Hdbscan: Installation fails on windows

[Berowne]

I have windows 7 with MS VC++ 12.0 installed.
pip install hdbscan fails with:
Running setup.py bdist_wheel for hdbscan ... error
Failed building wheel for hdbscan

C:\Users\1>where vcvarsall.bat
C:\Program Files (x86)\Microsoft Visual Studio 12.0\VC\vcvarsall.bat

C:\Users\1>pip install hdbscan
Collecting hdbscan
Using cached hdbscan-0.8.7.tar.gz
Requirement already satisfied: scikit-learn>=0.16 in c:\fast\anaconda\2.5.0\lib\
site-packages (from hdbscan)
Requirement already satisfied: cython>=0.17 in c:\fast\anaconda\2.5.0\lib\site-p
ackages (from hdbscan)
Building wheels for collected packages: hdbscan
Running setup.py bdist_wheel for hdbscan ... error
Complete output from command c:\fast\anaconda\2.5.0\python.exe -u -c "import s
etuptools, tokenize;__file__='c:\users\1\appdata\local\temp\pip-buil
d-kgeqin\hdbscan\setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.
read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" bd
ist_wheel -d c:\users\1\appdata\local\temp\tmp7fhztspip-wheel- --python-ta
g cp27:
running bdist_wheel
running build
running build_py
creating build
creating build\lib.win-amd64-2.7
creating build\lib.win-amd64-2.7\hdbscan
copying hdbscan\hdbscan_.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\plots.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\robust_single_linkage_.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\validity.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan__init__.py -> build\lib.win-amd64-2.7\hdbscan
running build_ext
skipping 'hdbscan_hdbscan_tree.c' Cython extension (up-to-date)
building 'hdbscan._hdbscan_tree' extension
error: Microsoft Visual C++ 9.0 is required (Unable to find vcvarsall.bat). Ge
t it from http://aka.ms/vcpython27

---

Failed building wheel for hdbscan
Running setup.py clean for hdbscan
Failed to build hdbscan
Installing collected packages: hdbscan
Running setup.py install for hdbscan ... error
Complete output from command c:\fast\anaconda\2.5.0\python.exe -u -c "import
setuptools, tokenize;__file__='c:\users\1\appdata\local\temp\pip-bu
ild-kgeqin\hdbscan\setup.py';f=getattr(tokenize, 'open', open)(__file__);code=
f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))"
install --record c:\users\1\appdata\local\temp\pip-canend-record\install-r
ecord.txt --single-version-externally-managed --compile:
running install
running build
running build_py
creating build
creating build\lib.win-amd64-2.7
creating build\lib.win-amd64-2.7\hdbscan
copying hdbscan\hdbscan_.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\plots.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\robust_single_linkage_.py -> build\lib.win-amd64-2.7\hdbscan

copying hdbscan\validity.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\__init__.py -> build\lib.win-amd64-2.7\hdbscan
running build_ext
skipping 'hdbscan\_hdbscan_tree.c' Cython extension (up-to-date)
building 'hdbscan._hdbscan_tree' extension
error: Microsoft Visual C++ 9.0 is required (Unable to find vcvarsall.bat).

Get it from http://aka.ms/vcpython27

----------------------------------------

Command "c:\fast\anaconda\2.5.0\python.exe -u -c "import setuptools, tokenize;__
file__='c:\users\1\appdata\local\temp\pip-build-kgeqin\hdbscan\set
up.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n',
'\n');f.close();exec(compile(code, __file__, 'exec'))" install --record c:\user
s\1\appdata\local\temp\pip-canend-record\install-record.txt --single-versi
on-externally-managed --compile" failed with error code 1 in c:\users\1\ap
pdata\local\temp\pip-build-kgeqin\hdbscan\

[lmcinnes]

Because we make heavy use of Cython for performance that unfortunately
means that compilation can be an issue. This is particularly true of
Windows. Unfortunately I don't really have the infrastructure to make wheel
builds for all the different architectures. On the others hand the very
fine folks at conda-forge have made it possible to get conda builds for
many different platforms. My strong advice if you are on Windows is to use
conda (anaconda or mini-conda) for the install -- it "just works".

