External Email - Use Caution Hi Bruce,
No problem, thanks for getting back to me quickly. Here is the output of -l against the file: brainmask.mgz -rw-rw-rw- 1 rob rob 1363253 Sep 30 2018 brainmask.mgz Kind regards, Rob Bartlett Research IT Officer University of Exeter http://secure-web.cisco.com/1yutBkt5hXhgLKg69R5m3lB60Vj9CohXvvYObck-pTgGNEaDA2-3a9UaPwvspO5Su0Ul-G0w_teCqMbsv_um9Z5yBX6vK6k7uaydp2-NH642Od-uJRrVkPKMGmaGKKquSi7Lnt1uGd5DcGoISePP0PYKv-8ZndKX8EZqpgdC-i6_y4xKPABD9i_Z0KURH2C7--Tf42G8KDjjjIFxRp5xPHb7dyCS5MD-8VDKAgT_DNukIo4g9KsebNEMom57Z5_H-H0qgkZLBSLQHP_omhmzpiy2DzpDl0Cwk0fprWCkLosa9Hsub3F3P5ekTEhuQXStD/http%3A%2F%2Fwww.exeter.ac.uk<https://secure-web.cisco.com/195ldMCIMeP9TanL2FO9mHG9s2SmJbStalYWNnxzCdFvde0YZ5ug4DNHQCTumMjhefXxH-537jY9CI5-IDkrGhzuSV6nXdkc6fDwCSbc3eV3QFddPZfoxREyOA6Kcr-zlh-BPqoJNtMd0-vFfdcJF22zwjwvUY4vb_YELAl5YKqPZciVZ-9k6byv4byzX-ChNqKiWYGsVet3DWRXKrk5Fm_Rx6lHunnZccMh_Lg270pAJ6GZPKORoDUxooeMejHnJ9KmEi1Fj24jx7UQVa8pC_Wbvws5h1YjPt5LnOhI0ZYirJ241TwiXqpuVmdE77HUR/https%3A%2F%2Feur03.safelinks.protection.outlook.com%2F%3Furl%3Dhttp%253A%252F%252Fwww.exeter.ac.uk%252F%26data%3D05%257C01%257CR.Bartlett2%2540exeter.ac.uk%257Cab38191defec41cba9f908db29ee295f%257C912a5d77fb984eeeaf321334d8f04a53%257C0%257C0%257C638149875083781919%257CUnknown%257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%253D%257C3000%257C%257C%257C%26sdata%3DB0%252B7hoeo%252Bfa%252BUgSXzduACwplHUD9z52ah%252B1AegiL4vo%253D%26reserved%3D0> Laver Building, North Park Road, Exeter, EX4 4QE ________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Fischl, Bruce R.,PHD <bfis...@mgh.harvard.edu> Sent: 21 March 2023 18:52 To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] FreeSurfer Segmentation Fault CAUTION: This email originated from outside of the organisation. Do not click links or open attachments unless you recognise the sender and know the content is safe. Oh, sorry, should have read to the end of my inbox before responding. What does ls -l show for that file? From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> On Behalf Of Bartlett, Rob Sent: Tuesday, March 21, 2023 12:18 PM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] FreeSurfer Segmentation Fault External Email - Use Caution Hi Ruopeng, This is the command I have been using: freeview tutorial_data_20190918_1558/diffusion_recons/Diff001/mri/brainmask.mgz I get the same result when I open freeview and select the volume through the GUI. Kind regards, Rob Bartlett Research IT Officer University of Exeter