Hi,
I'm following instructions from: http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastTutorialData
The anatomical data extracts successfully, but the functional data hangs on this command:
tar xvfz fsfast-tutorial.tar.gz
The process extracts files for a while and produces this output: ./fsfast-tutorial/ ./fsfast-tutorial/.xdebug_tkmedit ./fsfast-tutorial/run-fsfast-tut.log.bak ...More successful extractions... ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/f.nii ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/fmcsm5.nii tar: Skipping to next header tar: Archive contains obsolescent base-64 headers (process hangs here)
Any help? I'm in /autofs/space/schnook_001/users/caitlin_tutorial/functional. bugr details are below. Thanks!
Jesse
FREESURFER_HOME: /usr/local/freesurfer/stable4
Build stamp: freesurfer-Linux-centos4_x86_64-stable-v4.5.0-20100311
RedHat release: CentOS release 5.3 (Final)
Kernel info: Linux 2.6.18-128.7.1.el5 x86_64
NMR Center info (/space/freesurfer exists):
machine: vantz
SUBJECTS_DIR: /autofs/space/ventzl_001/users/SUBJECTS_DIR
PWD: /space/schnook/1/users/caitlin_tutorial/functional
ssh vantz setenv SUBJECTS_DIR /autofs/space/ventzl_001/users/SUBJECTS_DIR cd /space/schnook/1/users/caitlin_tutorial/functional
how did you download it? If you just used your browser, then the file might have been truncated. Try using the wget command.
doug
Jesse Friedman wrote:
Hi,
I'm following instructions from: http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastTutorialData
The anatomical data extracts successfully, but the functional data hangs on this command:
tar xvfz fsfast-tutorial.tar.gz
The process extracts files for a while and produces this output: ./fsfast-tutorial/ ./fsfast-tutorial/.xdebug_tkmedit ./fsfast-tutorial/run-fsfast-tut.log.bak ...More successful extractions... ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/f.nii ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/fmcsm5.nii tar: Skipping to next header tar: Archive contains obsolescent base-64 headers (process hangs here)
Any help? I'm in /autofs/space/schnook_001/users/caitlin_tutorial/functional. bugr details are below. Thanks!
Jesse
FREESURFER_HOME: /usr/local/freesurfer/stable4
Build stamp: freesurfer-Linux-centos4_x86_64-stable-v4.5.0-20100311
RedHat release: CentOS release 5.3 (Final)
Kernel info: Linux 2.6.18-128.7.1.el5 x86_64
NMR Center info (/space/freesurfer exists):
machine: vantz
SUBJECTS_DIR: /autofs/space/ventzl_001/users/SUBJECTS_DIR
PWD: /space/schnook/1/users/caitlin_tutorial/functional
ssh vantz setenv SUBJECTS_DIR /autofs/space/ventzl_001/users/SUBJECTS_DIR cd /space/schnook/1/users/caitlin_tutorial/functional
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks... I did use wget.
how did you download it? If you just used your browser, then the file might have been truncated. Try using the wget command.
doug
Jesse Friedman wrote:
Hi,
I'm following instructions from: http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastTutorialData
The anatomical data extracts successfully, but the functional data hangs on this command:
tar xvfz fsfast-tutorial.tar.gz
The process extracts files for a while and produces this output: ./fsfast-tutorial/ ./fsfast-tutorial/.xdebug_tkmedit ./fsfast-tutorial/run-fsfast-tut.log.bak ...More successful extractions... ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/f.nii ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/fmcsm5.nii tar: Skipping to next header tar: Archive contains obsolescent base-64 headers (process hangs here)
Any help? I'm in /autofs/space/schnook_001/users/caitlin_tutorial/functional. bugr details are below. Thanks!
