I'm using miniconda on Windows 10 (see Edit 2 below for the output of conda info). I would like to use the PyPI package pypolymake. Therefore, I tried to follow the instructions given here to build a conda package using conda skeleton. Before I started, I successfully ran conda install git conda-build as suggested in the prerequisites.
When running the command conda skeleton pypi pypolymake in my Anaconda Prompt, I obtain the following error:
(base) C:\Users\Christoph>conda skeleton pypi pypolymake
Warning, the following versions were found for pypolymake
0.1.beta1
0.1.beta2
0.1.beta3
0.1b4
0.1b5
0.1b6
0.1b7
Using 0.1b7
Use --version to specify a different version.
Using url https://files.pythonhosted.org/packages/0e/d8/ea0989a21a5a8dd0d97f01a379348c3b3b389aabec91124186b94ec69a12/pypolymake-0.1b7.tar.gz (113 KB) for pypolymake.
Downloading pypolymake
PyPI URL: https://files.pythonhosted.org/packages/0e/d8/ea0989a21a5a8dd0d97f01a379348c3b3b389aabec91124186b94ec69a12/pypolymake-0.1b7.tar.gz
Using cached download
Unpacking pypolymake...
done
working in C:\Users\CHRIST~1\AppData\Local\Temp\tmpt_ibntj_conda_skeleton_pypolymake-0.1b7.tar.gz
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_h_env
The following NEW packages will be INSTALLED:
ca-certificates: 2020.6.24-0
certifi: 2020.6.20-py37_0
openssl: 1.1.1g-he774522_0
pip: 20.1.1-py37_1
python: 3.7.7-h81c818b_4
pyyaml: 5.3.1-py37he774522_1
setuptools: 47.3.1-py37_0
sqlite: 3.32.3-h2a8f88b_0
vc: 14.1-h0510ff6_4
vs2015_runtime: 14.16.27012-hf0eaf9b_2
wheel: 0.34.2-py37_0
wincertstore: 0.2-py37_0
yaml: 0.2.5-he774522_0
zlib: 1.2.11-h62dcd97_4
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Applying patch: 'C:\\Users\\CHRIST~1\\AppData\\Local\\Temp\\tmpt_ibntj_conda_skeleton_pypolymake-0.1b7.tar.gz\\pypi-distutils.patch'
Leaving build/test directories:
Work:
C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\work
Test:
C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\test_tmp
Leaving build/test environments:
Test:
source activate C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_test_env
Build:
source activate C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_build_env
Error:
Cannot use 'git' (not a git repo and/or patch) and did not find 'patch' in: C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_build_env\Scripts;C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_build_env\Library\mingw-w64\bin;C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_build_env\Library\usr\bin;C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593517973688\_build_env\Library\bin;C:\Users\Christoph\Miniconda3\Scripts;C:\Users\Christoph\Miniconda3\Library\mingw-w64\bin;C:\Users\Christoph\Miniconda3\Library\usr\bin;C:\Users\Christoph\Miniconda3\Library\bin;C:\Users\Christoph\Miniconda3;C:\Users\Christoph\Miniconda3\Library\mingw-w64\bin;C:\Users\Christoph\Miniconda3\Library\usr\bin;C:\Users\Christoph\Miniconda3\Library\bin;C:\Users\Christoph\Miniconda3\Scripts;C:\Users\Christoph\Miniconda3\bin;C:\Users\Christoph\Miniconda3;C:\Users\Christoph\Miniconda3\Library\mingw-w64\bin;C:\Users\Christoph\Miniconda3\Library\usr\bin;C:\Users\Christoph\Miniconda3\Library\bin;C:\Users\Christoph\Miniconda3\Scripts;C:\Users\Christoph\Miniconda3\bin;C:\Users\Christoph\Miniconda3\condabin;C:\gurobi901\win64\bin;C:\Program Files (x86)\Common Files\Oracle\Java\javapath;C:\ProgramData\Oracle\Java\javapath;C:\Program Files (x86)\OpenSSH\bin;C:\Program Files\PuTTY;C:\Program Files\Git\cmd;C:\Windows\System32;C:\Windows;C:\Windows\System32\wbem;C:\Windows\System32\WindowsPowerShell\v1.0;C:\Windows\System32\OpenSSH;C:\Program Files\MiKTeX 2.9\miktex\bin\x64;C:\Program Files (x86)\GnuPG\bin;C:\Program Files (x86)\Wolfram Research\WolframScript;C:\Windows\System32;C:\Windows;C:\Windows\System32\wbem;C:\Windows\System32\WindowsPowerShell\v1.0;C:\Windows\System32\OpenSSH;C:\Users\Christoph\AppData\Local\Microsoft\WindowsApps;C:\windows\system32;.
