Dear Chester, What command did you exactly run? There seems to be a mix of T1 and T1+additionalMRI segmentation commands in there. Cheers, /Eugenio
Juan Eugenio Iglesias Senior research fellow CMIC (UCL), MGH (HMS) and CSAIL (MIT) http://www.jeiglesias.com > On Jun 9, 2021, at 00:23, Chester Kang <ckk...@unimelb.edu.au> wrote: > > External Email - Use Caution > > Hello FreeSurfer Developers, > > I am trying to run subfield segmentation of the hippocampus using Freesurfer > v7.1.0. Recon-all has been previously run on all subjects, however with a > different version of Freesurfer (v5.3.0). > > Getting the error(s): "No such file or directory" and on further > investigation "dyld: Library not loaded: @rpath/libmwlaunchermain.dylib" > > I've searched the archive but could not find a solution. > > Could someone please help? > > Below are details of the system and unsuccessful troubleshooting attempts. > > Regards, > Chester > > > FreeSurfer version: 7.1.0 > Platform: Mac OS 10.13.3 > hippocampal-subfields-T1.log is below: > > Things that have been checked/tried or troubleshooting attempted: > - SIP protection is disabled (csrutil status shows "disabled") > - Checked that there are files and correct permissions in the "lib/gcc/lib" > and the "MCRv84" folders > - tried to unset DYLD_LIBRARY_PATH (in the SetUpFreeSurfer.sh) > - checked the DYLD_LIBRARY_PATH value and run a step directly (both with "" > empty value and the values below) > > $ echo $DYLD_LIBRARY_PATH > > .:/Applications/freesurfer_v7.1.0/MCRv84//runtime/maci64:/Applications/freesurfer_v7.1.0/MCRv84//sys/os/maci64:/Applications/freesurfer_v7.1.0/lib/gcc/lib > > $ > /Applications/freesurfer_v7.1.0/bin/segmentSubjectT1T2_autoEstimateAlveusML.app/Contents/MacOS/segmentSubjectT1T2_autoEstimateAlveusML > > /Applications/freesurfer_v7.1.0/bin/segmentSubjectT1T2_autoEstimateAlveusML.app/Contents/MacOS/segmentSubjectT1T2_autoEstimateAlveusML > > dyld: Library not loaded: @rpath/libmwlaunchermain.dylib > Referenced from: > /Applications/freesurfer_v7.1.0/bin/segmentSubjectT1T2_autoEstimateAlveusML.app/Contents/MacOS/segmentSubjectT1T2_autoEstimateAlveusML > Reason: image not found > Abort trap: 6 > > > > === hippocampal-subfields-T1.log === > > > "... > ------------------------------ > USER chester > HOST selma.nnf.unimelb.edu.au > PROCESSID 17656 > PROCESSOR x86_64 > OS Darwin > ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS 1 > Darwin selma.nnf.unimelb.edu.au 17.4.0 Darwin Kernel Version 17.4.0: Tue Dec > 19 10:52:05 PST 2017; root:xnu-4570.47.16~1/RELEASE_X86_64 x86_64 > ------------------------------ > > freesurfer-darwin-macOS-7.1.0-20200511-813297b > > setenv SUBJECTS_DIR /data/netapp02/work/chester/global_pass_all > cd /data/netapp02/work/chester/global_pass_all > /Applications/freesurfer_v7.1.0/bin/segmentHA_T1.sh 1002310 > > #-------------------------------------------- > #@# Hippocampal Subfields processing (T1) left Tue 8 Jun 2021 15:25:15 AEST > ------------------------------------------ > Setting up environment variables > --- > DYLD_LIBRARY_PATH is > .:/Applications/freesurfer_v7.1.0/MCRv84//runtime/maci64:/Applications/freesurfer_v7.1.0/MCRv84//bin/maci64:/Applications/freesurfer_v7.1.0/MCRv84//sys/os/maci64:/Applications/freesurfer_v7.1.0/lib/gcc/lib > /Applications/freesurfer_v7.1.0/bin/run_segmentSubjectT1_autoEstimateAlveusML.sh: > line 33: > /Applications/freesurfer_v7.1.0/bin/segmentSubjectT1_autoEstimateAlveusML.app/Contents/MacOS/segmentSubjectT1_autoEstimateAlveusML: > No such file or directory > Darwin selma.nnf.unimelb.edu.au 17.4.0 Darwin Kernel Version 17.4.0: Tue Dec > 19 10:52:05 PST 2017; root:xnu-4570.47.16~1/RELEASE_X86_64 x86_64 > > T1 hippocampal subfields exited with ERRORS at Tue 8 Jun 2021 15:25:16 AEST > > ..." > > > > > _______________________________________________ > 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 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 http://www.massgeneralbrigham.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. 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.
