External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:18540d76-7d70-4831-a4cc-ab3762da93b2]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
External Email - Use Caution
Hi Krystal,
Your recon-all.log shows 'Command terminated by signal 15'.
This indicates the system had delivered a SIGTERM to your recon-all process. Can you run it again?
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Krystal Xiwing Yau Sent: Thursday, April 13, 2023 3:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:image001.png@01D96DD9.3A8CD820]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
External Email - Use Caution
Sorry Yujing, Just seeing your reply now.
-Paul
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Huang, Yujing YHUANG43@mgh.harvard.edu Sent: Thursday, April 13, 2023 7:26 AM To: Freesurfer support list Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution Hi Krystal,
Your recon-all.log shows ‘Command terminated by signal 15’.
This indicates the system had delivered a SIGTERM to your recon-all process. Can you run it again?
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Krystal Xiwing Yau Sent: Thursday, April 13, 2023 3:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:image001.png@01D96DD9.3A8CD820]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
External Email - Use Caution
Bruce replied too.
We got to the same conclusion.
Yujing
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Wighton, Paul Sent: Thursday, April 13, 2023 11:13 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Sorry Yujing, Just seeing your reply now.
-Paul
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Huang, Yujing YHUANG43@mgh.harvard.edu Sent: Thursday, April 13, 2023 7:26 AM To: Freesurfer support list Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution Hi Krystal,
Your recon-all.log shows 'Command terminated by signal 15'.
This indicates the system had delivered a SIGTERM to your recon-all process. Can you run it again?
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Krystal Xiwing Yau Sent: Thursday, April 13, 2023 3:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:image001.png@01D96DD9.3A8CD820]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
External Email - Use Caution
Dear Yujing and Bruce,
I read your emails too. I will try again.
Thank you very much!
Best regards,
Krystal
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Huang, Yujing YHUANG43@MGH.HARVARD.EDU Sent: 13 April 2023 23:15:34 To: Freesurfer support list Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Bruce replied too.
We got to the same conclusion.
Yujing
-----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Wighton, Paul Sent: Thursday, April 13, 2023 11:13 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Sorry Yujing, Just seeing your reply now.
-Paul
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Huang, Yujing YHUANG43@mgh.harvard.edu Sent: Thursday, April 13, 2023 7:26 AM To: Freesurfer support list Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution Hi Krystal,
Your recon-all.log shows 'Command terminated by signal 15'.
This indicates the system had delivered a SIGTERM to your recon-all process. Can you run it again?
Best,
Yujing
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Krystal Xiwing Yau Sent: Thursday, April 13, 2023 3:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:image001.png@01D96DD9.3A8CD820]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/15o4cQNcWIQZMHuH4STc6TFlb5nLsW5ndcDDbQpnXxmXkxM... 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://secure-web.cisco.com/1FHqHaiw1qgqGtoRNqsyqajjhNd9LNSMwArMh6ecJ99q2Z0... https://secure-web.cisco.com/1FHqHaiw1qgqGtoRNqsyqajjhNd9LNSMwArMh6ecJ99q2Z0TDel-CtgpYVqLLfcPfkDiAA9ojl5ohOP40fABShKYC1sxbklm6dotEONfpi1TeCcmCH06B7APwSDtPh6PyBrLBFHb5tnZQZJSnUBNfzp4vKFUSnc4YvsH1QtLcZ38hWwon1pnINF1AT5S3lbEZSdf3H7Q5FcpvFY7CUrkqO8h6DadruRusLsSgmzNz5bjTgSnqwAN3xkBTt-BTY0s19RRjrfmJX9SpvRZav-F7Rh0171uon9HtpRDSAe62OTwb26Ti63-Yujt-SO5jFW4CAMKGKTVNA1GM_ogEn4Adlw/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline . 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.
External Email - Use Caution
Hmm, have you tried running it again? Looks like maybe the server you were running on was rebooted:
https://secure-web.cisco.com/12WpGVHl0AHufakK6VKBUziepMSnv29SKxPBgpVDx41h-g_...
cheers Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Krystal Xiwing Yau Sent: Thursday, April 13, 2023 3:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:image001.png@01D96DEE.965E3260]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
External Email - Use Caution
Hi Krystal,
I think the culprit is the line "Command terminated by signal 15". Signal 15 (SIGTERM) is a request that has been send to the program to terminate. So someone or something has requested a termination. Are you running this on a cluster? Is it possible that the job exceeded it's maximum runtime?
-Paul
________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Krystal Xiwing Yau krystaly@hku.hk Sent: Thursday, April 13, 2023 3:02 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
Dear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:18540d76-7d70-4831-a4cc-ab3762da93b2]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong.
External Email - Use Caution
It may also be the same signal if the operating system could not allocate memory, I believe.
On Thu, Apr 13, 2023 at 11:11 AM Wighton, Paul PWIGHTON@mgh.harvard.edu wrote:
External Email - Use CautionHi Krystal,
I think the culprit is the line "Command terminated by signal 15". Signal 15 (SIGTERM) is a request that has been send to the program to terminate. So someone or something has requested a termination. Are you running this on a cluster? Is it possible that the job exceeded it's maximum runtime?
