I am receiving the error message:
numpy.AxisError: axis 4 is out of bounds for array of dimension 4
When I simply attempt to visualise my converted raw metabolite spectra (METAB_RAW_1.nii.gz) using:
mrs_tools vis METAB_RAW_1.nii.gz
Please advise on how to fix this.
Sorry you’ve ran into an error. Could you tell me what
mrs_tools info METAB_RAW_1.nii.gz gives you?
Thanks for the response. Apologies I should’ve added this in the original message.
mrs_tools info METAB_RAW_1.nii.gz gives me:
Read file METAB_RAW_1.nii.gz (/Users/joephilby/Documents/NeuRA/Spec Programmes/fsl_mrs-master/PRESS_0.8x0.8x0.8-6_1-act:ref).
NIfTI-MRS version 0.7
Data shape (1, 1, 1, 1024, 1)
Dimension tags: [‘DIM_DYN’, None, None]
Spectrometer Frequency: 127.758832 MHz
Dwelltime (Bandwidth): 5.000E-04s (2000 Hz)
Field Strength: 3.00 T
This arises from that extra singleton dimension on the data
Data shape (1, 1, 1, 1024, 1).
This is something I need to clean up, but for now there might be a work around. How are you converting the data?
I am using the spec2nii tool to convert my Philips SDAT file into a .nii.gz file so I can use it in the FSL-MRS software.