sorry, I should have given you a new make_average_volume. you can get it from here
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/make_average_volume On 08/11/2014 07:52 AM, angela.fav...@unipd.it wrote: > Hi Doug, I am having a problem with the last step of building my own > symmetric atlas. I am using the make_average_surface you gave me and > adding the --lh flag in the first two iteration. > However in the third iteration the command 'make_average_subject' did not > recognize neither the --hemi lh flag (indicated in the wiki guide) neither > the --lh flag (you suggested to add in the first two iterations) > > the error message was immediate in the first case: > ERROR: Flag --hemi unrecognized. > > and after two hours in the second... > ERROR: Flag --lh unrecognized. > --out myatlas.i3 --surf-reg myatlas.i2.sphere.reg --subjects subj001 > subj002 .... --xhemi --lh > ERROR: make_average_volume > > Do you think I need a 'special' make_average_volume? or I need to use the > 'old' 'make_average_surface'? > > the log of make_average_surface in the script folder of my atlas.i3 > indicates no error... (attached) > > thank you for any help!! > > Angela > > > > > >> when you run make_average_subject, you will still need the --lh >> doug >> >> On 07/29/2014 06:07 PM, angela.fav...@unipd.it wrote: >>> ftp >>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/make_average_surface >>> Connected to surfer.nmr.mgh.harvard.edu. >>> 220-This is the Martinos Center Anonymous FTP service. Use of this site >>> 220-shows implicit consent to our Acceptable Use Policy outlined at >>> 220-http://www.nmr.mgh.harvard.edu/martinos/userInfo/computer/nmr-aup.php >>> 220- >>> 220-OPERATIONAL NOTE: If, when doing a GET or PUT, you encounter either >>> 220- >>> 220-229 Entering Extended Passive Mode >>> 220- >>> 220- and nothing happens OR >>> 220- >>> 220-229 Entering Extended Passive Mode >>> 220-500 Bad EPRT protocol. >>> 220- >>> 220- try issuing the EPSV command prior to GET or PUT. >>> 220- >>> 220 >>> 331 Please specify the password. >>> 230 Login successful. >>> Remote system type is UNIX. >>> Using binary mode to transfer files. >>> 200 Switching to Binary mode. >>> 250 Directory successfully changed. >>> 250 Directory successfully changed. >>> 250 Directory successfully changed. >>> 250 Directory successfully changed. >>> local: make_average_surface remote: make_average_surface >>> 229 Entering Extended Passive Mode (|||37856|). >>> 150 Opening BINARY mode data connection for make_average_surface (19641 >>> bytes). >>> 100% |***********************************| 19641 95.79 KiB/s >>> 00:00 ETA >>> 226 Transfer complete. >>> 19641 bytes received in 00:00 (54.68 KiB/s) >>> 221 Goodbye. >>> [host-002:~/Desktop/risonanze/studyfree] angelafavaro% cp >>> make_average_surface $FREESURFER_HOME/bin/make_average_surface >>> cp: /Applications/freesurfer/bin/make_average_surface: Permission denied >>> [host-002:~/Desktop/risonanze/studyfree] angelafavaro% sudo cp >>> make_average_surface $FREESURFER_HOME/bin/make_average_surface >>> Password: >>> [host-002:~/Desktop/risonanze/studyfree] angelafavaro% >>> make_average_subject --out myatlas.i1 --surf-reg >>> fsaverage_sym.sphere.reg >>> --subjects subj001 subj002 subj003 subj004 subj005 --xhemi --no-vol >>> --template-only >>> make_average_surface --out myatlas.i1 --surf-reg >>> fsaverage_sym.sphere.reg >>> --subjects subj001 subj002 subj003 subj004 subj005 --xhemi --no-vol >>> --template-only >>> >>> /Applications/freesurfer/bin/make_average_surface >>> --out myatlas.i1 --surf-reg fsaverage_sym.sphere.reg --subjects subj001 >>> subj002 subj003 subj004 subj005 --xhemi --no-vol --template-only >>> >>> $Id: make_average_surface,v 1.53.2.1 2011/05/25 20:53:44 greve Exp $ >>> Mar 29 Lug 2014 23:57:25 CEST >>> /Users/angelafavaro/Desktop/risonanze/studyfree >>> setenv SUBJECTS_DIR /Users/angelafavaro/Desktop/risonanze/studyfree >>> output ddir is /Users/angelafavaro/Desktop/risonanze/studyfree >>> uid=501(angelafavaro) gid=20(staff) >>> groups=20(staff),204(_developer),100(_lpoperator),98(_lpadmin),81(_appserveradm),80(admin),79(_appserverusr),61(localaccounts),12(everyone),402(com.apple.sharepoint.group.1),401(com.apple.access_screensharing) >>> ==================== >>> make_average_surface >>> ==================== >>> Mar 29 Lug 2014 23:57:27 CEST >>> /Users/angelafavaro/Desktop/risonanze/studyfree >>> /Applications/freesurfer/bin/make_average_surface >>> --out myatlas.i1 --surf-reg fsaverage_sym.sphere.reg --subjects subj001 >>> subj002 subj003 subj004 subj005 --xhemi --no-vol --template-only >>> input subjects: subj001 subj002 subj003 subj004 subj005 >>> output subject: myatlas.i1 >>> mri_add_xform_to_header -c auto >>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1/mri/mni305.cor.mgz >>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1/mri/mni305.cor.mgz >>> INFO: extension is mgz >>> >>> >>> #@# Making lh registration template --------- >>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1 >>> mris_make_template -norot -annot aparc lh fsaverage_sym.sphere.reg >>> subj001 >>> subj001/xhemi subj002 subj002/xhemi subj003 subj003/xhemi subj004 >>> subj004/xhemi subj005 subj005/xhemi lh.reg.template.tif >>> not aligning hemispheres before averaging. >>> zeroing medial wall in aparc >>> creating new parameterization... >>> >>> processing subject subj001 (1 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.fsaverage_sym.sphere.reg... >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.inflated.H... >>> curvature mean = -0.028, std = 0.969 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.smoothwm... >>> >>> processing subject subj001/xhemi (2 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.003, std = 0.586 >>> curvature mean = -0.082, std = 0.795 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.inflated.H... >>> curvature mean = -0.026, std = 1.007 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.smoothwm... >>> >>> processing subject subj002 (3 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.003, std = 0.593 >>> curvature mean = -0.071, std = 1.122 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.inflated.H... >>> curvature mean = -0.025, std = 0.999 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.smoothwm... >>> >>> processing subject subj002/xhemi (4 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.002, std = 0.597 >>> curvature mean = -0.059, std = 1.231 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.inflated.H... >>> curvature mean = -0.032, std = 0.973 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.smoothwm... >>> >>> processing subject subj003 (5 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.003, std = 0.603 >>> curvature mean = -0.062, std = 0.880 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.inflated.H... >>> curvature mean = -0.035, std = 0.995 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.smoothwm... >>> >>> processing subject subj003/xhemi (6 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.000, std = 0.572 >>> curvature mean = -0.070, std = 2.235 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.inflated.H... >>> curvature mean = -0.039, std = 0.991 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.smoothwm... >>> >>> processing subject subj004 (7 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.000, std = 0.586 >>> curvature mean = -0.097, std = 4.940 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.inflated.H... >>> curvature mean = -0.028, std = 1.002 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.smoothwm... >>> >>> processing subject subj004/xhemi (8 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.002, std = 0.603 >>> curvature mean = -0.069, std = 1.134 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.inflated.H... >>> curvature