unless it is repeatable, it is really hard to debug
On 1/8/2025 6:57 PM, Aaron Tanenbaum wrote:
External Email - Use Caution
I actually can not remember how I got this specific output, I just
sent it because of lack of info in the recon-all file. However, it
stems from a problem I am encountering where I use a script to edit
wm.mgz based on changes I make to filled.mgz. recon-all will fail at
the same spot every time. I was able to fix the problem by running
"mri_convert --in_like" on the wm.mgz using the original wm.mgz as
the header reference. Attached is the recon-all.log for the failed
recon-all. The puzzling thing is if I run mri_head on wm.mgz before
and after mri_convert both have identical header information. I have
attached the images. wm1.mgz is the output from my script and wm2.mgz
is from mri_convert. Are you able to understand the difference in the
files?
On Wed, Jan 8, 2025 at 8:01 AM Douglas N. Greve
<dgr...@mgh.harvard.edu> wrote:
I can't see anything wrong either. Does it happen repeatedly? Can
you try running it without the -parallel flag?
On 1/7/2025 1:42 PM, Aaron Tanenbaum wrote:
External Email - Use Caution
You are correct. Attached is the correct one
On Tue, Jan 7, 2025 at 8:08 AM Douglas N. Greve
<dgr...@mgh.harvard.edu> wrote:
Are you sure this is the right recon-all.log file? At the end
it says it finished without error
On 1/6/2025 4:12 PM, Aaron Tanenbaum wrote:
External Email - Use Caution
Hell All,
I am testing recon-all and found that it returned with an
error. I am not sure where the error is. The recon-all log
file looks fine. I was testing a situation where we edit
the wm.mgz and filled.mgz at the same time then run
recon-all with -autorecon-wm. Attached is the recon-all log
file. It should have all relevant info of version and
description of our system. Any help would be appreciated.
Thank you
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://secure-web.cisco.com/1peaI__TeJUbckv4J0VtL4MTLgh8HhDrvjWzEqk36JlsynZtg24NMdsXIrGSrC2d7PqTETC2uwSuSNCfa3J1QORMuqylPj2tK9MPuPZQSSaWL9Z-HtdKTmd06qo1I3nilcVlgjz51aUlBz7cZTMe5ApIg9Ep_pO4VmqmtH5Ulg99RZ-2ZE1vvuf9XVCaotO5Eh56KorgIk8Nc1J5POJB_VJ78DX7qZ0RI4Jdn7G6kqm_uLWKg12gvw2yezO4SYcbCpUyqjp8b4UJbWtFIFlwPCs8J7xQLXm5zsexbExdxrYNo46YYPzzCtJ5MTwZo1SqseAJUMytKw1rg1hrBW7VtDA/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://secure-web.cisco.com/1peaI__TeJUbckv4J0VtL4MTLgh8HhDrvjWzEqk36JlsynZtg24NMdsXIrGSrC2d7PqTETC2uwSuSNCfa3J1QORMuqylPj2tK9MPuPZQSSaWL9Z-HtdKTmd06qo1I3nilcVlgjz51aUlBz7cZTMe5ApIg9Ep_pO4VmqmtH5Ulg99RZ-2ZE1vvuf9XVCaotO5Eh56KorgIk8Nc1J5POJB_VJ78DX7qZ0RI4Jdn7G6kqm_uLWKg12gvw2yezO4SYcbCpUyqjp8b4UJbWtFIFlwPCs8J7xQLXm5zsexbExdxrYNo46YYPzzCtJ5MTwZo1SqseAJUMytKw1rg1hrBW7VtDA/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
The information in this e-mail is intended only for the
person to whom it is addressed. If you believe this e-mail
was sent to you in error and the e-mail contains patient
information, please contact the Mass General Brigham
Compliance HelpLine at *MailScanner has detected a possible
fraud attempt from "secure-web.cisco.com" claiming to be*
https://www.massgeneralbrigham.org/complianceline
<https://secure-web.cisco.com/1h3Y3qTYqoxGlUZHbjHavv2tnOIkRi_rCMo0PBku7zhJqx2GUyYm-dBcu5aBjKWRXiUathDztGijy2UmZZMDOvKcZAGwLYBcAClqKklY_ojiX5JWwSZNPeCzHXyLsXAVb5u9A1RmZ7s3YTrwXEvO_h1ZPmZPk0_BsapJDqIWnXuhJ8MiaGYgqq8pB4ga8gJUAdDoJy9NN5OVF6jfWmcBaSpmMUnO9nC92VMpyrVp6xvodUGD6rfA1HLcAJ_t0kKb1k8CtY1qG2RX98LOhqpb6CsjiGw53YdHOkKnpIF2myhB6NlvXWVBcDay9ZgxrVvM53ntsgQTWLytOg3loXrlb4g/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>
<*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://www.massgeneralbrigham.org/complianceline
<https://secure-web.cisco.com/1h3Y3qTYqoxGlUZHbjHavv2tnOIkRi_rCMo0PBku7zhJqx2GUyYm-dBcu5aBjKWRXiUathDztGijy2UmZZMDOvKcZAGwLYBcAClqKklY_ojiX5JWwSZNPeCzHXyLsXAVb5u9A1RmZ7s3YTrwXEvO_h1ZPmZPk0_BsapJDqIWnXuhJ8MiaGYgqq8pB4ga8gJUAdDoJy9NN5OVF6jfWmcBaSpmMUnO9nC92VMpyrVp6xvodUGD6rfA1HLcAJ_t0kKb1k8CtY1qG2RX98LOhqpb6CsjiGw53YdHOkKnpIF2myhB6NlvXWVBcDay9ZgxrVvM53ntsgQTWLytOg3loXrlb4g/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>>
.