You can install 'patch' using apt-get, yum (Linux), Xcode (MacOSX),
or conda, m2-patch (Windows),
So, my question is: Where does this error come from and how do I avoid it?
And I also have a second question: Does it matter in which conda environment I execute the commands conda skeleton pypi pypolymake and conda-build pypolymake? Should I do this in base (since I possibly would like to use pypolymake in different conda environments eventually)? Or should I do this in one of the environments where I want to use pypolymake? Or do I have to build the package in every environment I want to use it?
Thanks in advance for your help and advice!
Edit:
As suggested in the comments, I've tried the command conda skeleton pypi --extra-specs patch pypolymake, but I obtained a different error message:
(base) C:\Users\Christoph>conda skeleton pypi --extra-specs patch pypolymake
Warning, the following versions were found for pypolymake
0.1.beta1
0.1.beta2
0.1.beta3
0.1b4
0.1b5
0.1b6
0.1b7
Using 0.1b7
Use --version to specify a different version.
Using url https://files.pythonhosted.org/packages/0e/d8/ea0989a21a5a8dd0d97f01a379348c3b3b389aabec91124186b94ec69a12/pypolymake-0.1b7.tar.gz (113 KB) for pypolymake.
Downloading pypolymake
PyPI URL: https://files.pythonhosted.org/packages/0e/d8/ea0989a21a5a8dd0d97f01a379348c3b3b389aabec91124186b94ec69a12/pypolymake-0.1b7.tar.gz
Using cached download
Unpacking pypolymake...
done
working in C:\Users\CHRIST~1\AppData\Local\Temp\tmp954c3kj6conda_skeleton_pypolymake-0.1b7.tar.gz
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed
Leaving build/test directories:
Work:
C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593592312695\work
Test:
C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593592312695\test_tmp
Leaving build/test environments:
Test:
source activate C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593592312695\_test_env
Build:
source activate C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593592312695\_build_env
Traceback (most recent call last):
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\environ.py", line 757, in get_install_actions
actions = install_actions(prefix, index, specs, force=True)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\common\io.py", line 88, in decorated
return f(*args, **kwds)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\plan.py", line 474, in install_actions
txn = solver.solve_for_transaction(prune=prune, ignore_pinned=not pinned)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\core\solve.py", line 117, in solve_for_transaction
should_retry_solve)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\core\solve.py", line 158, in solve_for_diff
force_remove, should_retry_solve)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\core\solve.py", line 275, in solve_final_state
ssc = self._add_specs(ssc)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\core\solve.py", line 555, in _add_specs
explicit_pool = ssc.r._get_package_pool(self.specs_to_add)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\resolve.py", line 553, in _get_package_pool
pool = self.get_reduced_index(specs)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\common\io.py", line 88, in decorated
return f(*args, **kwds)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\resolve.py", line 574, in get_reduced_index
explicit_specs, features = self.verify_specs(explicit_specs)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda\resolve.py", line 288, in verify_specs
raise ResolvePackageNotFound(bad_deps)
conda.exceptions.ResolvePackageNotFound:
- patch
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "C:\Users\Christoph\Miniconda3\Scripts\conda-skeleton-script.py", line 10, in <module>
sys.exit(main())
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\cli\main_skeleton.py", line 65, in main
return execute(sys.argv[1:])
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\cli\main_skeleton.py", line 61, in execute
version=args.version, config=config)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\api.py", line 290, in skeletonize
recursive=recursive, config=config, **kwargs)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\skeletons\pypi.py", line 319, in skeletonize
setup_options=setup_options)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\skeletons\pypi.py", line 726, in get_package_metadata
config=config)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\skeletons\pypi.py", line 1127, in get_pkginfo