mean = -0.025, std = 1.004 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.smoothwm... >>> >>> processing subject subj005 (9 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.003, std = 0.622 >>> curvature mean = -0.067, std = 0.915 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.inflated.H... >>> curvature mean = -0.038, std = 0.967 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.smoothwm... >>> >>> processing subject subj005/xhemi (10 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>> curvature mean = 0.002, std = 0.591 >>> curvature mean = -0.078, std = 0.997 >>> reading colortable from annotation file... >>> colortable with 36 entries read (originally >>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>> ripping medial wall... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.inflated.H... >>> curvature mean = -0.030, std = 0.984 >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.sulc... >>> computing parameterization for surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.smoothwm... >>> writing updated template with 10 subjects to lh.reg.template.tif... >>> curvature mean = 0.003, std = 0.598 >>> curvature mean = -0.080, std = 0.911 >>> >>> >>> #@# Making rh registration template --------- >>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1 >>> mris_make_template -norot -annot aparc rh fsaverage_sym.sphere.reg >>> subj001 >>> subj001/xhemi subj002 subj002/xhemi subj003 subj003/xhemi subj004 >>> subj004/xhemi subj005 subj005/xhemi rh.reg.template.tif >>> not aligning hemispheres before averaging. >>> zeroing medial wall in aparc >>> creating new parameterization... >>> >>> processing subject subj001 (1 of 10) >>> reading spherical surface >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg... >>> MRISread(/Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg): >>> could not open file >>> No such file or directory >>> mris_make_template: could not read surface file >>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg >>> No such file or directory >>> ERROR: make_average_surface >>> >>>> can you send the full terminal output >>>> On 07/29/2014 06:00 PM, angela.fav...@unipd.it wrote: >>>>> Hi Doug, >>>>> unfortunately the same error message appear... it looks for >>>>> rh.fsaverage_sym.sphere.reg >>>>> >>>>> .... >>>>> #@# Making rh registration template --------- >>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1 >>>>> mris_make_template -norot -annot aparc rh fsaverage_sym.sphere.reg >>>>> subj001 >>>>> subj001/xhemi subj002 subj002/xhemi subj003 subj003/xhemi subj004 >>>>> subj004/xhemi subj005 subj005/xhemi rh.reg.template.tif >>>>> not aligning hemispheres before averaging. >>>>> zeroing medial wall in aparc >>>>> creating new parameterization... >>>>> >>>>> processing subject subj001 (1 of 10) >>>>> reading spherical surface >>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg... >>>>> MRISread(/Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg): >>>>> could not open file >>>>> No such file or directory >>>>> mris_make_template: could not read surface file >>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg >>>>> No such file or directory >>>>> ERROR: make_average_surface >>>>> >>>>> >>>>> >>>>> >>>>>> Copy this file into $FREESURFER_HOME/bin (make a backup of the >>>>>> existing >>>>>> one) >>>>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/make_average_surface >>>>>> >>>>>> let me know if that works >>>>>> doug >>>>>> >>>>>> On 07/29/2014 05:37 PM, angela.fav...