Hi,
I am attempting to run the following command:
preproc-sess -s CD_R01BTX_ctrl1_sess1 -df sessdirfile -mcout fmc5 -fwhm 5 -smin fmc5 -smout fmcsm5
and am getting an error:
Tue Jan 27 16:33:44 EST 2009 mcparams2exterg: finished \n\n Tue Jan 27 16:33:44 EST 2009 mc-sess completed SUCCESSFULLY CD_R01BTX_ctrl1_sess1 Smooth ------------------------ Tue Jan 27 16:33:44 EST 2009 /autofs/space/amaebi_035/users/ablood/R01_Botox spatialsmooth-sess -i fmc5 -o fmcsm5 -fwhm 5 -fsd bold -umask 2 -s CD_R01BTX_ctrl1_sess1 -d
/autofs/space/amaebi_035/users/ablood/R01_Botox
/autofs/space/amaebi_035/users/ablood/R01_Botox/CD_R01BTX_ctrl1_sess1 Tue Jan 27 16:33:45 EST 2009 /autofs/space/amaebi_035/users/ablood/R01_Botox/CD_R01BTX_ctrl1_sess1/bold /space/amaebi/35/users/ablood/R01_Botox RunList 016 017 018 019 020 021
/autofs/space/amaebi_035/users/ablood/R01_Botox/CD_R01BTX_ctrl1_sess1/bold ipfsl -i 016/fmc5 -o 016/fmcsm5 -pct .1 -fwhm 5 -fmt bhdr
ERROR: cannot find /usr/pubsw/packages/fsl/4.1.2/bin/ip ERROR: ipfsl failed ERROR: spatialsmooth-sess failed
Can anyone tell me what I am doing wrong?
thanks!!
Jake
Bugr
FREESURFER_HOME: /usr/local/freesurfer/stable3
we have to use stable3 for specific reasons
Build stamp: freesurfer-Linux-centos4-stable-v3.0.5-20070717
RedHat release: CentOS release 5 (Final)
Kernel info: Linux 2.6.18-8.1.15.el5 i686
NMR Center info (/space/freesurfer exists):
machine: striatum
SUBJECTS_DIR: /space/amaebi/35/users/ablood/R01_Botox
PWD: /space/amaebi/35/users/ablood/R01_Botox
what version of freesurfer?
jake@nmr.mgh.harvard.edu wrote:
Hi,
I am attempting to run the following command:
preproc-sess -s CD_R01BTX_ctrl1_sess1 -df sessdirfile -mcout fmc5 -fwhm 5 -smin fmc5 -smout fmcsm5
and am getting an error:
Tue Jan 27 16:33:44 EST 2009 mcparams2exterg: finished \n\n Tue Jan 27 16:33:44 EST 2009 mc-sess completed SUCCESSFULLY CD_R01BTX_ctrl1_sess1 Smooth ------------------------ Tue Jan 27 16:33:44 EST 2009 /autofs/space/amaebi_035/users/ablood/R01_Botox spatialsmooth-sess -i fmc5 -o fmcsm5 -fwhm 5 -fsd bold -umask 2 -s CD_R01BTX_ctrl1_sess1 -d
/autofs/space/amaebi_035/users/ablood/R01_Botox
/autofs/space/amaebi_035/users/ablood/R01_Botox/CD_R01BTX_ctrl1_sess1 Tue Jan 27 16:33:45 EST 2009 /autofs/space/amaebi_035/users/ablood/R01_Botox/CD_R01BTX_ctrl1_sess1/bold /space/amaebi/35/users/ablood/R01_Botox RunList 016 017 018 019 020 021
/autofs/space/amaebi_035/users/ablood/R01_Botox/CD_R01BTX_ctrl1_sess1/bold ipfsl -i 016/fmc5 -o 016/fmcsm5 -pct .1 -fwhm 5 -fmt bhdr
ERROR: cannot find /usr/pubsw/packages/fsl/4.1.2/bin/ip ERROR: ipfsl failed ERROR: spatialsmooth-sess failed
Can anyone tell me what I am doing wrong?
thanks!!
Jake
Bugr
FREESURFER_HOME: /usr/local/freesurfer/stable3
we have to use stable3 for specific reasons
Build stamp: freesurfer-Linux-centos4-stable-v3.0.5-20070717
RedHat release: CentOS release 5 (Final)
Kernel info: Linux 2.6.18-8.1.15.el5 i686
NMR Center info (/space/freesurfer exists):
machine: striatum
SUBJECTS_DIR: /space/amaebi/35/users/ablood/R01_Botox
PWD: /space/amaebi/35/users/ablood/R01_Botox
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu