External Email - Use Caution Hi all - just wondering if any workaround had been identified for this error. I'm reattaching the recon-all.log in case it's helpful
On Wed, Mar 19, 2025 at 9:51 AM Jeffrey Spielberg <j...@udel.edu> wrote: > Yup - here you go > > On Wed, Mar 19, 2025 at 9:14 AM Jeffrey Spielberg <j...@udel.edu> wrote: > >> Hello, >> >> I'm running Freesurfer 8.0.0 on a Rocky machine and run into an error >> when I use the -nonuintensitycor flag. The same image finels run perfectly >> fine without that flag, but with the flag I get this error: >> >> #@# Intensity Normalization Tue Mar 18 15:22:23 EDT 2025 >> /s3l/fs_subjects/RAD_2100A/mri >> >> >> mri_normalize -g 1 -seed 1234 -mprage nu.mgz T1.mgz >> >> >> using max gradient = 1.000 >> setting seed for random number genererator to 1234 >> assuming input volume is MGH (Van der Kouwe) MP-RAGE >> reading mri_src from nu.mgz... >> error: mghRead(/s3l/fs_subjects/RAD_2100A/mri/nu.mgz, -1): could not open >> file^@ >> error: mri_normalize: could not open source file nu.mgz^@ >> Command exited with non-zero status 255 >> >> >> >> This looks to be a bug - any ideas for a workaround? Thanks! >> >> >> -- >> Jeffrey M. Spielberg, Ph.D. >> Associate Professor, Clinical Science >> Department of Psychological and Brain Sciences >> University of Delaware, Newark, DE 19716 >> >> Office: 344 Building X >> Lab: Suite 302 Building X >> Email: j...@udel.edu >> Web: >> http://secure-web.cisco.com/1c7gNBiWPza-tK01Rxp8-dexlnxYXn58n_wXuaxhJHyDyscBfeVNphJ2khHakRBVn55HB8lozl4f1onT5RkLOD7_zJT2nWY_j3YdM2zT1zEEavG15vwxSJH7TGaGHb-9pHoKf10sy6doti6m1cbcJ6DMdTreahxXtwAFNsXb0ycoDx57aptMvps_9RemGa2R8KjbEGHsNxwCSSxk74t5ByV9BH9yE2YEsKKLQg1OQwdrbdvh_MYFiHEQVUpr-uEb7Ro8I4jDVaIMEZAmZWzqUXlTZWllMVNGm3Z86du1py62Ae9ySatTUhjjmxE9Q0qu84R0fIUDhj_OjVvhF4w2Vlw/http%3A%2F%2Fsites.udel.edu%2Fjmsp%2F >> Personal Zoom: >> https://secure-web.cisco.com/1NpRlEvsk1EQO7rF3jeEuLrU30WoIiXEiDJRSVX-EbLkt2pFEmx_vIwTlysTnXWEEDj2mUORVOQHGfIej6Y5Pnq5P3BUksAMx1XTbzJvhdJ-WqA64afeHYjQa2G7qtHPVHMTdzksMrBovAFS0JEMk67jYf44-9oUVpdSELv3zcjBLtauby6FRVn1eU6fkitZh0AllvR7CK7vWzyUqJQ4ifREDZDEZfWn8iGbzi05MOJzReXUMuCeKjXzUH-5lhJ8g8Ahh7gWLfUxUj9DsdeSHTrhn4bTRzrubrQ-wdqVCKwp4l4pQitcnP35Ee_bFBuPPb6eyCFoGBprIem1iNnTLiQ/https%3A%2F%2Fudel.zoom.us%2Fj%2F9704489599 >> >> Please be aware that e-mail communication can be intercepted >> in transmission or misdirected. Please consider communicating any >> sensitive information by telephone, fax, or mail. The information contained >> in this message may be privileged and confidential. If you are NOT the >> intended recipient, please notify the sender immediately and destroy this >> message. >> > > > -- > Jeffrey M. Spielberg, Ph.D. > Associate Professor, Clinical Science > Department of Psychological and Brain Sciences > University of Delaware, Newark, DE 19716 > > Office: 344 Building X > Lab: Suite 302 Building X > Email: j...