@unipd.it wrote: >>>>>>> I am using 5.3 >>>>>>> >>>>>>> make_average_subject --out myatlas.i1 --surf-reg >>>>>>> fsaverage_sym.sphere.reg >>>>>>> --subjects subj001 subj002 subj003 subj004 subj005 --xhemi --no-vol >>>>>>> --template-only --lh >>>>>>> make_average_surface --out myatlas.i1 --surf-reg >>>>>>> fsaverage_sym.sphere.reg >>>>>>> --subjects subj001 subj002 subj003 subj004 subj005 --xhemi --no-vol >>>>>>> --template-only --lh >>>>>>> ERROR: Flag --lh unrecognized. >>>>>>> --out myatlas.i1 --surf-reg fsaverage_sym.sphere.reg --subjects >>>>>>> subj001 >>>>>>> subj002 subj003 subj004 subj005 --xhemi --no-vol --template-only >>>>>>> --lh >>>>>>> ERROR: make_average_surface >>>>>>> >>>>>>> >>>>>>> >>>>>>> >>>>>>>> Is that all it prints out? What version of FS are you using? >>>>>>>> >>>>>>>> >>>>>>>> On 07/29/2014 05:26 PM, angela.fav...@unipd.it wrote: >>>>>>>>> ERROR: Flag --lh unrecognized. >>>>>>>>> >>>>>>>>>> Try adding --lh to the make_average_subject command line. Let me >>>>>>>>>> know >>>>>>>>>> if >>>>>>>>>> that works and I'll change the docs >>>>>>>>>> doug >>>>>>>>>> >>>>>>>>>> >>>>>>>>>> On 07/29/2014 05:13 PM, angela.fav...@unipd.it wrote: >>>>>>>>>>> Hi Doug, this the command and output (here with only five >>>>>>>>>>> subjects). >>>>>>>>>>> thank you! >>>>>>>>>>> >>>>>>>>>>> make_average_subject --out myatlas.i1 --surf-reg >>>>>>>>>>> fsaverage_sym.sphere.reg >>>>>>>>>>> --subjects subj001 subj002 subj003 subj004 subj005 --xhemi >>>>>>>>>>> --no-vol >>>>>>>>>>> --template-only >>>>>>>>>>> make_average_surface --out myatlas.i1 --surf-reg >>>>>>>>>>> fsaverage_sym.sphere.reg >>>>>>>>>>> --subjects subj001 subj002 subj003 subj004 subj005 --xhemi >>>>>>>>>>> --no-vol >>>>>>>>>>> --template-only >>>>>>>>>>> >>>>>>>>>>> /Applications/freesurfer/bin/make_average_surface >>>>>>>>>>> --out myatlas.i1 --surf-reg fsaverage_sym.sphere.reg --subjects >>>>>>>>>>> subj001 >>>>>>>>>>> subj002 subj003 subj004 subj005 --xhemi --no-vol --template-only >>>>>>>>>>> >>>>>>>>>>> $Id: make_average_surface,v 1.53.2.1 2011/05/25 20:53:44 greve >>>>>>>>>>> Exp >>>>>>>>>>> $ >>>>>>>>>>> Mar 29 Lug 2014 23:09:30 CEST >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree >>>>>>>>>>> setenv SUBJECTS_DIR >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree >>>>>>>>>>> output ddir is /Users/angelafavaro/Desktop/risonanze/studyfree >>>>>>>>>>> uid=501(angelafavaro) gid=20(staff) >>>>>>>>>>> groups=20(staff),204(_developer),100(_lpoperator),98(_lpadmin),81(_appserveradm),80(admin),79(_appserverusr),61(localaccounts),12(everyone),402(com.apple.sharepoint.group.1),401(com.apple.access_screensharing) >>>>>>>>>>> ==================== >>>>>>>>>>> make_average_surface >>>>>>>>>>> ==================== >>>>>>>>>>> Mar 29 Lug 2014 23:09:31 CEST >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree >>>>>>>>>>> /Applications/freesurfer/bin/make_average_surface >>>>>>>>>>> --out myatlas.i1 --surf-reg fsaverage_sym.sphere.reg --subjects >>>>>>>>>>> subj001 >>>>>>>>>>> subj002 subj003 subj004 subj005 --xhemi --no-vol --template-only >>>>>>>>>>> input subjects: subj001 subj002 subj003 subj004 subj005 >>>>>>>>>>> output subject: myatlas.i1 >>>>>>>>>>> mri_add_xform_to_header -c auto >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1/mri/mni305.cor.mgz >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1/mri/mni305.cor.mgz >>>>>>>>>>> INFO: extension is mgz >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> #@# Making lh registration template --------- >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1 >>>>>>>>>>> mris_make_template -norot -annot aparc lh >>>>>>>>>>> fsaverage_sym.sphere.reg >>>>>>>>>>> subj001 >>>>>>>>>>> subj001/xhemi subj002 subj002/xhemi subj003 subj003/xhemi >>>>>>>>>>> subj004 >>>>>>>>>>> subj004/xhemi subj005 subj005/xhemi lh.reg.template.tif >>>>>>>>>>> not aligning hemispheres before averaging. >>>>>>>>>>> zeroing medial wall in aparc >>>>>>>>>>> creating new parameterization... >>>>>>>>>>> >>>>>>>>>>> processing subject subj001 (1 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.028, std = 0.969 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj001/xhemi (2 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.003, std = 0.586 >>>>>>>>>>> curvature