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Hello FreeSurfer Developers,

I'm attempting to recon-all a subject, but i got the following error.

Checking for (invalid) multi-frame inputs...
ERROR: input(s) cannot have multiple frames!
/home/shujirominami/freesurfer/subjects/todai_test/mri/orig/001.mgz has 4 frames

I checked mri_info, and the dimensions are 256 x 256 x 176 x 4.

I asked the radiation technologist to change the dimensions to 256 x 256 x 176, but he told me it's impossible because of the multi echo sequence.

I'd appreciate if someone help me out with this and resolve this error.

Shujiro Minami M.D., Ph.D.
Dpt. of Otolaryngology National Tokyo Medical Center
2-5-1 Higashigaoka, Meguro, Tokyo 152-8902, Japan
E-mail shujirominami@me.com

1) FreeSurfer version: freesurfer-Linux-centos6_x86_64-stable-pub-v6.0.0-2beb96c
2) Platform: Ubuntu 18.04.5 LTS (GNU/Linux 5.4.0-1034-gcp x86_64)
3) uname -a: Linux instance-1 5.4.0-1034-gcp #37~18.04.1-Ubuntu SMP Wed Jan 6 19:44:48 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux
4) recon-all.log: see attached

User: shujirominami  Machine: instance-1  Platform: Linux  PlatformVersion: 5.4.0-1034-gcp  CompilerName: GCC  CompilerVersion: 40400 
ProgramName: mri_relabel_hypointensities  ProgramArguments: -all-info  ProgramVersion: $Name: stable6 $  TimeStamp: 2021/01/27-10:28:02-GMT  BuildTimeStamp: Jan 18 2017 16:38:58  CVS: $Id: mri_relabel_hypointensities.c,v 1.13 2015/05/15 18:44:10 nicks Exp $  User: shujirominami  Machine: instance-1  Platform: Linux  PlatformVersion: 5.4.0-1034-gcp  CompilerName: GCC  CompilerVersion: 40400 
#######################################
GCADIR /usr/local/freesurfer/average
GCA RB_all_2016-05-10.vc700.gca
GCASkull RB_all_withskull_2016-05-10.vc700.gca
AvgCurvTif folding.atlas.acfb40.noaparc.i12.2016-08-02.tif
GCSDIR /usr/local/freesurfer/average
GCS DKaparc.atlas.acfb40.noaparc.i12.2016-08-02.gcs
#######################################
/home/shujirominami/freesurfer/subjects/todai_test

 mri_convert /home/shujirominami/NIFTI/todai_test.nii.gz /home/shujirominami/freesurfer/subjects/todai_test/mri/orig/001.mgz 

mri_convert.bin /home/shujirominami/NIFTI/todai_test.nii.gz /home/shujirominami/freesurfer/subjects/todai_test/mri/orig/001.mgz 
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from /home/shujirominami/NIFTI/todai_test.nii.gz...
TR=2530.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (0, -1, 0)
j_ras = (0, 0, 1)
k_ras = (1, 0, 0)
writing to /home/shujirominami/freesurfer/subjects/todai_test/mri/orig/001.mgz...
#--------------------------------------------
#@# MotionCor Wed Jan 27 10:29:57 UTC 2021
Found 1 runs
/home/shujirominami/freesurfer/subjects/todai_test/mri/orig/001.mgz
Checking for (invalid) multi-frame inputs...
ERROR: input(s) cannot have multiple frames!
/home/shujirominami/freesurfer/subjects/todai_test/mri/orig/001.mgz has 4 frames
If this is a multi-frame MEMPRAGE image,
use mri_concat --rms to combine echo frames.
Linux instance-1 5.4.0-1034-gcp #37~18.04.1-Ubuntu SMP Wed Jan 6 19:44:48 UTC 2021 x86_64 x86_64 x86_64 GNU/Linux

recon-all -s todai_test exited with ERRORS at Wed Jan 27 10:30:01 UTC 2021

To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

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