Jesse
FREESURFER_HOME: /usr/local/freesurfer/stable4
Build stamp: freesurfer-Linux-centos4_x86_64-stable-v4.5.0-20100311
RedHat release: CentOS release 5.3 (Final)
Kernel info: Linux 2.6.18-128.7.1.el5 x86_64
NMR Center info (/space/freesurfer exists):
machine: vantz
SUBJECTS_DIR: /autofs/space/ventzl_001/users/SUBJECTS_DIR
PWD: /space/schnook/1/users/caitlin_tutorial/functional
ssh vantz setenv SUBJECTS_DIR /autofs/space/ventzl_001/users/SUBJECTS_DIR cd /space/schnook/1/users/caitlin_tutorial/functional
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 greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Hi Jesse
Can you do
gzip -d fsfast-tutorial.tar.gz
and then do
tar -xf fsfast-tutorial.tar
If this works, I am guessing it might be an error of the command "tar" itself ( how it's implemented across platforms )
Best Krish
On May 25, 2010, at 1:37 PM, Jesse Friedman wrote:
Thanks... I did use wget.
how did you download it? If you just used your browser, then the file might have been truncated. Try using the wget command.
doug
Jesse Friedman wrote:
Hi,
I'm following instructions from: http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastTutorialData
The anatomical data extracts successfully, but the functional data hangs on this command:
tar xvfz fsfast-tutorial.tar.gz
The process extracts files for a while and produces this output: ./fsfast-tutorial/ ./fsfast-tutorial/.xdebug_tkmedit ./fsfast-tutorial/run-fsfast-tut.log.bak ...More successful extractions... ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/f.nii ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/fmcsm5.nii tar: Skipping to next header tar: Archive contains obsolescent base-64 headers (process hangs here)
Any help? I'm in /autofs/space/schnook_001/users/caitlin_tutorial/functional. bugr details are below. Thanks!
Jesse
FREESURFER_HOME: /usr/local/freesurfer/stable4
Build stamp: freesurfer-Linux-centos4_x86_64-stable-v4.5.0-20100311
RedHat release: CentOS release 5.3 (Final)
Kernel info: Linux 2.6.18-128.7.1.el5 x86_64
NMR Center info (/space/freesurfer exists):
machine: vantz
SUBJECTS_DIR: /autofs/space/ventzl_001/users/SUBJECTS_DIR
PWD: /space/schnook/1/users/caitlin_tutorial/functional
ssh vantz setenv SUBJECTS_DIR /autofs/space/ventzl_001/users/SUBJECTS_DIR cd /space/schnook/1/users/caitlin_tutorial/functional
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 greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks Krish. Unfortunately, I had seen your earlier posting about this and tried that. It hung for a long time, then produced this output:
[vantz:functional] (nmr-std-env) gzip -d fsfast-tutorial.tar.gz
gzip: fsfast-tutorial.tar.gz: invalid compressed data--crc error
gzip: fsfast-tutorial.tar.gz: invalid compressed data--length error
Hi Jesse
Can you do
gzip -d fsfast-tutorial.tar.gz
and then do
tar -xf fsfast-tutorial.tar
If this works, I am guessing it might be an error of the command "tar" itself ( how it's implemented across platforms )
Best Krish
On May 25, 2010, at 1:37 PM, Jesse Friedman wrote:
Thanks... I did use wget.
how did you download it? If you just used your browser, then the file might have been truncated. Try using the wget command.
doug
Jesse Friedman wrote:
Hi,
I'm following instructions from: http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastTutorialData
The anatomical data extracts successfully, but the functional data hangs on this command:
tar xvfz fsfast-tutorial.tar.gz
The process extracts files for a while and produces this output: ./fsfast-tutorial/ ./fsfast-tutorial/.xdebug_tkmedit ./fsfast-tutorial/run-fsfast-tut.log.bak ...More successful extractions... ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/f.nii ./fsfast-tutorial/fb1-preproc-study/mgh-104.1/bold/007/fmcsm5.nii tar: Skipping to next header tar: Archive contains obsolescent base-64 headers (process hangs here)
Any help? I'm in /autofs/space/schnook_001/users/caitlin_tutorial/functional. bugr details are below. Thanks!
Jesse
FREESURFER_HOME: /usr/local/freesurfer/stable4
Build stamp: freesurfer-Linux-centos4_x86_64-stable-v4.5.0-20100311
RedHat release: CentOS release 5.3 (Final)
Kernel info: Linux 2.6.18-128.7.1.el5 x86_64
NMR Center info (/space/freesurfer exists):
machine: vantz
SUBJECTS_DIR: /autofs/space/ventzl_001/users/SUBJECTS_DIR
PWD: /space/schnook/1/users/caitlin_tutorial/functional
ssh vantz setenv SUBJECTS_DIR /autofs/space/ventzl_001/users/SUBJECTS_DIR cd /space/schnook/1/users/caitlin_tutorial/functional
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 greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu