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schwab-lab / annotateCSF

Python GUI tool for annotation of scRNAseq datasets containing CSF immune cells.
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Installation Fails with errors regarding PIL and torch #5

Open nikofleischer opened 7 months ago

nikofleischer commented 7 months ago

I tried to install the script on a Mac M1 Running OSX 12.2.1 using a fresh conda environment with Python 3.9 and Pip and get the following error: Any idea and what could be going wrong?

All the best, Niko 

(aCSF) ➜  annotateCSF git:(master) ✗ bash start_mac.sh 
Build and install annotateCSF
=============================
Installing required packages
----------------------------
==> Downloading https://formulae.brew.sh/api/formula.jws.json

==> Downloading https://formulae.brew.sh/api/cask.jws.json

Warning: python@3.9 3.9.19 is already installed and up-to-date.
To reinstall 3.9.19, run:
  brew reinstall python@3.9
Warning: python-tk@3.9 3.9.19 is already installed and up-to-date.
To reinstall 3.9.19, run:
  brew reinstall python-tk@3.9
Creating virtul environment
---------------------------
Installing dependencies
-----------------------
Collecting absl-py==0.13.0
  Downloading absl_py-0.13.0-py3-none-any.whl (132 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 132.1/132.1 kB 3.6 MB/s eta 0:00:00
Collecting aiohttp==3.7.4.post0
  Downloading aiohttp-3.7.4.post0.tar.gz (1.1 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.1/1.1 MB 11.8 MB/s eta 0:00:00
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Preparing metadata (pyproject.toml) ... done
Collecting anndata==0.7.6
  Downloading anndata-0.7.6-py3-none-any.whl (127 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 127.6/127.6 kB 12.4 MB/s eta 0:00:00
Collecting annoy==1.17.0
  Downloading annoy-1.17.0.tar.gz (646 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 646.2/646.2 kB 12.1 MB/s eta 0:00:00
  Preparing metadata (setup.py) ... done
Collecting argon2-cffi==21.1.0
  Downloading argon2-cffi-21.1.0.tar.gz (1.8 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.8/1.8 MB 11.8 MB/s eta 0:00:00
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Preparing metadata (pyproject.toml) ... done
Collecting async-timeout==3.0.1
  Downloading async_timeout-3.0.1-py3-none-any.whl (8.2 kB)
Collecting attrs==21.2.0
  Downloading attrs-21.2.0-py2.py3-none-any.whl (53 kB)
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Collecting backcall==0.2.0
  Downloading backcall-0.2.0-py2.py3-none-any.whl (11 kB)
Collecting bleach==4.1.0
  Downloading bleach-4.1.0-py2.py3-none-any.whl (157 kB)
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Collecting cachetools==4.2.2
  Downloading cachetools-4.2.2-py3-none-any.whl (11 kB)
Collecting certifi==2021.5.30
  Downloading certifi-2021.5.30-py2.py3-none-any.whl (145 kB)
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Collecting cffi==1.14.6
  Downloading cffi-1.14.6.tar.gz (475 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 475.7/475.7 kB 11.9 MB/s eta 0:00:00
  Preparing metadata (setup.py) ... done
Collecting chardet==4.0.0
  Downloading chardet-4.0.0-py2.py3-none-any.whl (178 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 178.7/178.7 kB 12.5 MB/s eta 0:00:00
Collecting charset-normalizer==2.0.6
  Downloading charset_normalizer-2.0.6-py3-none-any.whl (37 kB)
Collecting colorama==0.4.4
  Downloading colorama-0.4.4-py2.py3-none-any.whl (16 kB)
Collecting commonmark==0.9.1
  Downloading commonmark-0.9.1-py2.py3-none-any.whl (51 kB)
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Collecting cycler==0.10.0
  Downloading cycler-0.10.0-py2.py3-none-any.whl (6.5 kB)
Collecting Cython==0.29.24
  Downloading Cython-0.29.24-py2.py3-none-any.whl (979 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 979.1/979.1 kB 11.9 MB/s eta 0:00:00
Collecting debugpy==1.4.3
  Downloading debugpy-1.4.3-py2.py3-none-any.whl (4.1 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 4.1/4.1 MB 4.9 MB/s eta 0:00:00
Collecting decorator==5.1.0
  Downloading decorator-5.1.0-py3-none-any.whl (9.1 kB)
Collecting defusedxml==0.7.1
  Downloading defusedxml-0.7.1-py2.py3-none-any.whl (25 kB)
Collecting entrypoints==0.3
  Downloading entrypoints-0.3-py2.py3-none-any.whl (11 kB)
Collecting et-xmlfile==1.1.0
  Downloading et_xmlfile-1.1.0-py3-none-any.whl (4.7 kB)
Collecting fsspec==2021.8.1
  Downloading fsspec-2021.8.1-py3-none-any.whl (119 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 119.3/119.3 kB 13.7 MB/s eta 0:00:00
Collecting future==0.18.2
  Downloading future-0.18.2.tar.gz (829 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 829.2/829.2 kB 12.0 MB/s eta 0:00:00
  Preparing metadata (setup.py) ... done
Collecting google-auth==1.35.0
  Downloading google_auth-1.35.0-py2.py3-none-any.whl (152 kB)
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Collecting google-auth-oauthlib==0.4.6
  Downloading google_auth_oauthlib-0.4.6-py2.py3-none-any.whl (18 kB)
Collecting grpcio==1.40.0
  Downloading grpcio-1.40.0.tar.gz (21.3 MB)
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  Preparing metadata (setup.py) ... done
Collecting h5py==3.3.0
  Downloading h5py-3.3.0.tar.gz (380 kB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 380.2/380.2 kB 12.0 MB/s eta 0:00:00
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Installing backend dependencies ... error
  error: subprocess-exited-with-error

