numpy.linalg.LinAlgError: Matrix is not positive definite

[buhsratayyaba]

what is this error about? I am getting this error while performing resampling over skull-striped MRI. the code is following:

import monai
import numpy as np
from monai.transforms import LoadImage, Spacing, Compose

Set the file path to your medical image

image_file_path = r"D:\dataset\01_brainMaskedByDL.nii"

Use MONAI's LoadImage transform to load the image

loader = LoadImage(image_only=True)
image = loader(image_file_path)

Print information about the original image

print("Original image shape:", image.shape)

print("Original image spacing:", loader.metadata["spacing"])

Set the target spacing for reslicing along the axial dimension

target_spacing = (1.5, 1.5, 3.0) # Adjust these values according to your requirements

Use MONAI's Spacing transform for reslicing

reslicer = Spacing(target_spacing, mode="bilinear")
resliced_image = reslicer(image)

Print information about the resliced image

print("Resliced image shape:", resliced_image.shape)

print("Resliced image spacing:", reslicer.metadata["spacing"])

Optionally, you can visualize the original and resliced images

import matplotlib.pyplot as plt

Plot a single slice from the axial dimension for both the original and resliced images

original_slice = image[image.shape[0] // 2, :, :]
resliced_slice = resliced_image[resliced_image.shape[0] // 2, :, :]

plt.subplot(1, 2, 1)
plt.imshow(original_slice, cmap="gray")
plt.title("Original Image (Axial Slice)")

plt.subplot(1, 2, 2)
plt.imshow(resliced_slice, cmap="gray")
plt.title("Resliced Image (Axial Slice)")

plt.show()