I'm trying to install Numpy on an OSX 10.6.8 using Homebrew, but I'm getting the following error message:
MacBook-Pro:~ eb$ brew install numpy --with-openblasWarning: Xcode not installed
Most stuff needs Xcode to build: http://developer.apple.com/xcode/
==> Installing numpy dependency: tbb
==> Downloading http://threadingbuildingblocks.org/uploads/77/189/4.1%20update%2
######################################################################## 100,0%
Error: SHA1 mismatch
Expected: 072333068fa278635582846eaaa22d51c0100e09
Actual: 08140939b4a84052734dc3589c59af7560c01990
Archive: /Library/Caches/Homebrew/tbb-4.1u1.tgz
(To retry an incomplete download, remove the file above.)
I've removed the file named above several times using the following command:
rm -rf/Library/Caches/Homebrew/tbb-4.1u1.tgz
But the same message keeps appearing. Can someone point me to the best way of fixing this? Thank you!
I would recommends using Macports and spyder. The install went off no problem and then there is a nice environment with numpy, scipy and matplotlib all working for OsX
Related
I'm trying to install geopandas on my M1 mac and I'm running into errors
I tried to pip install all the dependencies individually but where I'm tripping up is in the install of pyproj.
I installed PROJ using brew install proj and that worked fine
When I try to pip install pyproj, I get the follow error
Building wheels for collected packages: pyproj
Building wheel for pyproj (pyproject.toml) ... error
error: subprocess-exited-with-error
× Building wheel for pyproj (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [12 lines of output]
PROJ_DIR is set, using existing PROJ installation..
running bdist_wheel
running build
running build_py
running build_ext
building 'pyproj._geod' extension
pyproj/_geod.c:704:10: fatal error: 'geodesic.h' file not found
#include "geodesic.h"
^~~~~~~~~~~~
1 error generated.
error: command '/usr/bin/clang' failed with exit code 1
[end of output]
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for pyproj
Failed to build pyproj
ERROR: Could not build wheels for pyproj, which is required to install pyproject.toml-based projects
Any help would be much appreciated
At the moment, installing geopandas on M1 macs can be achieved via conda or pip+homebrew.
GeoPandas itself is written in pure Python, so there is no issue running that on any architecture. However, it depends on other libraries that are written in other languages (C, C++) that need to be compiled specifically for M1 chips. While you could compile it yourself, I am not going to cover this option as it is not user friendly.
There are three possible sources of required libraries - pip wheels, conda-forge, and Homebrew.
When a Python package requires C dependency, it can create wheels with the dependency compiled for each system and chip architecture. See for example pygeos - https://pypi.org/project/pygeos/#files. What you need is *macosx_11_0_arm64.whl . If your package doesn't offer it, you have to find another way of installing than pip. Since GeoPandas requires shapely and fiona (among others) that do not have these wheels, you should look elsewhere - either on conda-forge or Homebrew. Below are both options tested as of today.
Conda and conda-forge way (recommended)
Conda-forge currently has all packages geopandas needs
Install M1 version of miniforge or mambaforge. It can be downloaded from here - https://github.com/conda-forge/miniforge.
conda install -c conda-forge geopandas pygeos
Note: if you install x86 (Intel) version of conda, it will run under Rosetta2 and install all packages using x86 architecture, meaning that everything will run under emulation. Try to avoid that.
Pip and Homebrew way
Homebrew can install C libraries compiled for M1. Python packages will find and use them.
Using an environment with Python 3.9
Install shapely:
brew install geos
export DYLD_LIBRARY_PATH=/opt/homebrew/opt/geos/lib/
pip install shapely
DYLD_LIBRARY_PATH is needed for shapely to find GEOS installation.
Install fiona:
brew install gdal
pip install fiona
Install pyproj:
brew install proj
pip install pyproj
Install geopandas and pygeos for speedups:
pip install pygeos
pip install geopandas
Note that this is a copy&paste of my own explanation given in https://github.com/geopandas/geopandas/issues/1816#issuecomment-1003093329.
Related https://github.com/pyproj4/pyproj/issues/1027
I was stuck with the same problem, I also tried setting the environment values for PROJ_DIR, PROJ_LIBDIR, PROJ_INCDIR but perhaps setting the values is causing the error, so closed the terminal and tried again and was able to install correctly
I am a Python Noob. (Using Mac OS 10.12 & Python 3.7)
I'm trying to use mpl_toolkits.basemap
to execute the code
from mpl_toolkits.basemap import Basemap
I googled the way to get matplotlib and successfully installed it.
However, while it's possible to run "from mpl_toolkits.basemap import Basemap" in terminal on mac,
it fails to be loaded if I run the command within IDLE.
Then, I googled to figure out the issue and got the hint that
it could be resolved if I install Basemap properly.
To install Basemap, I think I need to go with "FINK".
However, Fink is only available up to 10.5 OS while mine is 10.12.
And FINK website says do not update OS before upgrading FINK.
However, it's too late for me.
Cause I updated my OS longtime ago and recently I started to learn Python Using Mac.
So I guess, if there is a way to install Basemap not using apt-get,
(the codes below is from "Python basemap module impossible to import")
sudo apt-get install libgeos-3.5.0
sudo apt-get install libgeos-dev
sudo pip install https://github.com/matplotlib/basemap/archive/master.zip
I think my issue could be cleared.