  × pip subprocess to install backend dependencies did not run successfully.
  │ exit code: 1
  ╰─> [629 lines of output]
      Collecting Cython>=0.29.15
        Downloading Cython-3.0.9-py2.py3-none-any.whl (1.2 MB)
           ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.2/1.2 MB 8.4 MB/s eta 0:00:00
      Collecting pkgconfig
        Downloading pkgconfig-1.5.5-py3-none-any.whl (6.7 kB)
      Collecting numpy==1.19.3
        Downloading numpy-1.19.3.zip (7.3 MB)
           ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 7.3/7.3 MB 10.8 MB/s eta 0:00:00
        Installing build dependencies: started
        Installing build dependencies: finished with status 'done'
        Getting requirements to build wheel: started
        Getting requirements to build wheel: finished with status 'done'
        Preparing metadata (pyproject.toml): started
        Preparing metadata (pyproject.toml): finished with status 'done'
      Building wheels for collected packages: numpy
        Building wheel for numpy (pyproject.toml): started
        Building wheel for numpy (pyproject.toml): finished with status 'error'
        error: subprocess-exited-with-error

        × Building wheel for numpy (pyproject.toml) did not run successfully.
        │ exit code: 1
        ╰─> [600 lines of output]
            Running from numpy source directory.
            numpy/random/_bounded_integers.pxd.in has not changed
            numpy/random/_philox.pyx has not changed
            numpy/random/_bounded_integers.pyx.in has not changed
            numpy/random/_sfc64.pyx has not changed
            numpy/random/_mt19937.pyx has not changed
            numpy/random/bit_generator.pyx has not changed
            Processing numpy/random/_bounded_integers.pyx
            numpy/random/mtrand.pyx has not changed
            numpy/random/_generator.pyx has not changed
            numpy/random/_pcg64.pyx has not changed
            numpy/random/_common.pyx has not changed
            Cythonizing sources
            blas_opt_info:
            blas_mkl_info:
            customize UnixCCompiler
              libraries mkl_rt not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            blis_info:
              libraries blis not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            openblas_info:
              libraries openblas not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            atlas_3_10_blas_threads_info:
            Setting PTATLAS=ATLAS
              libraries tatlas not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            atlas_3_10_blas_info:
              libraries satlas not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            atlas_blas_threads_info:
            Setting PTATLAS=ATLAS
              libraries ptf77blas,ptcblas,atlas not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            atlas_blas_info:
              libraries f77blas,cblas,atlas not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            accelerate_info:
              libraries accelerate not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
            Library accelerate was not found. Ignoring
              libraries veclib not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
            Library veclib was not found. Ignoring
              FOUND:
                extra_compile_args = ['-faltivec', '-I/System/Library/Frameworks/vecLib.framework/Headers']
                extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
                define_macros = [('NO_ATLAS_INFO', 3), ('HAVE_CBLAS', None)]

