Thank you very much, that solved my problem. However, though I can now write .tif files, freesurfer does not seem to want to read them (when using mris_register):

[Macintosh-10:/Volumes/Data/monkey_surface_data] work% mris_make_template rh sphere bu_edited monk_temp0.tif
creating new parameterization...

processing subject bu_edited (1 of 1)
reading spherical surface /Volumes/Data/monkey_surface_data/bu_edited/surf/rh.sphere...
curvature mean = 0.000, std = 1.000
computing parameterization for surface /Volumes/Data/monkey_surface_data/bu_edited/surf/rh.inflated.H...
curvature mean = 0.000, std = 0.592
computing parameterization for surface /Volumes/Data/monkey_surface_data/bu_edited/surf/rh.sulc...
curvature mean = -0.100, std = 1.787
computing parameterization for surface /Volumes/Data/monkey_surface_data/bu_edited/surf/rh.smoothwm...
writing updated template with 1 subjects to monk_temp0.tif...
[Macintosh-10:/Volumes/Data/monkey_surface_data] work% mris_register $SUBJECTS_DIR/bu_edited/surf/rh.sphere $SUBJECTS_DIR/monk_temp0.tif $SUBJECTS_DIR/bu_edited/surf/rh.sphere.reg
$Id: mris_register.c,v 1.48 2007/07/19 15:58:50 fischl Exp $
 $Id: mrisurf.c,v 1.557.2.13 2008/05/23 00:06:05 nicks Exp $
reading surface from /Volumes/Data/monkey_surface_data/bu_edited/surf/rh.sphere...
reading template parameterization from /Volumes/Data/monkey_surface_data/monk_temp0.tif...
/Volumes/Data/monkey_surface_data/monk_temp0.tif: Deflate compression support is not configured.
TiffReadImage:  TIFFReadScanline returned error
No such file or directory
MRISPread(/Volumes/Data/monkey_surface_data/monk_temp0.tif): could not open file
No such file or directory
mris_register: could not open template file /Volumes/Data/monkey_surface_data/monk_temp0.tif
No such file or directory

Is there an updated 'mris_register' binary too that I could get a hold of? Thanks.


- Jan Kalkus



On Jul 8, 2008, at 6:51 PM, Nick Schmansky wrote:

Jan,

It appears that the libtiff used to build mris_make_template did not
have deflate (zip) support.  An updated binary can be downloaded from
here:

wget
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/nicks/stable/macintel/mris_make_template


the wget command is one line.  run this command in
the /Applications/freesurfer/bin directory, then type:
chmod a+x /Applications/freesurfer/bin/mris_make_template

Nick




On Tue, 2008-07-01 at 11:27 -0400, Jan Kalkus wrote:
Hi everyone,

I'm trying to make a monkey template using mris_make_template. So
far, every time I run the mris_make_template, I get this error:

[jkalkus:~] work% /Volumes/Data/monkey_surface_data/mris_make
creating new parameterization...

processing subject bu_edited (1 of 1)
reading spherical surface /Volumes/Data/monkey_surface_data//bu_edited/
surf/rh.sphere...
curvature mean = 0.000, std = 1.000
computing parameterization for surface /Volumes/Data/
monkey_surface_data//bu_edited/surf/rh.inflated.H...
curvature mean = 0.000, std = 0.592
computing parameterization for surface /Volumes/Data/
monkey_surface_data//bu_edited/surf/rh.sulc...
curvature mean = -0.100, std = 1.787
computing parameterization for surface /Volumes/Data/
monkey_surface_data//bu_edited/surf/rh.smoothwm...
writing updated template with 1 subjects to monk_temp0.tif...
monk_temp0.tif: Deflate compression support is not configured.
TiffWrite: TIFFWriteScanline returned error

I am working on an intel MacBook with OS X 10.5.4 and I'm running
freesurfer-Darwin-leopard-i686-stable-pub-v4.0.5. Has anyone else
encountered this problem? Does anyone have any suggestions? Thanks

- Jan Kalkus
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer



On Jul 8, 2008, at 6:51 PM, Nick Schmansky wrote:

Jan,

It appears that the libtiff used to build mris_make_template did not
have deflate (zip) support.  An updated binary can be downloaded from
here:

wget
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/fsdev/nicks/stable/macintel/mris_make_template


the wget command is one line.  run this command in
the /Applications/freesurfer/bin directory, then type:
chmod a+x /Applications/freesurfer/bin/mris_make_template

Nick




On Tue, 2008-07-01 at 11:27 -0400, Jan Kalkus wrote:
Hi everyone,

I'm trying to make a monkey template using mris_make_template. So  
far, every time I run the mris_make_template, I get this error:

[jkalkus:~] work% /Volumes/Data/monkey_surface_data/mris_make
creating new parameterization...

processing subject bu_edited (1 of 1)
reading spherical surface /Volumes/Data/monkey_surface_data//bu_edited/
surf/rh.sphere...
curvature mean = 0.000, std = 1.000
computing parameterization for surface /Volumes/Data/
monkey_surface_data//bu_edited/surf/rh.inflated.H...
curvature mean = 0.000, std = 0.592
computing parameterization for surface /Volumes/Data/
monkey_surface_data//bu_edited/surf/rh.sulc...
curvature mean = -0.100, std = 1.787
computing parameterization for surface /Volumes/Data/
monkey_surface_data//bu_edited/surf/rh.smoothwm...
writing updated template with 1 subjects to monk_temp0.tif...
monk_temp0.tif: Deflate compression support is not configured.
TiffWrite: TIFFWriteScanline returned error

I am working on an intel MacBook with OS X 10.5.4 and I'm running  
freesurfer-Darwin-leopard-i686-stable-pub-v4.0.5. Has anyone else  
encountered this problem? Does anyone have any suggestions? Thanks

- Jan Kalkus
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer