External Email - Use Caution
Dear Bruce,
I have briefly read a article about multiple frames DICOM. As my understanding, it can reduce the amount of data repetition and decreases the time required to read and parse DICOM studies.
Yes, I want to use
T1-weighted
series as input. I have converted a DICOM series, which the name of the series is "SAG T1 MPRAGE (INC UPPERCX AS MUCH)", to Nifti format. When I
input the Nifti T1 file. The multiple frames
error occurred.
Below are log record:
---------------------------------------------------------------------------------------
PFCs-MacBook-Pro:T1 PFC$ recon-all -all -i 101.nii -s 101
Subject Stamp: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c
Current Stamp: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c
INFO: SUBJECTS_DIR is /Users/PFC/SPM12/T1
Actual FREESURFER_HOME /Applications/freesurfer
Darwin PFCs-MacBook-Pro.local 18.7.0 Darwin Kernel Version 18.7.0: Mon May 3 20:41:19 PDT 2021; root:xnu-4903.278.68~1/RELEASE_X86_64 x86_64
/Users/PFC/SPM12/T1/101
\n mri_convert /Users/PFC/SPM12/T1/101.nii /Users/PFC/SPM12/T1/101/mri/orig/001.mgz \n
mri_convert.bin /Users/PFC/SPM12/T1/101.nii /Users/PFC/SPM12/T1/101/mri/orig/001.mgz
$Id: mri_convert.c,v 1.226 2016/02/26 16:15:24 mreuter Exp $
reading from /Users/PFC/SPM12/T1/101.nii...
TR=7.24, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (0.135649, -0.98975, -0.0446586)
j_ras = (0.0870012, -0.0330015, 0.995661)
k_ras = (0.98693, 0.138946, -0.0816328)
writing to /Users/PFC/SPM12/T1/101/mri/orig/001.mgz...
#--------------------------------------------
#@# MotionCor Sat Jul 31 18:01:46 HKT 2021
Found 1 runs
/Users/PFC/SPM12/T1/101/mri/orig/001.mgz
Checking for (invalid) multi-frame inputs...
ERROR: input(s) cannot have multiple frames!
/Users/PFC/SPM12/T1/101/mri/orig/001.mgz has 2 frames
Darwin PFCs-MacBook-Pro.local 18.7.0 Darwin Kernel Version 18.7.0: Mon May 3 20:41:19 PDT 2021; root:xnu-4903.278.68~1/RELEASE_X86_64 x86_64
recon-all -s 101 exited with ERRORS at Sat Jul 31 18:01:48 HKT 2021
For more details, see the log file /Users/PFC/SPM12/T1/101/scripts/recon-all.log
To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Regards
Frank
Hi Frank
Do you know why there are multiple frames? What kind of MRI acquisition are you trying to use as input? Most standard T1-weighted series only have a single frame
Bruce
From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu>
On Behalf Of Frank Chau
Sent: Monday, August 2, 2021 3:49 PM
To: freesurfer@nmr.mgh.harvard.edu
Cc: Jacky Lee <cylee10@gmail.com>; Jacky LEE <lcy339@ha.org.hk>
Subject: [Freesurfer] ERROR- input(s) cannot have multiple frames on Recon-all
External Email - Use Caution
Dear Freesurfer experts,
I tried to run Recon-all on a T1 series .nii file. A error occurred: "ERROR: input(s) cannot have multiple frames!". I tried to google the method of converting multi frame dicom to single frame dicom. I found software
of "dicom2" stated that it could perform the conversion but their manual guide are too hard for me to understand. May I know there are any easier method to perform the conversion? Thank you.
Regards
Frank
---------------------------
FRANK C Y CHAU
Research assistant
Division of Neurology
Department of Medicine
Tel: +852 6340 2553
Fax: 2872 5828
E-mail : cyfrank@hku.hk
Rm 304, 3/F, New Clinical building, Queen Mary Hospital, 102 Pokfulam Road, Hong Kong