External Email - Use Caution Hi, E
Thanks for your reply, I used one core and its associated RAM from the server,(I guess is not very much) but I have solved it by assigning more RAM memory. Best, Wei On Fri, Apr 30, 2021 at 9:35 AM Iglesias Gonzalez, Juan E. < jiglesiasgonza...@mgh.harvard.edu> wrote: > Dear Wei, > > Sorry for missing your message (it happens sometimes…). > > The longitudinal subfield module is very RAM memory hungry. > > How much RAM memory do you have (not disk space, these are different > things). > > Cheers, > > /Eugenio > > > > > > > > > > > > > > Juan Eugenio Iglesias > > Senior research fellow > > CMIC (UCL), MGH (HMS) and CSAIL (MIT) > > http://secure-web.cisco.com/1tjk3OL0B6Drsa3xCXMNVuI8sfeKEW4_XP4tWvrd_ajd5F67eazolqhGpHBgeo1L5gH3VYBePfywpla8y2ELEjhHj1D_-3_bryJu2GGFeyDr4m-hTdINqzbyWpmow9_PjNYF_DqMZlL3XYdJBbhnPCzF1vNFprQS0wyIi3mkq--Hd5NeqhDQeCl6ARiRfGOVFCxYDP9144ghi_gvC_eFPX_NN0eEYiK4ddz8MNB3EFMEj7YGCYWJC3Zh9V7kKMIVVAwuETkeZx9JyiEy1lCxeXg/http%3A%2F%2Fwww.jeiglesias.com > > > > > > > > *From: *<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Wei Shao < > ws...@research.baycrest.org> > *Reply-To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Date: *Thursday, April 29, 2021 at 22:39 > *To: *Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > *Subject: *Re: [Freesurfer] Out of memory from longitudinal segmentation > of hippocampus > > > > * External Email - Use Caution * > > Hello, Dear Freesufer experts > > > > I just thought of sending a friendly reminder - > > > > I am wondering if you had the time to go over my question? > > > > Best regards, > > Wei > > > > On Sat, Apr 24, 2021 at 2:26 PM Wei Shao <ws...@research.baycrest.org> > wrote: > > Hello, Dear FreeSurfer expert. > > > > I was tried to use longitudinal segmentation of T1 scans for the > longitudinal analysis. but there is a problem > > > > making Unknown map to reduced label 13 > > Computing hyperparameters for estimation of Gaussian parameters > > Error using permute > > Out of memory. Type HELP MEMORY for your options. > > > > Error in myMRIread>myMRIread_aux (line 99) > > Error in myMRIread (line 63) > > Error in SegmentSubfieldsT1Longitudinal (line 904) > > > > MATLAB:nomem > > @#@FSTIME 2021:04:24:13:57:21 run_SegmentSubfieldsT1Longitudinal.sh N 17 > e 249.25 S 49.95 U 759.76 P 324% M 1532492 F 249 R 4682496 W 0 c 134624 w > 550491 I 3940880 O 1217536 L 1.24 1.04 1.58 > > @#@FSLOADPOST 2021:04:24:14:01:30 run_SegmentSubfieldsT1Longitudinal.sh N > 17 4.04 3.43 2.47 > > Linux gra-login1 3.10.0-1127.8.2.el7.x86_64 #1 SMP Tue May 12 16:57:42 UTC > 2020 x86_64 GNU/Linux > > > > longitudinal subfields exited with ERRORS at Sat Apr 24 14:01:31 EDT 2021 > > > > For more details, see the log file > /home/weishao/long_BAY12019/scripts/long-hippocampal-subfields-T1.log > > > > I have checked the space: > > > > Description Space # of > files > > /home (user weishao) 44G/53G > 147k/500k > > > > Could you tell me what I should do? Thanks > > > > Best, > > Cheer > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://secure-web.cisco.com/10s0rSGqrMXf8pbGw-apOZS8Sg6FOJ6-pc03S7idFntcgyXeYQQYiBkDhzKzXWmPxmNe6XdZll94CEpSzbmJUaaqXrYxNj85rgVkBVTvQkiXE2Mxn134omXkoYW9_r6Z2YZH6CyVPns5gnKRBZOMTCyYPnUPhxyBFFacyzPm1MvaBHhKNUQxizaT91VeFEPieAhMJpNozAtKoBb411NnjQarHj41mXuKKHfKJnxJ6hzbzpSViIJwWeknFAkpqVGHw16VFvz6kjvFprnS1GA-neg/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > 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://secure-web.cisco.com/1jDzOMD5Myk0I2qKSVVd8C-L7Y_Er3jFaTeA93UhgUM_reWbWCCYTm7K7OvZtBrXGwaKeehNZg23E814GYZuf47rf3wMR0aMjBIflRuhynQU_nw5Qx8e14QXaPi6wPlIXiXxEfwC5fSWK8fR6LhF8351Vl96nwjj0_JlK6DAruwvXkL905hSmcaeM_f6GsFeWLAjtS_57pkBhhDww15LC_DRSAjJdpC8Z9NsV7NUndlYZ1rla8iemcMJ-mtQAlPRHDmMsuXibsXuZcT1-WnKeiw/http%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline > . 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. >
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