http://secure-web.cisco.com/1yutBkt5hXhgLKg69R5m3lB60Vj9CohXvvYObck-pTgGNEaDA2-3a9UaPwvspO5Su0Ul-G0w_teCqMbsv_um9Z5yBX6vK6k7uaydp2-NH642Od-uJRrVkPKMGmaGKKquSi7Lnt1uGd5DcGoISePP0PYKv-8ZndKX8EZqpgdC-i6_y4xKPABD9i_Z0KURH2C7--Tf42G8KDjjjIFxRp5xPHb7dyCS5MD-8VDKAgT_DNukIo4g9KsebNEMom57Z5_H-H0qgkZLBSLQHP_omhmzpiy2DzpDl0Cwk0fprWCkLosa9Hsub3F3P5ekTEhuQXStD/http%3A%2F%2Fwww.exeter.ac.uk<https://secure-web.cisco.com/1g1hjiS2Mk0w4WAXTFAehecMyo1M5XLjw8QyQ6jvPVwjyZ9hCJX4YqYcGjQ4uFzmDNux3a1l0fdvXb5ge7STRj9srcjKbjnRP4tiepAKJPhHP_fu_Vqce60hyh6YNWqElDqW7zczlzWCC--JheIToryfLuMqy1nWgALp3JTpG2hG3Rc2WirX5KZmgGys8LHTZqsAPylA02hZXoDUj1OCmap4kHDUo7j7DNQu9EcDKKf6IzOnXmK7U4IZCEkGRb3qcPHEnJK0Tbi6W8XDZ1ulanz1XGNWMwBL7NgYaQ2C7lAzcwwixCImzMfcCbJiatrzY/https%3A%2F%2Feur03.safelinks.protection.outlook.com%2F%3Furl%3Dhttp%253A%252F%252Fwww.exeter.ac.uk%252F%26data%3D05%257C01%257Cr.bartlett2%2540exeter.ac.uk%257C627ae2f2d00e4535c78d08db2a3dc38f%257C912a5d77fb984eeeaf321334d8f04a53%257C0%257C0%257C638150216985257453%257CUnknown%257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%253D%257C3000%257C%257C%257C%26sdata%3DsPN1LwBsgTbvVcmyqSOITEZHkuPxtoe4m%252Fsj%252F2DE57k%253D%26reserved%3D0> Laver Building, North Park Road, Exeter, EX4 4QE [http://secure-web.cisco.com/1D8-qFclQeYgdaV0uo-uTrAbM1eCvJUyjIV22w12pF0Q3eQ_S_Mlgb7T3r_w0vxOAw4p78Yx8KkNV9hz4nzEpYmRyBSC0rItAr094f0ftSA4TDMuQXIXnXKSC2TFWnfEOuB5c2DMw8w-BKhQvV2SUUojLRHK9zByMvvmDZl27FP5JnBEUT-E6ZKCbWZfq0We5LG8f4V47lL8NK8MtFmfHGji9h22vnsQxOrUV8sP3hKRQHEXm4u-BH_xZiFoh09oumIHv2E8NuO-9MiJiL2GaK6MhmNu3MyoOtAMdv13SGVsZ_CNa1BBzjLcrlDP6npzevH55ZtmHFALKXugbpJ2U4A/http%3A%2F%2Fwww.exeter.ac.uk%2Fcodebox%2Femail-sig%2Fstaff-sig.gif] This email and any attachment may contain information that is confidential, privileged, or subject to copyright, and which may be exempt from disclosure under applicable legislation. It is intended for the addressee only. If you received this message in error, please let me know and delete the email and any attachments immediately. The University will not accept responsibility for the accuracy/completeness of this email and its attachments. From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> <freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> On Behalf Of Wang, Ruopeng Sent: Tuesday, March 21, 2023 1:35 PM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] FreeSurfer Segmentation Fault CAUTION: This email originated from outside of the organisation. Do not click links or open attachments unless you recognise the sender and know the content is safe. Can you post the full freeview command that you ran? Ruopeng On Mar 21, 2023, at 6:50 AM, Bartlett, Rob <r.bartle...@exeter.ac.uk<mailto:r.bartle...