Installation Warnings (Apple M1 Silicon)

[dhard]

Hi, can we work on making a more robust and error-free installation for tSFM?

I just installed on an Apple M1 Pro (2021) with Mac OS Monterey 12.4. It worked, but I wonder if we can reduce errors and warnings, particularly:

1. /Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages/setuptools/command/easy_install.py:144: EasyInstallDeprecationWarning: easy_install command is deprecated. Use build and pip and other standards-based tools.
2. -Wunused-function errors
3. PkgResourcesDeprecationWarning: is an invalid version and will not be supported in a future release
   warnings.warn(
   No local packages or working download links found for tsfm==1.0.2
   error: Could not find suitable distribution for Requirement.parse('tsfm==1.0.2')

Full transcript follows:

running install
/Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
/Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages/setuptools/command/easy_install.py:144: EasyInstallDeprecationWarning: easy_install command is deprecated. Use build and pip and other standards-based tools.
warnings.warn(
running bdist_egg
running egg_info
creating tsfm.egg-info
writing tsfm.egg-info/PKG-INFO
writing dependency_links to tsfm.egg-info/dependency_links.txt
writing entry points to tsfm.egg-info/entry_points.txt
writing requirements to tsfm.egg-info/requires.txt
writing top-level names to tsfm.egg-info/top_level.txt
writing manifest file 'tsfm.egg-info/SOURCES.txt'
reading manifest file 'tsfm.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
no previously-included directories found matching 'docs/_build'
adding license file 'LICENSE'
writing manifest file 'tsfm.egg-info/SOURCES.txt'
installing library code to build/bdist.macosx-11.0-arm64/egg
running install_lib
running build_py
creating build
creating build/lib.macosx-11.0-arm64-cpython-38
creating build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/addist.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/_version.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/vect.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/ecdfgof.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/testsim.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/init.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/MolecularInformation.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/cvmdist.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/tsfm.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/nsb_entropy.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
copying tsfm/ksdist.py -> build/lib.macosx-11.0-arm64-cpython-38/tsfm
creating build/lib.macosx-11.0-arm64-cpython-38/tsfm/eps
copying tsfm/eps/Template.eps -> build/lib.macosx-11.0-arm64-cpython-38/tsfm/eps
copying tsfm/eps/inverse_template.eps -> build/lib.macosx-11.0-arm64-cpython-38/tsfm/eps
running build_ext
building 'tsfm.exact' extension
creating build/temp.macosx-11.0-arm64-cpython-38
creating build/temp.macosx-11.0-arm64-cpython-38/src
clang -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /Users/dave/opt/anaconda3/envs/tSFM/include -arch arm64 -fPIC -O2 -isystem /Users/dave/opt/anaconda3/envs/tSFM/include -arch arm64 -I/Users/dave/opt/anaconda3/envs/tSFM/include/python3.8 -c src/exact.c -o build/temp.macosx-11.0-arm64-cpython-38/src/exact.o
src/exact.c:2340:28: warning: unused function '__Pyx_PyObject_AsString' [-Wunused-function]
static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) {
^
src/exact.c:2337:32: warning: unused function '__Pyx_PyUnicode_FromString' [-Wunused-function]
static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) {
^
src/exact.c:2402:26: warning: unused function '__Pyx_PyObject_IsTrue' [-Wunused-function]
static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) {
^
src/exact.c:2452:33: warning: unused function '__Pyx_PyIndex_AsSsize_t' [-Wunused-function]
static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) {
^
src/exact.c:2514:33: warning: unused function '__Pyx_PyInt_FromSize_t' [-Wunused-function]
static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) {
^
src/exact.c:2056:32: warning: unused function '__Pyx_PyInt_From_int' [-Wunused-function]
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) {
^
src/exact.c:2082:32: warning: unused function '__Pyx_PyInt_From_long' [-Wunused-function]
static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) {
^
src/exact.c:2108:27: warning: function '__Pyx_PyInt_As_long' is not needed and will not be emitted
[-Wunneeded-internal-declaration]
