yes, that's too old. Get a new version from our anonymous ftp site:
ftp surfer.nmr.mgh.harvard.edu Connected to surfer.nmr.mgh.harvard.edu. 220 surfer.nmr.mgh.harvard.edu FTP server (Version wu-2.6.1-16.7x.1) ready. Name (surfer.nmr.mgh.harvard.edu:fischl): anonymous 331 Guest login ok, send your complete e-mail address as password. Password: 230 Guest login ok, access restrictions apply. Remote system type is UNIX. Using binary mode to transfer files. ftp> cd /space/outgoing/fsdev 250 CWD command successful. ftp> bin 200 Type set to I. ftp> ls 227 Entering Passive Mode (132,183,202,158,183,89) 150 Opening ASCII mode data connection for directory listing. total 361608 -rw-rw-r-- 1 5499 160 67861974 May 4 12:46 dr.gca -rw-rw-r-- 1 5499 160 17775349 May 4 13:00 dr.tgz -rw-rw-r-- 1 5499 160 54990917 May 4 12:47 dr_one.gca drwxrwxrwx 2 5499 160 4096 May 18 08:02 for_brent -rwxrwxr-x 1 5499 160 2561036 May 18 14:15 mris_convert.Linux -rwxrwxr-x 1 5499 160 1639184 May 13 16:12 mris_smooth.IRIX -rwxrwxr-x 1 5499 160 2546764 May 13 16:12 mris_smooth.Linux -rwxrwxr-x 1 5499 160 2378232 May 13 16:12 mris_smooth.Solaris On Sat, 18 May 2002, Frederick Klauschen wrote: > Hi Bruce, > > I tried everything again and again, and the > area file is created after orig. But still the > command mris_convert produces the error: > > mris_convert -c area > /li2/freesurfer/freesurfer_alpha/subjects/t1xxl/surf/rh.orig > /li2/freesurfer/freesurfer_alpha/subjects/t1xxl/surf/rh.area.asc > MRISreadBinaryCurvature: incompatible vertex number in > file > /li2/freesurfer/freesurfer_alpha/subjects/t1xxl/surf/rh.area > > Is the "-c area" correct? Might the mris_convert > be too old, too? (It is from Feb 1 2001). > > Thanks, > Frederick > > > > > --- Bruce Fischl <[EMAIL PROTECTED]> wrote: > > Hi Frederick, > > > > I'm not sure what's wrong, as this works fine for > > me. Check the dates on > > your files, and make sure that the area file was > > created after the orig. If > > you are still having problems and can put your data > > somewhere we can look > > at it, we will. > > > > cheers, > > Bruce > > > > > -------------------------------------------------------- > > Bruce Fischl email: > > [EMAIL PROTECTED] > > Mass. General Hosp. NMR Center. > > tel:(617)-726-4897 > > Rm. 2328, Building 149, 13th Street > > fax:(617)-726-7422 > > Charlestown, MA 02129 USA > > > > > > > > > > On Tue, 14 May 2002, Frederick Klauschen wrote: > > > > > Hi Bruce, > > > > > > I downloaded the updated > > > mris_smooth.Linux > > > from the path you indicated below and I moved the > > file > > > to /freesurfer_alpha/bin/Linux/mris_smooth. > > > Then I restartet the CREATE_SURFACE process and > > got > > > a new ?h.area file. > > > Then I transformed to ascii again: > > > > > > mris_convert -c area > > > /freesurfer_alpha/subjects/t1normal/surf/lh.orig > > > > > /freesurfer_alpha/subjects/t1normal/surf/lh.area.asc > > > MRISreadBinaryCurvature: incompatible vertex > > number in > > > file > > > /li2/freesurfer/freesurfer_alpha/subjects/t1normal > > > /surf/lh.area > > > > > > A new lh.area.asc is output, the vertex number is > > the > > > same as before but the area values are all zero! > > > > > > Thanks, > > > Frederick > > > > > > > > > > > > --- Bruce Fischl <[EMAIL PROTECTED]> > > wrote: > > > > Hi Frederick, > > > > > > > > the thickness and area measures should be in mm > > and > > > > mm^2 respectively. I > > > > think you have an old version of mris_smooth > > that > > > > generates incorrect > > > > ?h.area files, which is why you are getting > > > > alternate zeros. I've put new > > > > versions on our ftp site: > > > > > > > > ftp surfer.nmr.mgh.harvard.edu > > > > Connected to surfer.nmr.mgh.harvard.edu. > > > > 220 surfer.nmr.mgh.harvard.edu FTP server > > (Version > > > > wu-2.6.1-16.7x.1) ready. > > > > Name (surfer.nmr.mgh.harvard.edu:fischl): > > anonymous > > > > 331 Guest login ok, send your complete e-mail > > > > address as password. > > > > Password: > > > > 230-The response 'fischl@nmr' is not valid > > > > 230-Next time please use your e-mail address as > > your > > > > password > > > > 230- for example: > > > > [EMAIL PROTECTED] > > > > 230 Guest login ok, access restrictions apply. > > > > Remote system type is UNIX. > > > > Using binary mode to transfer files. > > > > ftp> cd /space/outgoing/fsdev > > > > 250 CWD command successful. > > > > ftp> ls mris_smooth* > > > > 227 Entering Passive Mode > > (132,183,202,158,9,149) > > > > 150 Opening ASCII mode data connection for > > directory > > > > listing. > > > > -rwxrwxr-x 1 5499 160 1639184 May 13 > > > > 16:12 mris_smooth.IRIX > > > > -rwxrwxr-x 1 5499 160 2546764 May 13 > > > > 16:12 mris_smooth.Linux > > > > -rwxrwxr-x 1 5499 160 2378232 May 13 > > > > 16:12 mris_smooth.Solaris > > > > > > > > > > > > cheers, > > > > Bruce > > > > > > > > > > > > > > -------------------------------------------------------- > > > > Bruce Fischl email: > > > > [EMAIL PROTECTED] > > > > Mass. General Hosp. NMR Center. > > > > tel:(617)-726-4897 > > > > Rm. 2328, Building 149, 13th Street > > > > fax:(617)-726-7422 > > > > Charlestown, MA 02129 USA > > > > > > > > > > > > On Sun, 12 May 2002, Frederick Klauschen wrote: > > > > > > > > > Hi, > > > > > > > > > > I have done the conversion of the ?h.thickness > > and > > > > > ?h.area files to ascii format. > > > > > I have got an array of the size 163993x5. Each > > row > > > > > contains an index, three coordinates and > > another > > > > > value, which probably is the thickness/area. > > > > > Unfortunately, I was not able to find any > > details > > > > > about this thickness/area value (unit?). > > > > > In order to calculate the grey matter volume, > > > > > do I just have to sum up the thickness or > > > > > rather take the average thickness and weigh > > with > > > > > the total area(why is only every second entry > > in > > > > the > > > > > area field (5th column) of ?h.area.asc > > different > > > > from > > > > > zero?)? > > > > > > > > > > Thanks for any help, > > > > > Frederick > > > > > > > > > > > > > > > > > > > > > > __________________________________________________ > > > > > Do You Yahoo!? > > > > > LAUNCH - Your Yahoo! Music Experience > > > > > http://launch.yahoo.com > > > > > > > > > > > > > > > __________________________________________________ > > > Do You Yahoo!? > > > LAUNCH - Your Yahoo! Music Experience > > > http://launch.yahoo.com > > > > > > > __________________________________________________ > Do You Yahoo!? > LAUNCH - Your Yahoo! Music Experience > http://launch.yahoo.com >
