Add package: mahotas

[IsakTheHacker]

• Fixes mahotas not available #373

[mhsmith]

Thanks for the PR. To add a new package, we need a test script to verify that it works. Please do the following:

• Follow the instructions in "Testing a package" in the README.
• Push your test script to this PR.
• Post a comment saying which Python versions and ABIs you have tested.

[mhsmith]

What's the status of this PR? Are the tests passing now?

[IsakTheHacker]

It fails with this error:

2023-11-11 14:40:45.751 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  test_hitmiss (chaquopy.test.mahotas.TestMahotas) ... 
2023-11-11 14:40:45.754 22409-22409 Thread-4                com.chaquo.python.pkgtest3           W  type=1400 audit(0.0:2413): avc:  granted  { execute } for  path="/data/data/com.chaquo.python.pkgtest3/files/chaquopy/AssetFinder/requirements/chaquopy/lib/libc++_shared.so" dev="dm-40" ino=353721 scontext=u:r:untrusted_app_32:s0:c190,c256,c512,c768 tcontext=u:object_r:app_data_file:s0:c190,c256,c512,c768 tclass=file app=com.chaquo.python.pkgtest3
2023-11-11 14:40:45.754 22409-22409 Thread-4                com.chaquo.python.pkgtest3           W  type=1400 audit(0.0:2414): avc:  granted  { execute } for  path="/data/data/com.chaquo.python.pkgtest3/files/chaquopy/AssetFinder/requirements/mahotas/_bbox.so" dev="dm-40" ino=353718 scontext=u:r:untrusted_app_32:s0:c190,c256,c512,c768 tcontext=u:object_r:app_data_file:s0:c190,c256,c512,c768 tclass=file app=com.chaquo.python.pkgtest3
2023-11-11 14:40:45.910 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  RuntimeError: module compiled against API version 0x10 but this version of numpy is 0xd . Check the section C-API incompatibility at the Troubleshooting ImportError section at https://numpy.org/devdocs/user/troubleshooting-importerror.html#c-api-incompatibility for indications on how to solve this problem .
2023-11-11 14:40:45.911 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  Could not import submodules (exact error was: numpy.core.multiarray failed to import).
2023-11-11 14:40:45.911 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  
2023-11-11 14:40:45.911 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  There are many reasons for this error the most common one is that you have
2023-11-11 14:40:45.911 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  either not built the packages or have built (using `python setup.py build`) or
2023-11-11 14:40:45.912 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  installed them (using `python setup.py install`) and then proceeded to test
2023-11-11 14:40:45.912 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  mahotas **without changing the current directory**.
2023-11-11 14:40:45.912 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  
2023-11-11 14:40:45.912 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  Try installing and then changing to another directory before importing mahotas.
2023-11-11 14:40:45.912 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  ERROR
2023-11-11 14:40:45.913 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  
2023-11-11 14:40:45.913 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  ======================================================================
2023-11-11 14:40:45.913 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  ERROR: test_hitmiss (chaquopy.test.mahotas.TestMahotas)
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  ----------------------------------------------------------------------
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  Traceback (most recent call last):
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W    File "/data/data/com.chaquo.python.pkgtest3/files/chaquopy/AssetFinder/app/chaquopy/test/mahotas.py", line 14, in test_hitmiss
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W      mahotas.morph.hitmiss(A,Bc)
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  AttributeError: module 'mahotas' has no attribute 'morph'
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  
2023-11-11 14:40:45.914 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  ----------------------------------------------------------------------
2023-11-11 14:40:45.915 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  Ran 1 test in 0.163s
2023-11-11 14:40:45.915 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  
2023-11-11 14:40:45.916 22409-22565 python.stderr           com.chaquo.python.pkgtest3           W  FAILED (errors=1)

I don't know how to proceed further with this information, could you take a look at it?

[mhsmith]

You should probably replace the build requirement with a host requirement for Chaquopy's own version of NumPy. For example, see packages/pandas/meta.yaml.

You'll probably also need a patch similar to the one in the pandas recipe, so it can find the NumPy include directory during the build.

[IsakTheHacker]

I have implemented your suggestions, but I can't currently build the package on my machine due to an issue with my local Python installation (and I don't have time to fix it at the moment). Could you build the wheel and run the tests to see if they are passing now?

[mhsmith]

There's no hurry, just let me know when you've had a chance to test it yourself.

[mhsmith]

Changing to draft until tests are ready.