@exeter.ac.uk>> wrote: External Email - Use Caution Hi, I am using FreeSurfer 7.3.2 with Ubuntu 20.04.4 LTS. I have an issue where Freeview crashes with a segmentation fault when loading a .mgz volume file. The files I have been trying to open are part of the tutorial dataset. Build Stamp: freesurfer-linux-ubuntu20_x86_64-7.3.2-20220804-6354275 Terminal Output: Segmentation fault Syslog Output: Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863337] ThreadIOWorker[390903]: segfault at ad0 ip 00005613a159eb5d sp 00007fb580f68d00 error 4 in freeview[5613a0ee8000+bc1000] Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863358] Code: ef c9 f2 0f 5c 14 24 66 0f ef f6 85 d2 0f 48 d6 8d 75 ff 39 cd 0f 4e ce 48 8b 73 10 48 63 d2 48 63 c9 48 8d 14 96 48 8d 0c 8e <f3> 0f 5a 09 f2 0f 58 4c > Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863380] ThreadIOWorker[390885]: segfault at fe1a641 ip 00005613a159eb5d sp 00007fb589f7ad00 error 4 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863393] Code: ef c9 f2 0f 5c 14 24 66 0f ef f6 85 d2 0f 48 d6 8d 75 ff 39 cd 0f 4e ce 48 8b 73 10 48 63 d2 48 63 c9 48 8d 14 96 48 8d 0c 8e <f3> 0f 5a 09 f2 0f 58 4c > Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863400] traps: ThreadIOWorker[390898] general protection fault ip:5613a159ebe0 sp:7fb58376dd00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863410] traps: ThreadIOWorker[390890] general protection fault ip:5613a159ebe0 sp:7fb587775d00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863450] traps: ThreadIOWorker[390901] general protection fault ip:5613a159eb5d sp:7fb581f6ad00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863478] traps: ThreadIOWorker[390875] general protection fault ip:5613a159eb5d sp:7fb58ef84d00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863499] traps: ThreadIOWorker[390905] general protection fault ip:5613a159eb5d sp:7fb57ff66d00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863542] traps: ThreadIOWorker[390884] general protection fault ip:5613a159eb5d sp:7fb58a77bd00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863566] traps: ThreadIOWorker[390886] general protection fault ip:5613a159ebe0 sp:7fb589779d00 error:0 Mar 21 10:29:12 mcrmgnc01 kernel: [11207764.863579] traps: ThreadIOWorker[390881] general protection fault ip:5613a159eb5d sp:7fb58bf7ed00 error:0 Kind regards, Rob Bartlett Research IT Officer University of Exeter MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be