mean = -0.082, std = 0.795 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.026, std = 1.007 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/xhemi/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj002 (3 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.003, std = 0.593 >>>>>>>>>>> curvature mean = -0.071, std = 1.122 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.025, std = 0.999 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj002/xhemi (4 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.002, std = 0.597 >>>>>>>>>>> curvature mean = -0.059, std = 1.231 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.032, std = 0.973 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj002/xhemi/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj003 (5 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.003, std = 0.603 >>>>>>>>>>> curvature mean = -0.062, std = 0.880 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.035, std = 0.995 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj003/xhemi (6 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.000, std = 0.572 >>>>>>>>>>> curvature mean = -0.070, std = 2.235 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.039, std = 0.991 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj003/xhemi/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj004 (7 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.000, std = 0.586 >>>>>>>>>>> curvature mean = -0.097, std = 4.940 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.028, std = 1.002 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj004/xhemi (8 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.002, std = 0.603 >>>>>>>>>>> curvature mean = -0.069, std = 1.134 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.025, std = 1.004 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj004/xhemi/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj005 (9 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.003, std = 0.622 >>>>>>>>>>> curvature mean = -0.067, std = 0.915 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.038, std = 0.967 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/surf/lh.smoothwm... >>>>>>>>>>> >>>>>>>>>>> processing subject subj005/xhemi (10 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.fsaverage_sym.sphere.reg... >>>>>>>>>>> curvature mean = 0.002, std = 0.591 >>>>>>>>>>> curvature mean = -0.078, std = 0.997 >>>>>>>>>>> reading colortable from annotation file... >>>>>>>>>>> colortable with 36 entries read (originally >>>>>>>>>>> /autofs/space/terrier_001/users/nicks/freesurfer/average/colortable_desikan_killiany.txt) >>>>>>>>>>> ripping medial wall... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.inflated.H... >>>>>>>>>>> curvature mean = -0.030, std = 0.984 >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.sulc... >>>>>>>>>>> computing parameterization for surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj005/xhemi/surf/lh.smoothwm... >>>>>>>>>>> writing updated template with 10 subjects to >>>>>>>>>>> lh.reg.template.tif... >>>>>>>>>>> curvature mean = 0.003, std = 0.598 >>>>>>>>>>> curvature mean = -0.080, std = 0.911 >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> #@# Making rh registration template --------- >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/myatlas.i1 >>>>>>>>>>> mris_make_template -norot -annot aparc rh >>>>>>>>>>> fsaverage_sym.sphere.reg >>>>>>>>>>> subj001 >>>>>>>>>>> subj001/xhemi subj002 subj002/xhemi subj003 subj003/xhemi >>>>>>>>>>> subj004 >>>>>>>>>>> subj004/xhemi subj005 subj005/xhemi rh.reg.template.tif >>>>>>>>>>> not aligning hemispheres before averaging. >>>>>>>>>>> zeroing medial wall in aparc >>>>>>>>>>> creating new parameterization... >>>>>>>>>>> >>>>>>>>>>> processing subject subj001 (1 of 10) >>>>>>>>>>> reading spherical surface >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg... >>>>>>>>>>> MRISread(/Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg): >>>>>>>>>>> could not open file >>>>>>>>>>> No such file or directory >>>>>>>>>>> mris_make_template: could not read surface file >>>>>>>>>>> /Users/angelafavaro/Desktop/risonanze/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg >>>>>>>>>>> No such file or directory >>>>>>>>>>> ERROR: make_average_surface >>>>>>>>>>> [host-002:~/Desktop/ >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>>>> What is the command line that is failing and what is the full >>>>>>>>>>>> terminal >>>>>>>>>>>> output? >>>>>>>>>>>> doug >>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>>>>> On 07/29/2014 05:55 AM, angela.fav...@unipd.it wrote: >>>>>>>>>>>>> Hi all, >>>>>>>>>>>>> I am now working with the 5.3 version and performing >>>>>>>>>>>>> interhemispheric >>>>>>>>>>>>> registration (building my own atlas) >>>>>>>>>>>>> >>>>>>>>>>>>> after running for all subjects: >>>>>>>>>>>>> xhemireg --s subj001.... >>>>>>>>>>>>> surfreg --s subj001 --t fsaverage_sym --lh >>>>>>>>>>>>> surfreg --s subj001 --t fsaverage_sym --xhemi --lh >>>>>>>>>>>>> >>>>>>>>>>>>> I have tried first iteration, but the following error occurs: >>>>>>>>>>>>> >>>>>>>>>>>>> processing subject subj001 (1 of 194) >>>>>>>>>>>>> reading spherical surface >>>>>>>>>>>>> /Users/angelafavaro/Desktop/Angela/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg... >>>>>>>>>>>>> MRISread(/Users/angelafavaro/Desktop/Angela/studyfree/subj001/surf/rh.fsaverage_sym.sphere.reg): >>>>>>>>>>>>> could not open file >>>>>>>>>>>>> No such file or directory >>>>>>>>>>>>> mris_make_template: could not read surface file >>>>>>>>>>>>> /Users/angelafavaro/Desktop/Angela/studyfree/subj002/surf/rh.fsaverage_sym.sphere.reg >>>>>>>>>>>>> No such file or directory >>>>>>>>>>>>> ERROR: make_average_surface >>>>>>>>>>>>> >>>>>>>>>>>>> how can I get the rh.fsaverage_sym.sphere.reg file? >>>>>>>>>>>>> >>>>>>>>>>>>> thank you! >>>>>>>>>>>>> >>>>>>>>>>>>> Angela >>>>>>>>>>>>> >>>>>>>>>>>>> >>>>>>>>>>>>> >>>>>>>>>>>>> >>>>>>>>>>>>> >>>>>>>>>>>>>> Hi Matt >>>>>>>>>>>>>> >>>>>>>>>>>>>> certainly something is wrong, but it's hard to tell why from >>>>>>>>>>>>>> the >>>>>>>>>>>>>> single >>>>>>>>>>>>>> slice. You have big topological defects that are being fixed >>>>>>>>>>>>>> incorrectly. >>>>>>>>>>>>>> Can you upload the subject and we will take a look? >>>>>>>>>>>>>> cheers >>>>>>>>>>>>>> Bruce >>>>>>>>>>>>>> On Mon, 28 Jul 2014, >>>>>>>>>>>>>> Walton, Matt wrote: >>>>>>>>>>>>>> >>>>>>>>>>>>>>> Hello Freesurfer team, >>>>>>>>>>>>>>> I've used freesurfer to segment (recon-all) approximately >>>>>>>>>>>>>>> 30 >>>>>>>>>>>>>>> different >>>>>>>>>>>>>>> subjects from a study. I've noticed that a large number of >>>>>>>>>>>>>>> these >>>>>>>>>>>>>>> subjects >>>>>>>>>>>>>>> have a misclassification of the white and pial boundaries in >>>>>>>>>>>>>>> the >>>>>>>>>>>>>>> occipital >>>>>>>>>>>>>>> lobe (such that grey matter is being classified as white >>>>>>>>>>>>>>> matter). >>>>>>>>>>>>>>> I >>>>>>>>>>>>>>> believe >>>>>>>>>>>>>>> this problem is originating from my scanner and original >>>>>>>>>>>>>>> data. >>>>>>>>>>>>>>> I'm >>>>>>>>>>>>>>> acquiring >>>>>>>>>>>>>>> a T1W BRAVO sequence on a GE Discovery 750w 3T scanner, >>>>>>>>>>>>>>> using >>>>>>>>>>>>>>> a >>>>>>>>>>>>>>> 32 >>>>>>>>>>>>>>> channel >>>>>>>>>>>>>>> phased array head coil. For many subjects, this acquistion >>>>>>>>>>>>>>> gives >>>>>>>>>>>>>>> intensity >>>>>>>>>>>>>>> inhomogeneity in the occipital lobe. I've begun using a GE >>>>>>>>>>>>>>> based >>>>>>>>>>>>>>> correction >>>>>>>>>>>>>>> technique (PURE) on the images, and it appears to improve >>>>>>>>>>>>>>> the >>>>>>>>>>>>>>> intensity >>>>>>>>>>>>>>> in >>>>>>>>>>>>>>> the occipital lobe, but Freesurfer is still frequently >>>>>>>>>>>>>>> misclassifying. >>>>>>>>>>>>>>> >>>>>>>>>>>>>>> I'm