are you just running gcut or all of recon-all? If all of recon-all,
please send the recon-all.log file
On 12/2/2021 2:43 PM, Vishal Mohanty wrote:
External Email - Use Caution
Hi
This is Vishal Mohanty, a Research Assistant at the CNS Lab
<https://secure-web.cisco.com/15W4gGDirofYO8-hxBJZzt-0Z-M9nlsafkwxgoE1yBXcR-yRlpi4hSdJy1Rmabv3CgdHVnnVbW4HOgzr58sGmHpdvzKHyuauJORmQfXplg2hzvu1LZTBlXu1II7iZPKUsfRW5vvjtsnhq_IOlApnYs9tUrlKIiLbP-0WMhESr5HmRsaK9Cyt8rXS2kYTvEZHd4SjHX6RDQgV1VdJ9jPs6wlF9addGZ8LDyTmipJ62kaLJ_B_Li-7hzloE_jMFxWqCL0NOe8EXqFqxqqXru4g33l5sqh0KfC1XOWLinkm65w_S0SRbJB3IriH8nP34c3-y/https%3A%2F%2Fcnslab.stanford.edu%2F>
at Stanford which is headed by Prof. Kilian Pohl
<http://secure-web.cisco.com/1SZ4eEoYf_E7omrj4INdi5GjmRCw5BV-qQfn2PUzBkhAmhzg9o1EOsGNK10NZRw5SfnL5bJkYZTQTHkzenh--uXslAATvtFTmJ7NjUOLDiJgSRVSzTnG2joPBK5ngvrDs2nDg10edlZPsdBg8V2evhOrlAj3Q8Y5a0Icw4wH7DIGgCTlSngFLkK8lmTLGTZYNpQgHETNcLNfQRaksY2HB0VRu5tPFk6EkeR6apvPAEghUfHILOUPInGPn3UEANagA637xp9HAtEEnxJ5HWTuwmBKT9wxePBfm6qL0NgWGhNIu2oUNzc8odvM5B4ZVmJgU/http%3A%2F%2Fcnslab.stanford.edu%2Fpersonal%2Fkilian-pohl.html>.
We are running Freesurfer commands for processing of our MRI data on
Sherlock
<https://secure-web.cisco.com/1ELFOu5r8C0zuhwJthCGAIpaL-g9geTHv3j06pTTPK06DKUjl_FsABCbwv_YEB4NiLvPf5WaIymCbVGgy_N3zr1m0bbHiNHuZq1bQLIxhcthpMYEvxKVOI7F4PKk__J43FiQjajODDvS-plsHLwSjaI2vOA4RHGzU8KzuWGfhUG79R_7PEQjfaRe-fzF4cN41C4kadb7hcxPD6pusNG3Ciuq5HM_UH1n1HzwAtyKIDAB4f4PynteNw0qdQAIRDg7Ha_-vHwFAnwduc3MwdAT0tmsVCxmifNpM3GnYRbr4YMi-9wBCy1llPqh_XXxN3OlV/https%3A%2F%2Fwww.sherlock.stanford.edu%2F>
which is the HPC cluster at Stanford. We are seeing some errors in
running *mri_gcut* of the type:
CREATE
LAB_S01450/standard/20161207_2762_12072016/structural/original/stripped/voting/gcut_t1b_brain.nii.gz
========================================================================
error: No such file or directory
error: Could not set locale^@
I'm attaching the full log file. Could you please help me understand
what's the issue and how to fix it. Do let me know what other
information would be needed from my end.
Thanks and Regards
Vishal Mohanty
MS CS Candidate (2023)
Stanford University
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