Dear HCP experts:
I’m trying to compare myelin map between two groups using FSL Palm. I generated
each subject’s myelin map using the HCP pipelines scripts (e.g., PreFreeSurfer,
FreeSurfer, and PostFreeSurfer pipeline). Before running FSL Palm, I have
merged each subject myelin map using following command: wb_command
-cifti-merge.
Then, to separate a CIFTI file into GIFTI and NIFTI, I ran the following
command:
wb_command -cifti-separate data.dscalar.nii COLUMN -volume-all data_sub.nii
-metric CORTEX_LEFT data_L.func.gii -metric CORTEX_RIGHT data_R.func.gii
When I run above command, I get error message as below:
ERROR: specified file and direction does not contain any volume data
So I checked the information of both merged myelin map data and each subject
data using wb_command -file-information.
I found that the CIFTI file really does not contain any volume data (Please see
below).
Name: data.dscalar.nii
Type: Connectivity - Dense Scalar
Structure: CortexLeft CortexRight
Data Size: 4.28 Megabytes
Maps to Surface: true
Maps to Volume: false
Maps with LabelTable: false
Maps with Palette: true
All Map Palettes Equal: true
Map Interval Units: NIFTI_UNITS_UNKNOWN
Number of Maps: 18
Number of Rows: 59412
Number of Columns: 18
Volume Dim[0]: 0
Volume Dim[1]: 0
Volume Dim[2]: 0
Palette Type: Map (Unique for each map)
CIFTI Dim[0]: 18
CIFTI Dim[1]: 59412
ALONG_ROW map type: SCALARS
ALONG_COLUMN map type: BRAIN_MODELS
Has Volume Data: false
CortexLeft: 29696 out of 32492 vertices
CortexRight: 29716 out of 32492 vertices
Could anyone please explain what’s wrong with data processing?
Since I didn't see any error messages when I ran the HCP pipeline, I have no
idea why CIFTI file does not contain volume data.
Thanks in advance.
Sang-Young Kim
Postdoctoral Research Fellow
Department of Radiology, University of Pittsburgh
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