Re: [Freesurfer] New hippocampal subfields
Hi Eugeno, I am hitting the same error as described in this post, but using a Dev El Capitan version. Here is my error output: [arkadiysnewimac:Freesurfer/Freesurfer_Files_with_Freesurfer_Masks/Post_Manual_Edits] arkadiy% segmentHA_T1.sh SILVA053 # #@# Hippocampal Subfields processing (T1) left Thu Jan 25 17:26:21 EST 2018 -- Setting up environment variables --- DYLD_LIBRARY_PATH is .:/Applications/freesurfer_Dev_El_Capitan/MCRv84//runtime/maci64:/Applications/freesurfer_Dev_El_Capitan/MCRv84//bin/maci64:/Applications/freesurfer_Dev_El_Capitan/MCRv84//sys/os/maci64: Invalid MEX-file '/tmp/MCR_2426959059/.mcrCache8.4/segmen0/autofs/space/panamint_005/users/iglesias/software/freesurfer.GEMS2.MAC/bin/kvlGEMSMatlab.mexmaci64': dlopen(/tmp/MCR_2426959059/.mcrCache8.4/segmen0/autofs/space/panamint_005/users/iglesias/software/freesurfer.GEMS2.MAC/bin/kvlGEMSMatlab.mexmaci64, 6): Symbol not found: __ZNKSt5ctypeIcE13_M_widen_initEv Referenced from: /tmp/MCR_2426959059/.mcrCache8.4/segmen0/autofs/space/panamint_005/users/iglesias/software/freesurfer.GEMS2.MAC/bin/kvlGEMSMatlab.mexmaci64 Expected in: /usr/lib/libstdc++.6.0.9.dylib in /tmp/MCR_2426959059/.mcrCache8.4/segmen0/autofs/space/panamint_005/users/iglesias/software/freesurfer.GEMS2.MAC/bin/kvlGEMSMatlab.mexmaci64 Error in kvlClear (line 11) Error in segmentSubjectT1_autoEstimateAlveusML (line 115) MATLAB:invalidMEXFile Darwin arkadiysnewimac.mclean.harvard.edu 17.3.0 Darwin Kernel Version 17.3.0: Thu Nov 9 18:09:22 PST 2017; root:xnu-4570.31.3~1/RELEASE_X86_64 x86_64 T1 hippocampal subfields exited with ERRORS at Thu Jan 25 17:26:27 EST 2018 Wondering if you might have resolved this already? Thank you for all of your help, Arkadiy -- Arkadiy L. Maksimovskiy, Ph.D. Postdoctoral Research Fellow McLean Imaging Center, McLean Hospital Department of Psychiatry, Harvard Medical School ___ 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.
Re: [Freesurfer] New hippocampal subfields
It need to run some additional tests, but I'm almost sure it is solved. The fixed code will be in the development version very soon, with some other updates. Stay tuned! Cheers, Eugenio Juan Eugenio Iglesias Translational Imaging Group University College London http://www.jeiglesias.com http://cmictig.cs.ucl.ac.uk/ From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Jin Kyu Gahm <jinkyu.g...@loni.usc.edu> Sent: Tuesday, July 26, 2016 10:17:08 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] New hippocampal subfields Hello, I was trying the new segmentation module of hippocampal subfields, but I also encountered the same errors as Pierre reported a week ago: -- Invalid MEX-file '/tmp/MCR_1031368111/.mcrCache8.0/segmen0/autofs/cluster/koen/koen/GEMS-Release/bin/kvlGEMSMatlab.mexa64': libkvlGEMSCommon.so: cannot open shared object file: No such file or directory Error in kvlClear (line 11) Error in segmentSubjectT1_autoEstimateAlveusML (line 133) -- Eugenio - I wonder if you already solved the problem. Thanks for your help! Best, Jin ___ 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 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] New hippocampal subfields
Hello, I was trying the new segmentation module of hippocampal subfields, but I also encountered the same errors as Pierre reported a week ago: -- Invalid MEX-file '/tmp/MCR_1031368111/.mcrCache8.0/segmen0/autofs/cluster/koen/koen/GEMS-Release/bin/kvlGEMSMatlab.mexa64': libkvlGEMSCommon.so: cannot open shared object file: No such file or directory Error in kvlClear (line 11) Error in segmentSubjectT1_autoEstimateAlveusML (line 133) -- Eugenio - I wonder if you already solved the problem. Thanks for your help! Best, Jin ___ 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.
