marianocabezas / data_manipulation Goto Github PK

Hi
Getting Error

(base) D:\newwork\marianocabezas\challenges2018>python test_brats2018.py
Using TensorFlow backend.
�[36m[11:49:32] �[32mTesting the Unet�[0m
2018-11-08 11:49:33.102650: I tensorflow/core/platform/cpu_feature_guard.cc:141] Your CPU supports instructions that this TensorFlow binary was not compiled to use: AVX
2018-11-08 11:49:33.108934: I tensorflow/core/common_runtime/process_util.cc:69] Creating new thread pool with default inter op setting: 8. Tune using inter_op_parallelism_threads for best performance.
- Loading x
Traceback (most recent call last):
File "test_brats2018.py", line 87, in
main()
File "test_brats2018.py", line 47, in main
verbose=True,
File "D:\newwork\marianocabezas\challenges2018\data_creation.py", line 106, in get_data
x = filter(lambda z: z.any(), get_patches_list(image_names, list_of_centers, patch_size))
File "D:\newwork\marianocabezas\challenges2018\data_creation.py", line 86, in get_patches_list
for image_names, centers in zip(list_of_image_names, centers_list) if centers
File "D:\newwork\marianocabezas\challenges2018\data_creation.py", line 86, in
for image_names, centers in zip(list_of_image_names, centers_list) if centers
File "C:\ProgramData\Miniconda3\lib\site-packages\numpy\core\shape_base.py", line 347, in stack
arrays = [asanyarray(arr) for arr in arrays]
File "C:\ProgramData\Miniconda3\lib\site-packages\numpy\core\shape_base.py", line 347, in
arrays = [asanyarray(arr) for arr in arrays]
File "D:\newwork\marianocabezas\challenges2018\data_creation.py", line 81, in
lambda image: get_patches(norm(np.asarray(load_nii(image).dataobj)), centers, size),
File "D:\newwork\marianocabezas\challenges2018\data_manipulation\generate_features.py", line 111, in get_patches
new_image = np.pad(image, padding, mode='constant', constant_values=0)
File "C:\ProgramData\Miniconda3\lib\site-packages\numpy\lib\arraypad.py", line 1298, in pad
raise TypeError('pad_width must be of integral type.')
TypeError: pad_width must be of integral type.

I get this error after a few minutes.

My python:
(base) D:\newwork\marianocabezas\challenges2018>python
Python 3.6.6 |Anaconda, Inc.| (default, Jun 28 2018, 11:27:44) [MSC v.1900 64 bit (AMD64)] on win32
Type "help", "copyright", "credits" or "license" for more information.