Since I'm really really noob, I'm not sure this is the reason for my failing in "from mpl_toolkits.basemap import Basemap".
What I tried so far is
1) brew install basemap
with the error of
Error: No available formula with the name "basemap"
==> Searching for a previously deleted formula (in the last month)... Warning: homebrew/core is shallow clone. To get complete history run:
git -C "$(brew --repo homebrew/core)" fetch --unshallow
2) pip install basemap
with the error of
Requirement already satisfied
3) sudo pip install https://github.com/matplotlib/basemap/archive/master.zip
with the error of
Command "python setup.py egg_info" failed with error code 1 in
/private/tmp/pip-install-lux494o4/pyproj/
4) conda install basemap
with the following message of
All requested packages already installed.
5) conda install -c conda-forge basemap
with the following message
Preparing transaction: done Verifying transaction: done Executing
transaction: done
Can anyone help to install basemap properly so that I could run
"from mpl_toolkits.basemap import Basemap"
in my IDLe?
My IDLE Sheel keeps saying
Traceback (most recent call last): File "", line 1, in
from mpl_toolkits.basemap import Basemap ModuleNotFoundError: No module named 'mpl_toolkits.basemap'
while my terminal doesn't have problem with running the code.
Appreciate it in advance.
any luck? I spent the day battling this as well. I had the most success when I tried downloading an older version of basemap.
I was using python 2.7 and this worked okay sudo -H pip2 install https://github.com/matplotlib/basemap/archive/v1.1.0.tar.gz
For python 3 try replacing pip2 with pip3 or pip.
Ran into this myself today my solution:
install libgeos on mac
brew install geos
then as you suggested use pip to install mpl_tools:
pip3 install -q https://github.com/matplotlib/basemap/archive/master.zip
This also may help:
missing libgeos_c.so on OSX
Firstly, I suggest you to set Anaconda up. Then follow below steps;
Create a new environment in anaconda.
Install Jupyter Notebook and launch it. If it works, turn it off.
Change your anaconda environment in your terminal.
Try installation commands below;
conda install ...
conda install forge ...
pip install ...
I have this error when i tried to install python packages.
When i run the command pip install it won't work and I have a message error that says
no matching distribution found.
I tried to upgrade the pip version but still the same problem.
PS: I'm using Ubuntu gnome 16.04.
error message
There is no module threading at PyPI (it's where from pip downloads packages). threading is a module from the standard library, you don't need to install it.
I've been trying to upgrade my OpenCV2 to OpenCV3 on my macOS Sierra 10.12.5, using homebrew and also have its bindings for both Python2 and Python3.
Following the excellent guide at pyimagesearch, I got to run
brew install opencv3 --with-contrib --with-python3 --HEAD
(I first uninstalled OpenCV, just for clarity and to avoid any potential conflicts). Now, the guide explains that --with-contrib is downloading additional stuff, which is good to have; --with-python3 is downloading the bindings for Python3 (those for Python2 are automatically there); --HEAD is pulling the Github branch version rather than the tagged release, which is a workaround to a problem related to the QKIT Apple library.
My problem is I get a
Error: Directory not empty - (/usr/local/Cellar/numpy/1.13.1, /usr/local/Cellar/numpy/1.13.1.tmp)
A brew doctor tells me Numpy is not linked but I'm not exactly sure what'd be the best way to proceed here. Wouldn't want to break something.
At this point, I just tested installing just the bindings for Python2, as in
brew install opencv3 --with-contrib --HEAD
and this leads me to this other problem:
Error: No such file or directory - /private/tmp/opencv3-20170714-55298-snr5jb/3rdparty/ippicv/downloader.cmake,
which is solved with if I instead run
brew install opencv3 --with-contrib
This last one works, I got OpenCV3 for Python2. Apparently I don't have the HEAD issue.
Now though, I still want the bindings for Python3 as well and due to the Numpy error above I'm not sure how to proceed? It seems like it's trying to install Numpy as a dependency, which I have already.
brew install opencv3 --with-contrib --with-python3 --HEAD
Instead of :
brew install opencv3 --with-contrib --with-python3 --without-numpy
and See this :
http://www.pyimagesearch.com/2017/05/15/resolving-macos-opencv-homebrew-install-errors/
When trying to install Pillow using PIP, I get this include error:
μ ~: pip install pillow
...
libImaging/TiffDecode.h:10:10: fatal error: 'tiffio.h' file not found
#include <tiffio.h>
^
1 error generated.
error: command 'cc' failed with exit status 1
Does anyone know how to resolve this? I'm on OS X 10.9 and have previously been able to build Pillow on this computer.
Update: Note that I have tiffio.h on my machine at /usr/local/include/tiffio.h. After setting that directory to the C include path, I am able to successfully compile Pillow.
μ ~: C_INCLUDE_PATH=/usr/local/include
μ ~: pip install pillow
Downloading/unpacking pillow
...
Successfully installed pillow
Cleaning up...
Is this how it's supposed to be done, or is there something wrong with my machine or the installation package?
I faced the same issue and got it solved by installing libtiff using homebrew:
brew install libtiff