def loadvol(filename):
'''
Load a volumetric array stored in a Nifti or analyze file with a specific filename.
It returns an array with the data (arr), the voxel size (voxsz) and a transformation matrix (affine).
This function is using volumeimages.
Example:
arr,voxsz,aff=loadvol('test.nii')
'''
if os.path.isfile(filename)==False:
print('File does not exist')
return [],[],[]
img = vi.load(filename)
arr = np.array(img.get_data())
voxsz = img.get_metadata().get_zooms()
aff = img.get_affine()
return arr,voxsz,aff
def loadnifti(fname,info=0):
'''
Returns two arguments
eg. arr,voxsz=loadnifti(filename)
filename should be ending in nii or nii.gz
'''
fname=fname.encode() #change from unicode
if volumeloading=='ni':
img = ni.NiftiImage(fname)
'''
problems with C1 from adam's data 256*256*40*26
'''
arr = img.asarray()
voxsz = img.getVoxDims()
if info==1:
print('Filename: ',fname)
print('Bytes: ',arr.nbytes)
print('Data type: ',arr.dtype.name)
print('Dimensions: ',arr.shape)
return arr,voxsz
elif volumeloading=='vi':
img = vi.load(fname)
arr = np.array(img.get_data())
voxsz = img.get_metadata().get_zooms()
return arr,voxsz
else:
return [],[]