collageradiomics requires calling import twice

[robtoth]

System Info

• Windows 10 64-bit
• Python 3.8.2
• Mahotas 1.4.10

Error

>>> import collageradiomics
Could not import submodules (exact error was: DLL load failed while importing _bbox: The specified module could not be found.).

There are many reasons for this error the most common one is that you have
either not built the packages or have built (using `python setup.py build`) or
installed them (using `python setup.py install`) and then proceeded to test
mahotas **without changing the current directory**.

Try installing and then changing to another directory before importing mahotas.
>>> import collageradiomics
>>>

Diagnosis

The problem seems to be with the Mahotas import, since calling import mahotas gives the same error (and has the same resolution).

The output of the dir command shows a limited install of Mahotas:

>>> dir(mahotas)
['', 'all', 'builtins', 'cached', 'doc', 'file', 'loader', 'name', 'package', 'path', 'spec_', 'citation', 'citation_text', 'e', 'short_citation_text', 'stderr', 'sys']

The expected output is:

>>> dir(mahotas)
['__all__', '__builtins__', '__cached__', '__doc__', '__file__', '__loader__', '__name__', '__package__', '__path__', '__spec__', '__version__', '_bbox', '_center_of_mass', '_convex', '_convolve', '_distance', '_filters', '_histogram', '_labeled', '_morph', 'as_rgb', 'bbox', 'border', 'borders', 'bwperim', 'cdilate', 'center_of_mass', 'cerode', 'citation', 'citation_text', 'close', 'close_holes', 'colors', 'convolve', 'convolve1d', 'croptobbox', 'cwatershed', 'daubechies', 'demos', 'dilate', 'disk', 'distance', 'dog', 'edge', 'erode', 'euler', 'features', 'find', 'fullhistogram', 'gaussian_filter', 'gaussian_filter1d', 'get_structuring_elem', 'haar', 'histogram', 'hitmiss', 'idaubechies', 'ihaar', 'imread', 'imresize', 'imsave', 'internal', 'io', 'label', 'labeled', 'labeled_sum', 'laplacian_2D', 'locmax', 'locmin', 'mahotas_version', 'majority_filter', 'mean_filter', 'median_filter', 'moments', 'morph', 'open', 'otsu', 'overlay', 'polygon', 'rank_filter', 'rc', 'regmax', 'regmin', 'resize', 'resize_to', 'segmentation', 'short_citation_text', 'sobel', 'stretch', 'stretch_rgb', 'template_match', 'test', 'tests', 'thin', 'thresholding', 'wavelet_center', 'wavelet_decenter']

The output of its version command also is failing:

>>> print(mahotas.mahotas_version._version_)
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
AttributeError: module 'mahotas' has no attribute 'mahotas_version'

The expected output is:

>>> print(mahotas.mahotas_version.__version__)
1.4.10

Overall, it seems that only a limited version of Mahotas, without its modules, was installed when pip install collageradiomics was called.

Potential Resolution

calling import again seems to resolve the issue.

>>> import collageradiomics; import collageradiomics

[nathanhillyer]

Will re-open if we receive more reports-- appears fixed for now.