http://secure-web.cisco.com/1yutBkt5hXhgLKg69R5m3lB60Vj9CohXvvYObck-pTgGNEaDA2-3a9UaPwvspO5Su0Ul-G0w_teCqMbsv_um9Z5yBX6vK6k7uaydp2-NH642Od-uJRrVkPKMGmaGKKquSi7Lnt1uGd5DcGoISePP0PYKv-8ZndKX8EZqpgdC-i6_y4xKPABD9i_Z0KURH2C7--Tf42G8KDjjjIFxRp5xPHb7dyCS5MD-8VDKAgT_DNukIo4g9KsebNEMom57Z5_H-H0qgkZLBSLQHP_omhmzpiy2DzpDl0Cwk0fprWCkLosa9Hsub3F3P5ekTEhuQXStD/http%3A%2F%2Fwww.exeter.ac.uk<https://secure-web.cisco.com/1ZDWryhHgOuOlmbzRIJAkA9A56LNPhiK4TzPMmLvQmZPekxvaRNgNTKBUrk1i3K1zU-izNnBmvcK034LUfdRVrr6ZoRD01YjTRuCuDTuB1B1DIbmZMIUYZz3-XsUZjICHqoNjgPa3uwdYxMSdtouHonm0AeGohGvY4KHJ7B-MG9H43UKNl2a8vi28DQlYl-aQCbhgdaD7k8CDlGtr73D46OWeMZdQVloE7XqrP4v2qOkzwiuLCLVJQKKhkPrBj8473F0CR7QemZ9Jg8LA_eJsG_4MQcUhY4YGZLIvj4jeFb3tqP5zjep0xVp_ioygplFG/https%3A%2F%2Feur03.safelinks.protection.outlook.com%2F%3Furl%3Dhttps%253A%252F%252Fsecure-web.cisco.com%252F1NQ2zM67bNnfilf7KmYhsWCSnT3aZeW64usyHYR2Ivs-SBNRx2lTktVbSVzAwV6568W0Jcbw2zXjwSZncqczE1Skh1jgRvvGgxH0VJAsfkpl1gy8RDQOQ3pZ9lmINvxak12OLrf02vKIYRq3XSjcv_e9WvgXdrdhu-cT1BKY3UviPQHYOIWcYPwhKd9dAkA8fBLJNtMNjlGaVT-dtkd4JrTa0LrHxhupbnMFOENigN3ohIkPMsI46DG0DmqzyRmaf7o0p1ZX22pCtgNVniFzH6x4s4g0899kNYWMp0b3YOigM6uix9s6RiWw7Suki2d2QxKGGD9tYrdEC-I_ic6CDxw%252Fhttps%25253A%25252F%25252Feur03.safelinks.protection.outlook.com%25252F%25253Furl%25253Dhttp%2525253A%2525252F%2525252Fwww.exeter.ac.uk%2525252F%252526data%25253D05%2525257C01%2525257Cr.bartlett2%25252540exeter.ac.uk%2525257Cdefb78c58a5e401f9f5708db2a118aa3%2525257C912a5d77fb984eeeaf321334d8f04a53%2525257C0%2525257C0%2525257C638150027050095991%2525257CUnknown%2525257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%2525253D%2525257C3000%2525257C%2525257C%2525257C%252526sdata%25253D6T%2525252FQVZCaN%2525252BFng3rn9s4bIy9saHBpG7X6yti4TUEGQR8%2525253D%252526reserved%25253D0%26data%3D05%257C01%257Cr.bartlett2%2540exeter.ac.uk%257C627ae2f2d00e4535c78d08db2a3dc38f%257C912a5d77fb984eeeaf321334d8f04a53%257C0%257C0%257C638150216985257453%257CUnknown%257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%253D%257C3000%257C%257C%257C%26sdata%3D4pY%252BXIoGc6cwKERd0I9uX97hwT9nrRFqcZhvUVhIhj8%253D%26reserved%3D0> Laver Building, North Park Road, Exeter, EX4 4QE [http://secure-web.cisco.com/119YVCp1hrsEYkFhq1AwKWgmIcpNnRFPYcQjZ0-xjjxoXAf6UcUYwpLuh88juFgvzCjlQx1E2e5B_ccRw64OO8yofsPIRbtZ9ZtKGOy2pgw20hVbt9xCTUoIk6utGG1K6G_K_-rK0-NG2vdkGkYYSscwlwtxK58zuaMQqmnsUVY_32xHpaU2rsvfIVQHYxnqqPODe0gUXaadMq3BevHC1xXp2hNDNDNnZZZ5mLG7HjLVFPagt_3mjNY2e3_ul7sZN3crwabzwKP7hKWiOynm55ZU0THvS4Uh1u5kl04SCAzsC4JEubOuz7h2C3qB-xqCHIAEnDgpTIAGHvtIWYV5dWg/http%3A%2F%2Fwww.exeter.ac.uk%2Fcodebox%2Femail-sig%2Fstaff-sig.gif] This email and any attachment may contain information that is confidential, privileged, or subject to copyright, and which may be exempt from disclosure under applicable legislation. It is intended for the addressee only. If you received this message in error, please let me know and delete the email and any attachments immediately. The University will not accept responsibility for the accuracy/completeness of this email and its attachments. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://secure-web.cisco.com/1OfFp0XSmtonXR32FTOLAjojE7RoVsDygrpoCWRMI6lkKCScWEwJzhU0vz5p-XDkRXJE-f3t9y2CrAHo9BkggQSA5UHAKBfwQwUmaqFmwkzngQ1KEWOe-rPxB7_NtbB7n0o-J04N3AM3EUxW2Q9X6OJQCwiBnRNObifpmbx7TUcPh5flp0pIMIe3ok549j2Aniu8St6inv8OgQrFYK75zIcFw8mT7jA0H9HoTUCecnJqjM8j5r-lOvBDKNxBqujqWMinVXkMgGz8qgVq8CHQyNx81uIr4xyvxvPTiiXfYgrdIcdu-55Ar2OTcxtmhlxYh/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer<https://secure-web.cisco.com/1d5H3T9IJdyyz1u4bRXirreQSzR6y69S-uxf6uJreLBQfSO05o90NnyM2euzzsr4QOR-InRdkdc0_1U4PTrYC7UBtY2KC5Ndyz_cSgwSJJgA_fsiTpWHrXCQbuGq1sl7PgnHX6TqQnvWH8A0k7MFooEarE1sPvCyB5kyQuBJCNhYBHq-u6fshaRIP1a3BTHHpQf2LVVXJGn447mTnb1KrFyFmiL9OqswiuvyjW-cN4XczqofQG_0C6sQXF6Ix9OgVtvV5WPl7MBSTFDfAQpP9vV2uFfOAnhaQmClmdVTDbMg2TnECia9xnDIIxC3NW5rU/https%3A%2F%2Feur03.safelinks.protection.outlook.com%2F%3Furl%3Dhttps%253A%252F%252Fsecure-web.cisco.com%252F10jrUgLjpsj14JOEBUVlZBCyFCsYKnP36bt5CAECqlM5OUuK6T_s2klN7-s_HjtunItXUKmtXYjTa1_sE8y7T11xKXzeLJHC_e8p1piHffMTuQgv1tOHUXeDEXdfATyZ9ZOLq9uobHs6p1eoF53vEatLHe2ZdzeViZllOoSFRvCa3bA5olxYMtobeUOlbWZr8mDS9QUtiePTpIpY3kMmOww36KR2rmKkyKiQtt6FKKn1BTfbtlWkmFdJ8g4kDFjwpicWlzKOJn2xxCcOqzN_jzSpg5jDJknAxxvZn3KXvwYzUFau2uw0IEiRD_8r2zBMvsH7KGIcosxMcAn_bov3dAQ%252Fhttps%25253A%25252F%25252Feur03.safelinks.protection.outlook.com%25252F%25253Furl%25253Dhttps%2525253A%2525252F%2525252Fmail.nmr.mgh.harvard.edu%2525252Fmailman%2525252Flistinfo%2525252Ffreesurfer%252526data%25253D05%2525257C01%2525257Cr.bartlett2%25252540exeter.ac.uk%2525257Cdefb78c58a5e401f9f5708db2a118aa3%2525257C912a5d77fb984eeeaf321334d8f04a53%2525257C0%2525257C0%2525257C638150027050095991%2525257CUnknown%2525257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%2525253D%2525257C3000%2525257C%2525257C%2525257C%252526sdata%25253D2du11mAINebbZn%2525252Bs7LtYWdeApZwLXGLfS0ZKjALS%2525252B8Y%2525253D%252526reserved%25253D0%26data%3D05%257C01%257Cr.bartlett2%2540exeter.ac.uk%257C627ae2f2d00e4535c78d08db2a3dc38f%257C912a5d77fb984eeeaf321334d8f04a53%257C0%257C0%257C638150216985257453%257CUnknown%257CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%253D%257C3000%257C%257C%257C%26sdata%3DiPqFFzgeA05mEMCgkBsMGdJpR0yjFIU0wU0lFC886bA%253D%26reserved%3D0>
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