On Mon, Feb 20, 2017 at 7:11 PM, Berowne [e-mail] wrote:

I have windows 7 with MS VC++ 12.0 installed.
pip install hdbscan fails with:
Running setup.py bdist_wheel for hdbscan ... error
Failed building wheel for hdbscan

C:\Users\1>where vcvarsall.bat
C:\Program Files (x86)\Microsoft Visual Studio 12.0\VC\vcvarsall.bat

C:\Users\1>pip install hdbscan
Collecting hdbscan
Using cached hdbscan-0.8.7.tar.gz
Requirement already satisfied: scikit-learn>=0.16 in
c:\fast\anaconda\2.5.0\lib
site-packages (from hdbscan)
Requirement already satisfied: cython>=0.17 in c:\fast\anaconda\2.5.0\lib\
site-p
ackages (from hdbscan)
Building wheels for collected packages: hdbscan
Running setup.py bdist_wheel for hdbscan ... error
Complete output from command c:\fast\anaconda\2.5.0\python.exe -u -c
"import s
etuptools, tokenize;file='c:\users\1\appdata\local\temp\pip-buil
d-kgeqin\hdbscan\setup.py';f=getattr(tokenize, 'open', open)(file
);code=f.
read().replace('\r\n', '\n');f.close();exec(compile(code, file,
'exec'))" bd
ist_wheel -d c:\users\1\appdata\local\temp\tmp7fhztspip-wheel- --python-ta
g cp27:
running bdist_wheel
running build
running build_py
creating build
creating build\lib.win-amd64-2.7
creating build\lib.win-amd64-2.7\hdbscan
copying hdbscan\hdbscan_.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\plots.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\robust_single_linkage_.py -> build\lib.win-amd64-2.7\
hdbscan
copying hdbscan\validity.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan_init_.py -> build\lib.win-amd64-2.7\hdbscan
running build_ext
skipping 'hdbscan_hdbscan_tree.c' Cython extension (up-to-date)
building 'hdbscan._hdbscan_tree' extension
error: Microsoft Visual C++ 9.0 is required (Unable to find
vcvarsall.bat). Ge

t it from http://aka.ms/vcpython27

Failed building wheel for hdbscan
Running setup.py clean for hdbscan
Failed to build hdbscan
Installing collected packages: hdbscan
Running setup.py install for hdbscan ... error
Complete output from command c:\fast\anaconda\2.5.0\python.exe -u -c
"import
setuptools, tokenize;file='c:\users\1\appdata\local\temp\pip-bu
ild-kgeqin\hdbscan\setup.py';f=getattr(tokenize, 'open', open)(file
);code=
f.read().replace('\r\n', '\n');f.close();exec(compile(code, file,
'exec'))"
install --record c:\users\1\appdata\local\temp\pip-canend-record\install-r
ecord.txt --single-version-externally-managed --compile:
running install
running build
running build_py
creating build
creating build\lib.win-amd64-2.7
creating build\lib.win-amd64-2.7\hdbscan
copying hdbscan\hdbscan_.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\plots.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan\robust_single_linkage_.py -> build\lib.win-amd64-2.7\
hdbscan

copying hdbscan\validity.py -> build\lib.win-amd64-2.7\hdbscan
copying hdbscan__init__.py -> build\lib.win-amd64-2.7\hdbscan
running build_ext
skipping 'hdbscan_hdbscan_tree.c' Cython extension (up-to-date)
building 'hdbscan._hdbscan_tree' extension
error: Microsoft Visual C++ 9.0 is required (Unable to find vcvarsall.bat).

Get it from http://aka.ms/vcpython27

---

Command "c:\fast\anaconda\2.5.0\python.exe -u -c "import setuptools,
tokenize;__
file__='c:\users\1\appdata\local\temp\pip-build-kgeqin\hdbscan\set
up.py';f=getattr(tokenize, 'open', open)(file);code=f.read().
replace('\r\n',
'\n');f.close();exec(compile(code, file, 'exec'))" install --record
c:\user
s\1\appdata\local\temp\pip-canend-record\install-record.txt --single-versi
on-externally-managed --compile" failed with error code 1 in c:\users\1\ap
pdata\local\temp\pip-build-kgeqin\hdbscan\

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[timeisapear]

Download and install this on your windows machine, then repeat the build process:
Microsoft Visual C++ Compiler for Python 2.7

[Berowne]

Got it working but with the GCC compiler I believe.

Faithfully,
Berowne

On 28 Jul 2017, at 1:11 pm, Steve D [e-mail] wrote:

Download and install this on your windows machine, then repeat the build process:
Microsoft Visual C++ Compiler for Python 2.7

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