wondering what would be the best way to edit the data. >>>>>>>>>>>>>>> I've >>>>>>>>>>>>>>> often >>>>>>>>>>>>>>> tried >>>>>>>>>>>>>>> to edit the wm.vol, but this doesn't seem to fix anything. >>>>>>>>>>>>>>> For >>>>>>>>>>>>>>> the >>>>>>>>>>>>>>> most >>>>>>>>>>>>>>> part, the wm.vol is correct to begin with, but the wm >>>>>>>>>>>>>>> cutting >>>>>>>>>>>>>>> line >>>>>>>>>>>>>>> isn't >>>>>>>>>>>>>>> segmenting with the wm.vol. I've also tried to add control >>>>>>>>>>>>>>> points >>>>>>>>>>>>>>> but >>>>>>>>>>>>>>> this >>>>>>>>>>>>>>> doesn't seem to improve anything either. >>>>>>>>>>>>>>> >>>>>>>>>>>>>>> I've attached an image which I hope will further explain my >>>>>>>>>>>>>>> problems. >>>>>>>>>>>>>>> >>>>>>>>>>>>>>> Thanks for any help >>>>>>>>>>>>>>> >>>>>>>>>>>>>>> _______________________________________________ >>>>>>>>>>>>>> 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 >>>>>>>>>>>>> >>>>>>>>>>>>> >>>>>>>>>>>> -- >>>>>>>>>>>> Douglas N. Greve, Ph.D. >>>>>>>>>>>> MGH-NMR Center >>>>>>>>>>>> gr...@nmr.mgh.harvard.edu >>>>>>>>>>>> Phone Number: 617-724-2358 >>>>>>>>>>>> Fax: 617-726-7422 >>>>>>>>>>>> >>>>>>>>>>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>>>>>>>>>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>>>>>>>>>>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>>>>>>>>>> Outgoing: >>>>>>>>>>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>>>>>>>>>>> >>>>>>>>>>>> _______________________________________________ >>>>>>>>>>>> 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 >>>>>>>>>>> >>>>>>>>>>> >>>>>>>>>> -- >>>>>>>>>> Douglas N. Greve, Ph.D. >>>>>>>>>> MGH-NMR Center >>>>>>>>>> gr...@nmr.mgh.harvard.edu >>>>>>>>>> Phone Number: 617-724-2358 >>>>>>>>>> Fax: 617-726-7422 >>>>>>>>>> >>>>>>>>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>>>>>>>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>>>>>>>>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>>>>>>>> Outgoing: >>>>>>>>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>>>>>>>>> >>>>>>>>>> _______________________________________________ >>>>>>>>>> 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 >>>>>>>>> >>>>>>>>> >>>>>>>> -- >>>>>>>> Douglas N. Greve, Ph.D. >>>>>>>> MGH-NMR Center >>>>>>>> gr...@nmr.mgh.harvard.edu >>>>>>>> Phone Number: 617-724-2358 >>>>>>>> Fax: 617-726-7422 >>>>>>>> >>>>>>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>>>>>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>>>>>>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>>>>>> Outgoing: >>>>>>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>>>>>>> >>>>>>>> _______________________________________________ >>>>>>>> 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 >>>>>>> >>>>>>> >>>>>> -- >>>>>> Douglas N. Greve, Ph.D. >>>>>> MGH-NMR Center >>>>>> gr...@nmr.mgh.harvard.edu >>>>>> Phone Number: 617-724-2358 >>>>>> Fax: 617-726-7422 >>>>>> >>>>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>>>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>>>>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>>>> Outgoing: >>>>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>>>>> >>>>>> _______________________________________________ >>>>>> 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 >>>>> >>>>> >>>> -- >>>> Douglas N. Greve, Ph.D. >>>> MGH-NMR Center >>>> gr...@nmr.mgh.harvard.edu >>>> Phone Number: 617-724-2358 >>>> Fax: 617-726-7422 >>>> >>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>> Outgoing: >>>> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>>> >>>> _______________________________________________ >>>> 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 >>> >>> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> >> _______________________________________________ >> 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 -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