              FOUND:
                extra_compile_args = ['-faltivec', '-I/System/Library/Frameworks/vecLib.framework/Headers']
                extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
                define_macros = [('NO_ATLAS_INFO', 3), ('HAVE_CBLAS', None)]

            non-existing path in 'numpy/distutils': 'site.cfg'
            lapack_opt_info:
            lapack_mkl_info:
              libraries mkl_rt not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            openblas_lapack_info:
              libraries openblas not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            openblas_clapack_info:
              libraries openblas,lapack not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            flame_info:
              libraries flame not found in ['/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib', '/usr/local/lib', '/usr/lib']
              NOT AVAILABLE

            atlas_3_10_threads_info:
            Setting PTATLAS=ATLAS
              libraries lapack_atlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries tatlas,tatlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries lapack_atlas not found in /usr/local/lib
              libraries tatlas,tatlas not found in /usr/local/lib
              libraries lapack_atlas not found in /usr/lib
              libraries tatlas,tatlas not found in /usr/lib
            <class 'numpy.distutils.system_info.atlas_3_10_threads_info'>
              NOT AVAILABLE

            atlas_3_10_info:
              libraries lapack_atlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries satlas,satlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries lapack_atlas not found in /usr/local/lib
              libraries satlas,satlas not found in /usr/local/lib
              libraries lapack_atlas not found in /usr/lib
              libraries satlas,satlas not found in /usr/lib
            <class 'numpy.distutils.system_info.atlas_3_10_info'>
              NOT AVAILABLE

            atlas_threads_info:
            Setting PTATLAS=ATLAS
              libraries lapack_atlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries ptf77blas,ptcblas,atlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries lapack_atlas not found in /usr/local/lib
              libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
              libraries lapack_atlas not found in /usr/lib
              libraries ptf77blas,ptcblas,atlas not found in /usr/lib
            <class 'numpy.distutils.system_info.atlas_threads_info'>
              NOT AVAILABLE

            atlas_info:
              libraries lapack_atlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries f77blas,cblas,atlas not found in /Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/lib
              libraries lapack_atlas not found in /usr/local/lib
              libraries f77blas,cblas,atlas not found in /usr/local/lib
              libraries lapack_atlas not found in /usr/lib
              libraries f77blas,cblas,atlas not found in /usr/lib
            <class 'numpy.distutils.system_info.atlas_info'>
              NOT AVAILABLE

              FOUND:
                extra_compile_args = ['-faltivec', '-I/System/Library/Frameworks/vecLib.framework/Headers']
                extra_link_args = ['-Wl,-framework', '-Wl,Accelerate']
                define_macros = [('NO_ATLAS_INFO', 3), ('HAVE_CBLAS', None)]

