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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://secure-web.cisco.com/1x3qv0aS51XJZ0WhLEKzibrZlVCLHeCZ6fKtPNfkMrRcbufS... ---------------------------------------------------------------------------------------
Regards
Frank
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Fischl, Bruce BFISCHL@MGH.HARVARD.EDU Sent: 03 August 2021 03:56:31 To: freesurfer@nmr.mgh.harvard.edu Cc: Jacky Lee; Jacky LEE Subject: Re: [Freesurfer] ERROR- input(s) cannot have multiple frames on Recon-all
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.hkmailto:cyfrank@hku.hk
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