gistfile1.txt

> pip install -e .                                                                              (biotite-dev)
Obtaining file:///Users/alex/Documents/biotite
  Installing build dependencies ... done
  Getting requirements to build wheel ... error
  ERROR: Command errored out with exit status 1:
   command: /Users/alex/Documents/software/miniconda3/envs/biotite-dev/bin/python /Users/alex/Documents/software/miniconda3/envs/biotite-dev/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py get_requires_for_build_wheel /var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/tmp17py970l
       cwd: /Users/alex/Documents/biotite
  Complete output (98 lines):

  Error compiling Cython file:
  ------------------------------------------------------------
  ...
      if num < 10**length:
          # Normal decimal representation
          return str(num)
      # Subtract the amount of values
      # represented by decimal representation
      num -= 10**length
      ^
  ------------------------------------------------------------

  src/biotite/structure/io/pdb/hybrid36.pyx:53:4: Cannot assign type 'double' to 'int'

  Error compiling Cython file:
  ------------------------------------------------------------
  ...
          #      10**4 have been suubtracted previously -> num = 0
          #      But first hybrid-36 string is 'A000'
          #      'A000' in base-36 is 10 * 36**3
          #      Hence 10 * 36**3 is added to the num
          #      to transform 10000 to 'A000'
          num += 10 * 36**(length-1)
          ^
  ------------------------------------------------------------

  src/biotite/structure/io/pdb/hybrid36.pyx:63:8: Cannot assign type 'double' to 'int'

  Error compiling Cython file:
  ------------------------------------------------------------
  ...
          #      to transform 10000 to 'A000'
          num += 10 * 36**(length-1)
          return _encode_base36(num, length, _ASCII_FIRST_LETTER_UPPER)
      # Subtract the amount of values
      # represented by upper case hybrid-36 representation
      num -= 26 * 36**(length-1)
      ^
  ------------------------------------------------------------

  src/biotite/structure/io/pdb/hybrid36.pyx:67:4: Cannot assign type 'double' to 'int'

  Error compiling Cython file:
  ------------------------------------------------------------
  ...
      # Subtract the amount of values
      # represented by upper case hybrid-36 representation
      num -= 26 * 36**(length-1)
      if num < 26 * 36**(length-1):
          # Lower case hybrid-36 representation
          num += 10 * 36**(length-1)
          ^
  ------------------------------------------------------------

  src/biotite/structure/io/pdb/hybrid36.pyx:70:8: Cannot assign type 'double' to 'int'
  Compiling src/biotite/sequence/align/banded.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/kmeralphabet.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/kmersimilarity.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/kmertable.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/localgapped.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/localungapped.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/multiple.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/pairwise.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/align/tracetable.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/codec.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/phylo/nj.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/phylo/tree.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/sequence/phylo/upgma.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/bonds.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/celllist.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/charges.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/io/mmtf/convertarray.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/io/mmtf/convertfile.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/io/mmtf/decode.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/io/mmtf/encode.pyx because it depends on /private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Includes/cpython/type.pxd.
  Compiling src/biotite/structure/io/pdb/hybrid36.pyx because it changed.
  Compiling src/biotite/structure/sasa.pyx because it changed.
  [ 1/22] Cythonizing src/biotite/structure/io/pdb/hybrid36.pyx
  Traceback (most recent call last):
    File "/Users/alex/Documents/software/miniconda3/envs/biotite-dev/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 349, in <module>
      main()
    File "/Users/alex/Documents/software/miniconda3/envs/biotite-dev/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 331, in main
      json_out['return_val'] = hook(**hook_input['kwargs'])
    File "/Users/alex/Documents/software/miniconda3/envs/biotite-dev/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 117, in get_requires_for_build_wheel
      return hook(config_settings)
    File "/private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/setuptools/build_meta.py", line 355, in get_requires_for_build_wheel
      return self._get_build_requires(config_settings, requirements=['wheel'])
    File "/private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/setuptools/build_meta.py", line 325, in _get_build_requires
      self.run_setup()
    File "/private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/setuptools/build_meta.py", line 341, in run_setup
      exec(code, locals())
    File "<string>", line 35, in <module>
    File "/private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Build/Dependencies.py", line 1134, in cythonize
      cythonize_one(*args)
    File "/private/var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/pip-build-env-gzt6clxb/overlay/lib/python3.9/site-packages/Cython/Build/Dependencies.py", line 1301, in cythonize_one
      raise CompileError(None, pyx_file)
  Cython.Compiler.Errors.CompileError: src/biotite/structure/io/pdb/hybrid36.pyx
  ----------------------------------------
WARNING: Discarding file:///Users/alex/Documents/biotite. Command errored out with exit status 1: /Users/alex/Documents/software/miniconda3/envs/biotite-dev/bin/python /Users/alex/Documents/software/miniconda3/envs/biotite-dev/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py get_requires_for_build_wheel /var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/tmp17py970l Check the logs for full command output.
ERROR: Command errored out with exit status 1: /Users/alex/Documents/software/miniconda3/envs/biotite-dev/bin/python /Users/alex/Documents/software/miniconda3/envs/biotite-dev/lib/python3.9/site-packages/pip/_vendor/pep517/in_process/_in_process.py get_requires_for_build_wheel /var/folders/17/bwqs57x94hqfddnbzbhc2gzr0000gn/T/tmp17py970l Check the logs for full command output.