External Email - Use Caution
Dear experts,
I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6.
I got the recon-all.log error message:
ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca
Thanks for your help. Sincerely, Peka
Does that file exist?
On 7/7/2020 8:59 AM, Peka Savayan wrote:
External Email - Use Caution
Dear experts,
I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6.
I got the recon-all.log error message:
ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca
Thanks for your help. Sincerely, Peka
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Yes.
On Wed, Jul 8, 2020 at 10:01 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Does that file exist?
On 7/7/2020 8:59 AM, Peka Savayan wrote:
External Email - Use CautionDear experts,
I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6.
I got the recon-all.log error message:
ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca
Thanks for your help. Sincerely, Peka
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Do you have read permission to it?
On 7/8/2020 2:25 PM, Peka Savayan wrote:
External Email - Use Caution
Yes.
On Wed, Jul 8, 2020 at 10:01 AM Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Does that file exist? On 7/7/2020 8:59 AM, Peka Savayan wrote:External Email - Use Caution Dear experts, I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6. I got the recon-all.log error message: ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca Thanks for your help. Sincerely, Peka -- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
I can open it. Can you? No permission required to my knowledge.
On Thu, Jul 9, 2020 at 11:53 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Do you have read permission to it?
On 7/8/2020 2:25 PM, Peka Savayan wrote:
External Email - Use CautionYes.
On Wed, Jul 8, 2020 at 10:01 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Does that file exist?
On 7/7/2020 8:59 AM, Peka Savayan wrote:
External Email - Use CautionDear experts,
I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6.
I got the recon-all.log error message:
ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca
Thanks for your help. Sincerely, Peka
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Can you send the recon-all.log file?
On 7/9/2020 1:25 PM, Peka Savayan wrote:
External Email - Use Caution
I can open it. Can you? No permission required to my knowledge.
On Thu, Jul 9, 2020 at 11:53 AM Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Do you have read permission to it? On 7/8/2020 2:25 PM, Peka Savayan wrote:External Email - Use Caution Yes. On Wed, Jul 8, 2020 at 10:01 AM Douglas N. Greve <dgreve@mgh.harvard.edu <mailto:dgreve@mgh.harvard.edu>> wrote: Does that file exist? On 7/7/2020 8:59 AM, Peka Savayan wrote:External Email - Use Caution Dear experts, I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6. I got the recon-all.log error message: ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca Thanks for your help. Sincerely, Peka -- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
The file that I sent you is the recon-all.log file.
If copying file 'RB_all_2008-03-26.gca' from another FS version to directory ..../freesurfer-7.1.0/average will solve my problem?
On Thu, Jul 9, 2020 at 12:30 PM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Can you send the recon-all.log file?
On 7/9/2020 1:25 PM, Peka Savayan wrote:
External Email - Use CautionI can open it. Can you? No permission required to my knowledge.
On Thu, Jul 9, 2020 at 11:53 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Do you have read permission to it?
On 7/8/2020 2:25 PM, Peka Savayan wrote:
External Email - Use CautionYes.
On Wed, Jul 8, 2020 at 10:01 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
Does that file exist?
On 7/7/2020 8:59 AM, Peka Savayan wrote:
External Email - Use CautionDear experts,
I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6.
I got the recon-all.log error message:
ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca
Thanks for your help. Sincerely, Peka
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Can you run recon-all again with -debug as the first argument? Send me the command line and all the terminal output
On 7/9/2020 2:10 PM, Peka Savayan wrote:
External Email - Use Caution
The file that I sent you is the recon-all.log file.
If copying file 'RB_all_2008-03-26.gca' from another FS version to directory ..../freesurfer-7.1.0/average will solve my problem?
On Thu, Jul 9, 2020 at 12:30 PM Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Can you send the recon-all.log file? On 7/9/2020 1:25 PM, Peka Savayan wrote:External Email - Use Caution I can open it. Can you? No permission required to my knowledge. On Thu, Jul 9, 2020 at 11:53 AM Douglas N. Greve <dgreve@mgh.harvard.edu <mailto:dgreve@mgh.harvard.edu>> wrote: Do you have read permission to it? On 7/8/2020 2:25 PM, Peka Savayan wrote:External Email - Use Caution Yes. On Wed, Jul 8, 2020 at 10:01 AM Douglas N. Greve <dgreve@mgh.harvard.edu <mailto:dgreve@mgh.harvard.edu>> wrote: Does that file exist? On 7/7/2020 8:59 AM, Peka Savayan wrote:External Email - Use Caution Dear experts, I try to run recon-all using FS 7.1.0 on a cluster with OS CentOS6. I got the recon-all.log error message: ERROR: cannot find /share/apps/freesurfer-7.1.0/average/RB_all_2008-03-26.gca Thanks for your help. Sincerely, Peka -- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer-- Peka Christova Savayan, PhD Assistant Prof. Dept. Neuroscience Univ. Minnesota Member Center Cognitive Sciences Univ. Minnesota Graduate program Center Cognitive Sciences Univ. Minnesota Research Physicist Brain Sciences Center VAHCS
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
-
Douglas N. Greve -
Peka Savayan