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://secure-web.cisco.com/142L3tNzN3be-UOStjpv-AjSAETUoncVZ4m0rIVy0SIVudkx18ora_S15dQotDITRqinyCMxlc77U4_dxROpN60nJlAjSiHJht3K4ftgFDieBQzvNffF9zpZ6JFCEky5YG2arSS_vXouFwozKfqFALI1_TRz0R9hxQ-HZYig2kwE_3Jrc1sKRwNcucczHUcj8B7j_O9Ki_8x8A7AJlWcPVKN75hvU9xOVyQbeK7TXsx-bhlDTX6eB5EkI1otS1dJ_itc8Jv_alc4SeO1Z6tJ9zDr0hgOLvtzWnufCJ-6gsa0j8x8d7fb_kq4Upg3uvD0TJF9C8aus2XaO3O-Jiw-eiA/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://secure-web.cisco.com/142L3tNzN3be-UOStjpv-AjSAETUoncVZ4m0rIVy0SIVudkx18ora_S15dQotDITRqinyCMxlc77U4_dxROpN60nJlAjSiHJht3K4ftgFDieBQzvNffF9zpZ6JFCEky5YG2arSS_vXouFwozKfqFALI1_TRz0R9hxQ-HZYig2kwE_3Jrc1sKRwNcucczHUcj8B7j_O9Ki_8x8A7AJlWcPVKN75hvU9xOVyQbeK7TXsx-bhlDTX6eB5EkI1otS1dJ_itc8Jv_alc4SeO1Z6tJ9zDr0hgOLvtzWnufCJ-6gsa0j8x8d7fb_kq4Upg3uvD0TJF9C8aus2XaO3O-Jiw-eiA/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
The information in this e-mail is intended only for the person to
whom it is addressed. If you believe this e-mail was sent to you
in error and the e-mail contains patient information, please
contact the Mass General Brigham Compliance HelpLine at
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://www.massgeneralbrigham.org/complianceline
<https://secure-web.cisco.com/15ukFGCbcN3sI9cww3DryN8bPrE9Wc2P8prWB3NPHlYQAaJKimsXix1oSkmyezRJafzGd7VmwHzXjZHPKku_x8pdLZSmbrlb-xZGQQEWUgJG5Wc35hJ_N3YFbrad-XUm-yrGs64OGVbNH_K6iv8QL5aiopmn9q2_m1ZnLvLernxvXQbINAdfbEtn6y_9NW7_pX7t8YAPumGTbnN9ydJqQY7LjsRNKVj7A8IsnDYGOOIBV47Q-zeNCpbf3GNstkgZotS18gYGUaReAHVb6LVJQtCJ6LGvwmqYfmJodZxupWDgd3wp4fh1zk-OFnKVNXrFgtfUtDI8vxtLo03D7_qu8lQ/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>
<*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://www.massgeneralbrigham.org/complianceline
<https://secure-web.cisco.com/15ukFGCbcN3sI9cww3DryN8bPrE9Wc2P8prWB3NPHlYQAaJKimsXix1oSkmyezRJafzGd7VmwHzXjZHPKku_x8pdLZSmbrlb-xZGQQEWUgJG5Wc35hJ_N3YFbrad-XUm-yrGs64OGVbNH_K6iv8QL5aiopmn9q2_m1ZnLvLernxvXQbINAdfbEtn6y_9NW7_pX7t8YAPumGTbnN9ydJqQY7LjsRNKVj7A8IsnDYGOOIBV47Q-zeNCpbf3GNstkgZotS18gYGUaReAHVb6LVJQtCJ6LGvwmqYfmJodZxupWDgd3wp4fh1zk-OFnKVNXrFgtfUtDI8vxtLo03D7_qu8lQ/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>>
.
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://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
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Mass General Brigham
Compliance HelpLine at https://www.massgeneralbrigham.org/complianceline
<https://www.massgeneralbrigham.org/complianceline> .
Please note that this e-mail is not secure (encrypted). If you do not wish to
continue communication over unencrypted e-mail, please notify the sender of
this message immediately. Continuing to send or respond to e-mail after
receiving this message means you understand and accept this risk and wish to
continue to communicate over unencrypted e-mail.