-Paul
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Krystal Xiwing Yau krystaly@hku.hk Sent: Thursday, April 13, 2023 3:02 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use CautionDear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:18540d76-7d70-4831-a4cc-ab3762da93b2]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/19kT9pJCe3Br33r5cYxQT1hodgGvGn3C-lgYyzBlnlGBbiY... 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://secure-web.cisco.com/1JRTn7WABlOE11_nZRy__oFyiXGLZxEAQMWC6aRaC7-hX43... https://secure-web.cisco.com/1JRTn7WABlOE11_nZRy__oFyiXGLZxEAQMWC6aRaC7-hX43yg-GmAg-G25oWuBxX2BQpq1Guv_BINs2kU_hak2M1tBXQQME6JqbNLbU1mubqJixt5frMmxiOFDX6t3qEjHbLt0sqfYmsPq-cBxdABhNoOJBDVc_X3oP0O5a0LwUfa_Vsqx8Ieu6AJ4-LCRK099J_siQHHCgoDJsZdUAfWcJtZ_rWsb3H6eVUjakwCfpzHuRzHh8PDtU5VtboXlFh1-p9NZTP2rJj5bGL9eNmiukNriWYc2dbYEV-oyAgpgV_LOpNB0k9_ZZV2xbHQOa5biOVQBjR-TUIFVjaKGm8o1g/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline . 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.
External Email - Use Caution
Dear Bennet and Paul,
Thank you very much for your feedback.
Yes, I am running on a cluster. I may have to try again with different settings.
Thank you again for your advise.
Best regards,
Krystal
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Bennet Fauber bennet@umich.edu Sent: 14 April 2023 00:12:15 To: Freesurfer support list Subject: Re: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use Caution
It may also be the same signal if the operating system could not allocate memory, I believe.
On Thu, Apr 13, 2023 at 11:11 AM Wighton, Paul PWIGHTON@mgh.harvard.edu wrote:
External Email - Use CautionHi Krystal,
I think the culprit is the line "Command terminated by signal 15". Signal 15 (SIGTERM) is a request that has been send to the program to terminate. So someone or something has requested a termination. Are you running this on a cluster? Is it possible that the job exceeded it's maximum runtime?
-Paul
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Krystal Xiwing Yau krystaly@hku.hk Sent: Thursday, April 13, 2023 3:02 AM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] [FreeSurfer] Error: mri_ca_register with non-zero status 143
External Email - Use CautionDear FreeSurfer experts,
I am running recon-all for an MS patient but the process was exited with error as described in the title of this email. The attached file is the log file for your reference.
The below T1 image looks fine too:
[cid:18540d76-7d70-4831-a4cc-ab3762da93b2]
It's generated from a 3T scanner, Siemen.
Would someone kindly advise on how to fix the issue? Thank you so much in advance.
Regards, Krystal
Tel.: +852 2255 5024 Fax: +852 2872 5828 Address: Room 304, 3/F, New Clinical Building, 102 Pokfulam Road, Hong Kong. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/19kT9pJCe3Br33r5cYxQT1hodgGvGn3C-lgYyzBlnlGBbiY... 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://secure-web.cisco.com/1JRTn7WABlOE11_nZRy__oFyiXGLZxEAQMWC6aRaC7-hX43... https://secure-web.cisco.com/1JRTn7WABlOE11_nZRy__oFyiXGLZxEAQMWC6aRaC7-hX43yg-GmAg-G25oWuBxX2BQpq1Guv_BINs2kU_hak2M1tBXQQME6JqbNLbU1mubqJixt5frMmxiOFDX6t3qEjHbLt0sqfYmsPq-cBxdABhNoOJBDVc_X3oP0O5a0LwUfa_Vsqx8Ieu6AJ4-LCRK099J_siQHHCgoDJsZdUAfWcJtZ_rWsb3H6eVUjakwCfpzHuRzHh8PDtU5VtboXlFh1-p9NZTP2rJj5bGL9eNmiukNriWYc2dbYEV-oyAgpgV_LOpNB0k9_ZZV2xbHQOa5biOVQBjR-TUIFVjaKGm8o1g/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline . 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.
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1jjlYSPZTPY5gmmUgESXRyECxUn46Uvv_j5EmSg6amXsS28... 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://secure-web.cisco.com/1rVlxtT7bTq4vEq2Ek8hqlXy-Oxl8b-tNJmd01MaivGmOlO... https://secure-web.cisco.com/1rVlxtT7bTq4vEq2Ek8hqlXy-Oxl8b-tNJmd01MaivGmOlOAQdvZm670lIaOngECVN5YtZkZYS1gkP35scBkOTzp3UEIcjDqIUPIGCPjNBodaPkN52y7QOxZLseEHSL0-HZ2ZzgXV-jRmzN-HsexNM91DWuDX1doeprlClrvBknylUITdV2_rqpQLFnxrA09TumJyHsTTf-qwf8LjCrf0JkT93pDRi7UlmKVjQE1UoQf8uyzCmaAWZkrHuYoB-UtsQQu6xL1NxOUc2CJzH-3cW776WnIoTysXhZ2yn1jYqIZ-5hHpL1p8cnA-GMOfPWfU/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline . 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.
freesurfer@nmr.mgh.harvard.edu
-
Bennet Fauber -
Fischl, Bruce R.,PHD -
Huang, Yujing -
Krystal Xiwing Yau -
Wighton, Paul