Hello Antti,
It may be possible that you’ve run out of space and the full volumes were not
written. You can check by using: df -h /path/to/file
Similarly, you can run mri_info on the input files to see how many frames there
are and where the discrepancy between the volumes set to x and y are arising.
Best,
Matt
From: freesurfer-boun...@nmr.mgh.harvard.edu
<freesurfer-boun...@nmr.mgh.harvard.edu>
Date: Saturday, January 9, 2021 at 9:06 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] dt_recon error: dimension mismatch between y and X
External Email - Use Caution
Dear FS experts,
I’m attempting to run dt_recon on my own DWI DICOM file with registration to
corresponding structural data, as described in FS diffusion tutorial
(MailScanner has detected a possible fraud attempt from "secure-web.cisco.com"
claiming to be
https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/DiffusionV6.0<https://secure-web.cisco.com/1zJ4MwZjBaZucnMqD07gGW81VRhJOuT2j8dl2ILpEXoVY03-Gt9rt0ZuiEYcP2yVe5O2g1zNh0QohzvsjRUbksy7buOnBgwp6xGeDgIi8lITcB6n4WK1aY_txDjItVwJEpBvgeZojTWziZ8-NLiamr-dV3lFnWVCvRmJq16D-Av42R15tqFdYYxzgMfGvGKQTSXh1N4-liUveNX58tqS9xPj6xI7XIWvWPctTpzEMxgPfKFkBGGPfBeoyZqMVEnlmsSTDkgt0uG9jl13kDKmOIA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FDiffusionV6.0>)
I’m using FS version freesurfer-darwin-macOS-7.1.1-20200811-8b40551 on Mac
(MacOS Big Sur v. 11.1). I’ve already succesfully run recon-all on the T1
scan. However, when I’m running the dt_recon, I’m getting the following error:
Command I’m using: dt_recon --i
$TUTORIAL_DIR/$subj/orig/DTI/S142783/NIFD_1_S_0001_MR_dti_WIP_b2000_64dir__br_raw_20120306104435815_50_S142783_I288323.dcm
--s $subj --o $TUTORIAL_DIR/$subj/dtrecon
ERROR: dimension mismatch between y and X.
y has 65 inputs, X has 66 rows.
I’ve searched the archive, however not finding any similar issues. Does anyone
have an idea how to solve this error? Attached is the dt_recon.log.
Best,
Antti Cajanus
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