setup_options=setup_options)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\skeletons\pypi.py", line 1164, in run_setuppy
subdir=config.host_subdir, clear_cache=False, config=config)
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\environ.py", line 850, in create_env
channel_urls=tuple(config.channel_urls))
File "C:\Users\Christoph\Miniconda3\lib\site-packages\conda_build\environ.py", line 759, in get_install_actions
raise DependencyNeedsBuildingError(exc, subdir=subdir)
conda_build.exceptions.DependencyNeedsBuildingError: Unsatisfiable dependencies for platform win-64: {'patch'}
Edit 2: Here is the output of conda info:
(base) C:\Users\Christoph>conda info
active environment : base
active env location : C:\Users\Christoph\Miniconda3
shell level : 1
user config file : C:\Users\Christoph\.condarc
populated config files : C:\Users\Christoph\.condarc
conda version : 4.8.3
conda-build version : 3.18.11
python version : 3.7.7.final.0
virtual packages :
base environment : C:\Users\Christoph\Miniconda3 (writable)
channel URLs : http://conda.anaconda.org/gurobi/win-64
http://conda.anaconda.org/gurobi/noarch
https://conda.anaconda.org/anaconda-fusion/win-64
https://conda.anaconda.org/anaconda-fusion/noarch
https://repo.anaconda.com/pkgs/main/win-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/win-64
https://repo.anaconda.com/pkgs/r/noarch
https://repo.anaconda.com/pkgs/msys2/win-64
https://repo.anaconda.com/pkgs/msys2/noarch
package cache : C:\Users\Christoph\Miniconda3\pkgs
C:\Users\Christoph\.conda\pkgs
C:\Users\Christoph\AppData\Local\conda\conda\pkgs
envs directories : C:\Users\Christoph\Miniconda3\envs
C:\Users\Christoph\.conda\envs
C:\Users\Christoph\AppData\Local\conda\conda\envs
platform : win-64
user-agent : conda/4.8.3 requests/2.24.0 CPython/3.7.7 Windows/10 Windows/10.0.19041
administrator : False
netrc file : None
offline mode : False
Edit 3: After installing m2-patch, I obtained the following error:
(base) C:\Users\Christoph>conda skeleton pypi pypolymake
Warning, the following versions were found for pypolymake
0.1.beta1
0.1.beta2
0.1.beta3
0.1b4
0.1b5
0.1b6
0.1b7
Using 0.1b7
Use --version to specify a different version.
Using url https://files.pythonhosted.org/packages/0e/d8/ea0989a21a5a8dd0d97f01a379348c3b3b389aabec91124186b94ec69a12/pypolymake-0.1b7.tar.gz (113 KB) for pypolymake.
Downloading pypolymake
PyPI URL: https://files.pythonhosted.org/packages/0e/d8/ea0989a21a5a8dd0d97f01a379348c3b3b389aabec91124186b94ec69a12/pypolymake-0.1b7.tar.gz
Using cached download
Unpacking pypolymake...
done
working in C:\Users\CHRIST~1\AppData\Local\Temp\tmp28apwx5pconda_skeleton_pypolymake-0.1b7.tar.gz
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593771046228\_h_env
The following NEW packages will be INSTALLED:
ca-certificates: 2020.6.24-0
certifi: 2020.6.20-py37_0
openssl: 1.1.1g-he774522_0
pip: 20.1.1-py37_1
python: 3.7.7-h81c818b_4
pyyaml: 5.3.1-py37he774522_1
setuptools: 47.3.1-py37_0
sqlite: 3.32.3-h2a8f88b_0
vc: 14.1-h0510ff6_4
vs2015_runtime: 14.16.27012-hf0eaf9b_2
wheel: 0.34.2-py37_0
wincertstore: 0.2-py37_0
yaml: 0.2.5-he774522_0
zlib: 1.2.11-h62dcd97_4
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Applying patch: 'C:\\Users\\CHRIST~1\\AppData\\Local\\Temp\\tmp28apwx5pconda_skeleton_pypolymake-0.1b7.tar.gz\\pypi-distutils.patch'
Trying to apply patch as-is
INFO:conda_build.source:Trying to apply patch as-is
INFO conda_build.source:apply_patch(596): Trying to apply patch as-is
(Stripping trailing CRs from patch; use --binary to disable.)
patching file core.py
Hunk #1 succeeded at 167 with fuzz 2 (offset 1 line).
Traceback (most recent call last):
File "setup.py", line 27, in <module>
cfg_vars['CFLAGS'] = cfg_vars['CFLAGS'].replace("-Wstrict-prototypes", "")
KeyError: 'CFLAGS'
$PYTHONPATH = C:\Users\CHRIST~1\AppData\Local\Temp\tmp28apwx5pconda_skeleton_pypolymake-0.1b7.tar.gz\pypolymake-0.1b7
Leaving build/test directories:
Work:
C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593771046228\work
Test:
C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593771046228\test_tmp
Leaving build/test environments:
Test:
source activate C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593771046228\_test_env
Build:
source activate C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593771046228\_build_env
Error: command failed: C:\Users\Christoph\Miniconda3\conda-bld\skeleton_1593771046228\_h_env\python.exe setup.py install