static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) {
^
8 warnings generated.
clang -bundle -undefined dynamic_lookup -Wl,-rpath,/Users/dave/opt/anaconda3/envs/tSFM/lib -L/Users/dave/opt/anaconda3/envs/tSFM/lib -Wl,-rpath,/Users/dave/opt/anaconda3/envs/tSFM/lib -L/Users/dave/opt/anaconda3/envs/tSFM/lib build/temp.macosx-11.0-arm64-cpython-38/src/exact.o -o build/lib.macosx-11.0-arm64-cpython-38/tsfm/exact.cpython-38-darwin.so
creating build/bdist.macosx-11.0-arm64
creating build/bdist.macosx-11.0-arm64/egg
creating build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/addist.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/_version.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/vect.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/ecdfgof.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/testsim.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/init.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/MolecularInformation.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/cvmdist.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/tsfm.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
creating build/bdist.macosx-11.0-arm64/egg/tsfm/eps
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/eps/Template.eps -> build/bdist.macosx-11.0-arm64/egg/tsfm/eps
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/eps/inverse_template.eps -> build/bdist.macosx-11.0-arm64/egg/tsfm/eps
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/nsb_entropy.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/exact.cpython-38-darwin.so -> build/bdist.macosx-11.0-arm64/egg/tsfm
copying build/lib.macosx-11.0-arm64-cpython-38/tsfm/ksdist.py -> build/bdist.macosx-11.0-arm64/egg/tsfm
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/addist.py to addist.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/_version.py to _version.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/vect.py to vect.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/ecdfgof.py to ecdfgof.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/testsim.py to testsim.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/init.py to init.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/MolecularInformation.py to MolecularInformation.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/cvmdist.py to cvmdist.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/tsfm.py to tsfm.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/nsb_entropy.py to nsb_entropy.cpython-38.pyc
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/ksdist.py to ksdist.cpython-38.pyc
creating stub loader for tsfm/exact.cpython-38-darwin.so
byte-compiling build/bdist.macosx-11.0-arm64/egg/tsfm/exact.py to exact.cpython-38.pyc
creating build/bdist.macosx-11.0-arm64/egg/EGG-INFO
copying tsfm.egg-info/PKG-INFO -> build/bdist.macosx-11.0-arm64/egg/EGG-INFO
copying tsfm.egg-info/SOURCES.txt -> build/bdist.macosx-11.0-arm64/egg/EGG-INFO
copying tsfm.egg-info/dependency_links.txt -> build/bdist.macosx-11.0-arm64/egg/EGG-INFO
copying tsfm.egg-info/entry_points.txt -> build/bdist.macosx-11.0-arm64/egg/EGG-INFO
copying tsfm.egg-info/requires.txt -> build/bdist.macosx-11.0-arm64/egg/EGG-INFO
copying tsfm.egg-info/top_level.txt -> build/bdist.macosx-11.0-arm64/egg/EGG-INFO
writing build/bdist.macosx-11.0-arm64/egg/EGG-INFO/native_libs.txt
zip_safe flag not set; analyzing archive contents...
tsfm.pycache.exact.cpython-38: module references file
creating dist
creating 'dist/tsfm-1.0.2-py3.8-macosx-11.0-arm64.egg' and adding 'build/bdist.macosx-11.0-arm64/egg' to it
removing 'build/bdist.macosx-11.0-arm64/egg' (and everything under it)
Processing tsfm-1.0.2-py3.8-macosx-11.0-arm64.egg
creating /Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages/tsfm-1.0.2-py3.8-macosx-11.0-arm64.egg
Extracting tsfm-1.0.2-py3.8-macosx-11.0-arm64.egg to /Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages
Adding tsfm 1.0.2 to easy-install.pth file
Installing tsfm script to /Users/dave/opt/anaconda3/envs/tSFM/bin

Installed /Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages/tsfm-1.0.2-py3.8-macosx-11.0-arm64.egg
Processing dependencies for tsfm==1.0.2
Searching for tsfm==1.0.2
Reading https://pypi.org/simple/tsfm/
/Users/dave/opt/anaconda3/envs/tSFM/lib/python3.8/site-packages/pkg_resources/init.py:123: PkgResourcesDeprecationWarning: is an invalid version and will not be supported in a future release
warnings.warn(
No local packages or working download links found for tsfm==1.0.2
error: Could not find suitable distribution for Requirement.parse('tsfm==1.0.2')