Re: [Freesurfer] mkheadsurf error: mris_smooth and mris_inflate synthesized bizarre output paths
External Email - Use Caution
Hello, I am also trying to use mkheadsurf and getting the same errors described in the January topic by user Yong-Jun Lin. https://secure-web.cisco.com/1gWrCRE26r6WP8WhRpdFnJDHSFKaCpEOt6y_UEivpQG5fGv... 1. The first error message is "subjdir: Undefined variable.". I followed the thread and also manually defined subjdir 2. Same problems with mris_smooth -n 10 -b /.. resulting in error: MRISwriteCurvature: could not open
lh./...
and
mris_inflate -n 10 -sulc /...
resulting in error: MRISwriteCurvature: could not open /...
Lastly, I followed the response from Douglas N. Greve https://secure-web.cisco.com/1ahbUvtJEJ2YIzAb-v2Vq6dQ8vxhI4tzwwkf_H3Yz4GyLGM7YvV79qByQvW-Kpj0lueIrI67DwfRrcgmTtD9jyK7SHOSxPScms3rWbYgKXx0gVxlWTJGfbgLxIY60CqFq6wtKL5NiCf7m5cYmGxLmtdlstJhehCBfwV-jHzPS4K_mz_LPJ_EjGu9y6BNk-BkZgfRLpTeCVISW1GbVmnRhiCVMukqLVSLal_Yf0Thby0a2tXYTYAVNzaYUsOZyZmw76AXWbWVirtp-NbZYkwVamJt8oi8oXcEPsjjCe8ES6cuQ2JcZ4c4DvGm9KH65Uz7Q/https%3A%2F%2Fwww.mail-archive.com%2Fsearch%3Fl%3Dfreesurfer%40nmr.mgh.harvard.edu%26q%3Dfrom%3A%2522Douglas%2BN.%2BGreve%2522 to try the new mkheadsurf. When I tried that, the subjdir error went away, but the output paths errors with the mris_smooth and mris_inflate persisted. The end result output files that I need were created, however, so I can go on with my work.
But I thought I'd reply to the list and let you know that I'm also getting these path errors.
Thanks for any help, Megan
MEG Technician Pronouns: she/her The Mind Research Network 1101 Yale Blvd. NE Albuquerque, New Mexico 87106
I recently made a lot of changes to mkheadsurf. Can you download the dev version and try it?
On 4/5/2022 4:24 PM, Megan Schendel wrote:
External Email - Use Caution
Hello, I am also trying to use mkheadsurf and getting the same errors described in the January topic by user Yong-Jun Lin. *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg71781.html https://secure-web.cisco.com/1gWrCRE26r6WP8WhRpdFnJDHSFKaCpEOt6y_UEivpQG5fGvRy3zcw4ehLwKt3CPDelcJs4tkIsZm2-6KQ30txqRCdiaOdDtzMIxUH5BWv9e_t-2t0cqsvVYZsI2e1Epyh0SDCjg3ljg-zsEt4Ee9uv4y4btxkxt19IuRFs4oyw2jLRPX-YZhr5VglfbcZ-Wdh7TbC2e7DfXrrcmafGiQyyu5ghy74dMbaPG_0QaNOIYG-XRfTQqaqO_YqnqOf66KXdBdLdyHGuP1a9bC3mlLtolhdi2R8VB_smf569LRSGYSQRh-yxBcz6qf760vOIK8S/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg71781.html
- The first error message is "subjdir: Undefined variable.".
I followed the thread and also manually defined subjdir 2. Same problems with mris_smooth -n 10 -b /.. resulting in error: MRISwriteCurvature: could not open lh./... and mris_inflate -n 10 -sulc /... resulting in error: MRISwriteCurvature: could not open /... Lastly, I followed the response from Douglas N. Greve https://secure-web.cisco.com/1ahbUvtJEJ2YIzAb-v2Vq6dQ8vxhI4tzwwkf_H3Yz4GyLGM7YvV79qByQvW-Kpj0lueIrI67DwfRrcgmTtD9jyK7SHOSxPScms3rWbYgKXx0gVxlWTJGfbgLxIY60CqFq6wtKL5NiCf7m5cYmGxLmtdlstJhehCBfwV-jHzPS4K_mz_LPJ_EjGu9y6BNk-BkZgfRLpTeCVISW1GbVmnRhiCVMukqLVSLal_Yf0Thby0a2tXYTYAVNzaYUsOZyZmw76AXWbWVirtp-NbZYkwVamJt8oi8oXcEPsjjCe8ES6cuQ2JcZ4c4DvGm9KH65Uz7Q/https%3A%2F%2Fwww.mail-archive.com%2Fsearch%3Fl%3Dfreesurfer%40nmr.mgh.harvard.edu%26q%3Dfrom%3A%2522Douglas%2BN.%2BGreve%2522to try the new mkheadsurf. When I tried that, the subjdir error went away, but the output paths errors with the mris_smooth and mris_inflate persisted. The end result output files that I need were created, however, so I can go on with my work. But I thought I'd reply to the list and let you know that I'm also getting these path errors. Thanks for any help, Megan MEG Technician Pronouns: she/her The Mind Research Network 1101 Yale Blvd. NE Albuquerque, New Mexico 87106
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 -
Megan Schendel