPuO0gr74jWLhOF61_jvNeqVOaWXGRk8dj96hCrbU0Ji-VigfoPtWKUo6hi2gLa7hN3cRmAgMuL_MqhAgxCyw2HBQfnKssFyL4IgCMkPnd4JWhefxWk5nZXiIcCADL1chAeb-jKTe9oUPKgNSpAScWngcMeVIAIb8lswF-tzK5WsYPi8y8NC7bomL-FZQvZJS0PvrQ_wuomSa9YzOIy81VNzCuudKzU1-kBfp9x2tfBC-6bHmvEdNWpMjk3rIcwKeb8imBhpFMDBHYtq4i0wYgW1DQ3PaH1lL0vKFaRHx-fyqeRaJmolAK0IKXWodF35Q/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline__;!!LIr3w8kk_Xxm!sN-QzRIVQgauHYkWRHOlLN73RfQ78tapdXHzS3ly-UvRXnjZHsJ2Jhr1Mp4d4MTXN_BGoy7Q81Ih8zTkO_C_9O2O$ > > <https://secure-web.cisco.com/1LRVUyjHR_ZB4-coqFkN84fPuO0gr74jWLhOF61_jvNeqVOaWXGRk8dj96hCrbU0Ji-VigfoPtWKUo6hi2gLa7hN3cRmAgMuL_MqhAgxCyw2HBQfnKssFyL4IgCMkPnd4JWhefxWk5nZXiIcCADL1chAeb-jKTe9oUPKgNSpAScWngcMeVIAIb8lswF-tzK5WsYPi8y8NC7bomL-FZQvZJS0PvrQ_wuomSa9YzOIy81VNzCuudKzU1-kBfp9x2tfBC-6bHmvEdNWpMjk3rIcwKeb8imBhpFMDBHYtq4i0wYgW1DQ3PaH1lL0vKFaRHx-fyqeRaJmolAK0IKXWodF35Q/https%3A%2F%2Furldefense.com%2Fv3%2F__https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline__;!!LIr3w8kk_Xxm!sN-QzRIVQgauHYkWRHOlLN73RfQ78tapdXHzS3ly-UvRXnjZHsJ2Jhr1Mp4d4MTXN_BGoy7Q81Ih8zTkO_C_9O2O$ > > . > Please note that this e-mail is not secure (encrypted). If you do not wish > to continue communication over unencrypted e-mail, please notify the sender > of this message immediately. Continuing to send or respond to e-mail after > receiving this message means you understand and accept this risk and wish to > continue to communicate over unencrypted e-mail.
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