            /Users/nikofleischer/miniconda3/envs/aCSF/lib/python3.9/distutils/dist.py:274: UserWarning: Unknown distribution option: 'define_macros'
              warnings.warn(msg)
            running bdist_wheel
            running build
            running config_cc
            unifing config_cc, config, build_clib, build_ext, build commands --compiler options
            running config_fc
            unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options
            running build_src
            build_src
            building py_modules sources
            building library "npymath" sources
              adding 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath' to include_dirs.
            None - nothing done with h_files = ['build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath/npy_math_internal.h']
            building library "npysort" sources
              adding 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/common' to include_dirs.
            None - nothing done with h_files = ['build/src.macosx-11.1-arm64-3.9/numpy/core/src/common/npy_sort.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/common/npy_partition.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/common/npy_binsearch.h']
            building library "npyrandom" sources
            building extension "numpy.core._multiarray_tests" sources
            building extension "numpy.core._multiarray_umath" sources
              adding 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/umath' to include_dirs.
              adding 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath' to include_dirs.
              adding 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/common' to include_dirs.
            numpy.core - nothing done with h_files = ['build/src.macosx-11.1-arm64-3.9/numpy/core/src/umath/funcs.inc', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/umath/simd.inc', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/umath/loops.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/umath/matmul.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/umath/clip.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath/npy_math_internal.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/src/common/templ_common.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/include/numpy/config.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/include/numpy/_numpyconfig.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/include/numpy/__multiarray_api.h', 'build/src.macosx-11.1-arm64-3.9/numpy/core/include/numpy/__ufunc_api.h']
            building extension "numpy.core._umath_tests" sources
            building extension "numpy.core._rational_tests" sources
            building extension "numpy.core._struct_ufunc_tests" sources
            building extension "numpy.core._operand_flag_tests" sources
            building extension "numpy.fft._pocketfft_internal" sources
            building extension "numpy.linalg.lapack_lite" sources
            building extension "numpy.linalg._umath_linalg" sources
            building extension "numpy.random._mt19937" sources
            building extension "numpy.random._philox" sources
            building extension "numpy.random._pcg64" sources
            building extension "numpy.random._sfc64" sources
            building extension "numpy.random._common" sources
            building extension "numpy.random.bit_generator" sources
            building extension "numpy.random._generator" sources
            building extension "numpy.random._bounded_integers" sources
            building extension "numpy.random.mtrand" sources
            building data_files sources
            build_src: building npy-pkg config files
            running build_py
            creating build/lib.macosx-11.1-arm64-3.9
            creating build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/conftest.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/version.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/_globals.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/__init__.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/dual.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/_distributor_init.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/setup.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/ctypeslib.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/matlib.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying numpy/_pytesttester.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            copying build/src.macosx-11.1-arm64-3.9/numpy/__config__.py -> build/lib.macosx-11.1-arm64-3.9/numpy
            creating build/lib.macosx-11.1-arm64-3.9/numpy/compat
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            creating build/temp.macosx-11.1-arm64-3.9/build
            creating build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9
            creating build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9/numpy
            creating build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9/numpy/core
            creating build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9/numpy/core/src
            creating build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath
            compile options: '-Ibuild/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath -Inumpy/core/include -Ibuild/src.macosx-11.1-arm64-3.9/numpy/core/include/numpy -Inumpy/core/src/common -Inumpy/core/src -Inumpy/core -Inumpy/core/src/npymath -Inumpy/core/src/multiarray -Inumpy/core/src/umath -Inumpy/core/src/npysort -I/Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/env/include -I/Users/nikofleischer/miniconda3/envs/aCSF/include/python3.9 -Ibuild/src.macosx-11.1-arm64-3.9/numpy/core/src/common -Ibuild/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath -c'
            clang: numpy/core/src/npymath/npy_math.c
            clang: build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath/ieee754.c
            clang: numpy/core/src/npymath/halffloat.c
            clang: build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath/npy_math_complex.c
            In file included from numpy/core/src/npymath/npy_math.c:9:
            numpy/core/src/npymath/npy_math_internal.h.src:490:21: warning: incompatible pointer types passing 'npy_longdouble *' (aka 'double *') to parameter of type 'long double *' [-Wincompatible-pointer-types]
                return modfl(x, iptr);
                                ^~~~
            /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX.sdk/usr/include/math.h:394:52: note: passing argument to parameter here
            extern long double modfl(long double, long double *);
                                                               ^
            1 warning generated.
            llvm-ar: adding 4 object files to build/temp.macosx-11.1-arm64-3.9/libnpymath.a
            error: Command "/var/folders/k1/30mswbxs7r1g6zwn8y4fyt500000gp/T/abs_0c719e6it8/croot/python-split_1711040620289/_build_env/bin/llvm-ar rcs build/temp.macosx-11.1-arm64-3.9/libnpymath.a build/temp.macosx-11.1-arm64-3.9/numpy/core/src/npymath/npy_math.o build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath/ieee754.o build/temp.macosx-11.1-arm64-3.9/build/src.macosx-11.1-arm64-3.9/numpy/core/src/npymath/npy_math_complex.o build/temp.macosx-11.1-arm64-3.9/numpy/core/src/npymath/halffloat.o" failed with exit status 127
            [end of output]

        note: This error originates from a subprocess, and is likely not a problem with pip.
        ERROR: Failed building wheel for numpy
      Failed to build numpy
      ERROR: Could not build wheels for numpy, which is required to install pyproject.toml-based projects
      WARNING: There was an error checking the latest version of pip.
      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error

× pip subprocess to install backend dependencies did not run successfully.
│ exit code: 1
╰─> See above for output.

note: This error originates from a subprocess, and is likely not a problem with pip.

[notice] A new release of pip is available: 23.0.1 -> 24.0
[notice] To update, run: pip install --upgrade pip
Looking in links: https://download.pytorch.org/whl/torch_stable.html
ERROR: Could not find a version that satisfies the requirement torch==1.9.1+cu111 (from versions: 1.9.0, 1.9.1, 1.10.0, 1.10.1, 1.10.2, 1.11.0, 1.12.0, 1.12.1, 1.13.0, 1.13.1, 2.0.0, 2.0.1, 2.1.0, 2.1.1, 2.1.2, 2.2.0, 2.2.1, 2.2.2)
ERROR: No matching distribution found for torch==1.9.1+cu111
WARNING: There was an error checking the latest version of pip.
Launching annotateCSF
---------------------
The tool will be launched now. Please check if it works before the script continues!
Waiting for annotateCSF to be closed . . . 
Traceback (most recent call last):
  File "Users/nikofleischer/Documents/Data/scRNAseq/annotateCSF/annotateCSF.py", line 10, in <module>
    import PIL.Image
ModuleNotFoundError: No module named 'PIL'
Finished.
nicholasschwab commented 7 months ago

Dear Niko,

unfortunately, aCSF only works with Linux, Windows and Intel MacOS, not with Apple's M1 chipset. I would suggest to use one of these other operating systems to annotate your cells.

Sorry I could not be of more help, kind regards, Nicholas.