@udel.edu > Web: > http://secure-web.cisco.com/1c7gNBiWPza-tK01Rxp8-dexlnxYXn58n_wXuaxhJHyDyscBfeVNphJ2khHakRBVn55HB8lozl4f1onT5RkLOD7_zJT2nWY_j3YdM2zT1zEEavG15vwxSJH7TGaGHb-9pHoKf10sy6doti6m1cbcJ6DMdTreahxXtwAFNsXb0ycoDx57aptMvps_9RemGa2R8KjbEGHsNxwCSSxk74t5ByV9BH9yE2YEsKKLQg1OQwdrbdvh_MYFiHEQVUpr-uEb7Ro8I4jDVaIMEZAmZWzqUXlTZWllMVNGm3Z86du1py62Ae9ySatTUhjjmxE9Q0qu84R0fIUDhj_OjVvhF4w2Vlw/http%3A%2F%2Fsites.udel.edu%2Fjmsp%2F > Personal Zoom: > https://secure-web.cisco.com/1NpRlEvsk1EQO7rF3jeEuLrU30WoIiXEiDJRSVX-EbLkt2pFEmx_vIwTlysTnXWEEDj2mUORVOQHGfIej6Y5Pnq5P3BUksAMx1XTbzJvhdJ-WqA64afeHYjQa2G7qtHPVHMTdzksMrBovAFS0JEMk67jYf44-9oUVpdSELv3zcjBLtauby6FRVn1eU6fkitZh0AllvR7CK7vWzyUqJQ4ifREDZDEZfWn8iGbzi05MOJzReXUMuCeKjXzUH-5lhJ8g8Ahh7gWLfUxUj9DsdeSHTrhn4bTRzrubrQ-wdqVCKwp4l4pQitcnP35Ee_bFBuPPb6eyCFoGBprIem1iNnTLiQ/https%3A%2F%2Fudel.zoom.us%2Fj%2F9704489599 > > Please be aware that e-mail communication can be intercepted > in transmission or misdirected. Please consider communicating any > sensitive information by telephone, fax, or mail. The information contained > in this message may be privileged and confidential. If you are NOT the > intended recipient, please notify the sender immediately and destroy this > message. > -- Jeffrey M. Spielberg, Ph.D. Associate Professor, Clinical Science Department of Psychological and Brain Sciences University of Delaware, Newark, DE 19716 Office: 344 Building X Lab: Suite 302 Building X Email: j...@udel.edu Web: http://secure-web.cisco.com/1c7gNBiWPza-tK01Rxp8-dexlnxYXn58n_wXuaxhJHyDyscBfeVNphJ2khHakRBVn55HB8lozl4f1onT5RkLOD7_zJT2nWY_j3YdM2zT1zEEavG15vwxSJH7TGaGHb-9pHoKf10sy6doti6m1cbcJ6DMdTreahxXtwAFNsXb0ycoDx57aptMvps_9RemGa2R8KjbEGHsNxwCSSxk74t5ByV9BH9yE2YEsKKLQg1OQwdrbdvh_MYFiHEQVUpr-uEb7Ro8I4jDVaIMEZAmZWzqUXlTZWllMVNGm3Z86du1py62Ae9ySatTUhjjmxE9Q0qu84R0fIUDhj_OjVvhF4w2Vlw/http%3A%2F%2Fsites.udel.edu%2Fjmsp%2F Personal Zoom: https://secure-web.cisco.com/1NpRlEvsk1EQO7rF3jeEuLrU30WoIiXEiDJRSVX-EbLkt2pFEmx_vIwTlysTnXWEEDj2mUORVOQHGfIej6Y5Pnq5P3BUksAMx1XTbzJvhdJ-WqA64afeHYjQa2G7qtHPVHMTdzksMrBovAFS0JEMk67jYf44-9oUVpdSELv3zcjBLtauby6FRVn1eU6fkitZh0AllvR7CK7vWzyUqJQ4ifREDZDEZfWn8iGbzi05MOJzReXUMuCeKjXzUH-5lhJ8g8Ahh7gWLfUxUj9DsdeSHTrhn4bTRzrubrQ-wdqVCKwp4l4pQitcnP35Ee_bFBuPPb6eyCFoGBprIem1iNnTLiQ/https%3A%2F%2Fudel.zoom.us%2Fj%2F9704489599 Please be aware that e-mail communication can be intercepted in transmission or misdirected. Please consider communicating any sensitive information by telephone, fax, or mail. The information contained in this message may be privileged and confidential. If you are NOT the intended recipient, please notify the sender immediately and destroy this message.
recon-all.log
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