Hi,

this means that the .orig surface was recreated and now doesn't match the other ones (and that the curvature files were generated from the orig). Check to see how many vertices/faces each of the surfaces have using mris_euler_number. They should all be the same (and the Euler numbers should be 2).

Bruce

On Thu, 24 Jun 2004 nima@nmr.mgh.harvard.edu wrote:

hi after "making final surfaces" i enountered something strange! lh: "inflated" brain and "smoothwm" has no curvature but other surfaces like orig va qshere are normal rh: inflated brain has the curvature but other surfaces are normal logfiles are shown below. what is the prob?!?!? any idea? cheers nimA

FOR LEFT HEMISPHERE "INFLATED":

" env tksurferinterface=csurf patchname= /space/lyon/1/home/inverse/freesurfer_alpha/bin/Linux/tksurfer -sleep_s2 lh inflated -tcl /tmp/TmpTclSurf.12210 MRISreadVertexPositions(/space/humpback/2/users/nima/csurf/sleep_s2/surf/lhorig): surfaces differ.

No such file or directory MRISreadOriginalProperties: could not read surface file /space/humpback/2/users/nima/csurf/sleep_s2/surf/lh.orig No such file or directory Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkm_wrappers.tcl Using libtclfsgdf.so Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkUtils.tcl Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkUtils.tcl Successfully parsed tksurfer.tcl MRISreadNewCurvature: incompatible vertex number in file /space/humpback/2/users/nima/csurf/sleep_s2/surf/lh.curv surfer: current subjects dir: /space/humpback/2/users/nima/csurf surfer: in subjects "scripts" dir surfer: session root data dir ($session) set to: surfer: /autofs/space/humpback_002/users/nima/csurf/sleep_s2 surfer: /space/humpback/2/users/nima/csurf/sleep_s2/mri/T1/COR-.info surfer: vertices=125362, faces=250720 surfer: using interface /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tksurfer.new.tcl Read /space/lyon/1/home/inverse/freesurfer_alpha/surface_labels.txt, found 95 structures tksurfer: run tcl script: /tmp/TmpTclSurf.12210 surfer: single buffered window surfer: curvature read: min=0.000000 max=0.000000 "

ps. point is that lh.orig exists! so i do not know what it says that it can not find it!

FOR LEFT HEMISPHERE "INFLATED":

"env tksurferinterface=csurf patchname= /space/lyon/1/home/inverse/freesurfer_alpha/bin/Linux/tksurfer -sleep_s2 lh smoothwm -tcl /tmp/TmpTclSurf.12210 MRISreadVertexPositions(/space/humpback/2/users/nima/csurf/sleep_s2/surf/lhorig): surfaces differ.

No such file or directory MRISreadOriginalProperties: could not read surface file /space/humpback/2/users/nima/csurf/sleep_s2/surf/lh.orig No such file or directory Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkm_wrappers.tcl Using libtclfsgdf.so Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkUtils.tcl Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkUtils.tcl Successfully parsed tksurfer.tcl MRISreadNewCurvature: incompatible vertex number in file /space/humpback/2/users/nima/csurf/sleep_s2/surf/lh.curv surfer: current subjects dir: /space/humpback/2/users/nima/csurf surfer: in subjects "scripts" dir surfer: session root data dir ($session) set to: surfer: /autofs/space/humpback_002/users/nima/csurf/sleep_s2 surfer: /space/humpback/2/users/nima/csurf/sleep_s2/mri/T1/COR-.info surfer: vertices=125362, faces=250720 surfer: using interface /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tksurfer.new.tcl Read /space/lyon/1/home/inverse/freesurfer_alpha/surface_labels.txt, found 95 structures tksurfer: run tcl script: /tmp/TmpTclSurf.12210 surfer: single buffered window surfer: curvature read: min=0.000000 max=0.000000"

ps. point is that lh.orig exists! so i do not know what it says that it can not find it!

FOR RIGHT HEMISPHERE "INFLATED SURFACE": ha/bin/Linux/tksurfer -sleep_s2 rh qsphere -tcl /tmp/TmpTclSurf.12210 mrisReadTriangleFile(/space/humpback/2/users/nima/csurf/sleep_s2/surf/rh.orig): surface doesn't match /space/humpback/2/users/nima/csurf/sleep_s2/surf/rh.qsphere

No such file or directory mrisReadTriangleFile failed.

No such file or directory MRISreadOriginalProperties: could not read surface file /space/humpback/2/users/nima/csurf/sleep_s2/surf/rh.orig No such file or directory Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkm_wrappers.tcl Using libtclfsgdf.so Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkUtils.tcl Reading /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tkUtils.tcl Successfully parsed tksurfer.tcl MRISreadNewCurvature: incompatible vertex number in file /space/humpback/2/users/nima/csurf/sleep_s2/surf/rh.curv surfer: current subjects dir: /space/humpback/2/users/nima/csurf surfer: in subjects "scripts" dir surfer: session root data dir ($session) set to: surfer: /autofs/space/humpback_002/users/nima/csurf/sleep_s2 surfer: /space/humpback/2/users/nima/csurf/sleep_s2/mri/T1/COR-.info surfer: vertices=127844, faces=255756 surfer: using interface /space/lyon/1/home/inverse/freesurfer_alpha/lib/tcl/tksurfer.new.tcl Read /space/lyon/1/home/inverse/freesurfer_alpha/surface_labels.txt, found 95 structures tksurfer: run tcl script: /tmp/TmpTclSurf.12210 surfer: single buffered window surfer: curvature read: min=0.000000 max=0.000000"

ps. rh.orig and rh.qsphere exist in surf directory!!!!

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