Tried installing scipy on Mountain Lion, and couldn't get anything to work except:
sudo pip install -e git+https://github.com/scipy/scipy#egg=scipy-dev
which I believe installs the development version of scipy. For some reason it leaves an src directory inside my current folder, which contains a pip-delete-this-directory.txt and scipy directory containing all scipy files. I can import scipy from anywhere, but removing this folder removes scipy entirely. What's going on?
If I try installing with simply sudo pip install scipy, I get the following
/System/Library/Frameworks/vecLib.framework/Headers/vecLib.h:22:4: error: "<vecLib/vecLib.h> is deprecated. Please #include <Accelerate/Accelerate.h> and link to Accelerate.framework."
#error "<vecLib/vecLib.h> is deprecated. Please #include <Accelerate/Accelerate.h> and link to Accelerate.framework."
^
1 error generated.
error: Command "clang -fno-strict-aliasing -fno-common -dynamic -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch i386 -arch x86_64 -pipe -Iscipy/sparse/linalg/eigen/arpack/ARPACK/SRC -I/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/numpy/core/include -c scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.c -o build/temp.macosx-10.8-intel-2.7/scipy/sparse/linalg/eigen/arpack/ARPACK/FWRAPPERS/veclib_cabi_c.o" failed with exit status 1
From the pip documentation page:
Edit mode
Packages normally install under site-packages, but when you’re making changes, it makes more sense to run the package straight from the checked-out source tree. “Editable” installs create a .pth file in site-packages that extends Python’s import path to find the package:
$ pip install -e path/to/SomePackage
So this means you can simply solve your problems by running:
$ sudo mv src/scipy/scipy /Library/Python/2.7/site-packages/
And then if you want to be clean, you can edit the file to remove the line that was added by pip:
$ sudo vim /Library/Python/2.7/site-packages/easy-install.pth
Related
I am getting an error while installing pyminizip package inside docker container ( docker version 17.03.1-ce). I am doing it inside virtual environment with python 2.7.13.
I ended up with below message while trying to install it.
gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -Isrc -Izlib123 -I/usr/local/include/python2.7 -c src/py_minizip.c -o build/temp.linux-x86_64-2.7/src/py_minizip.o
src/py_minizip.c: In function ‘_compress’:
src/py_minizip.c:251: warning: ‘filepathnameinzip’ may be used uninitialized in this function
gcc -pthread -fno-strict-aliasing -g -O2 -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -Isrc -Izlib123 -I/usr/local/include/python2.7 -c src/zip.c -o build/temp.linux-x86_64-2.7/src/zip.o
In file included from src/zip.c:66:
src/crypt.h:34: error: redefinition of typedef ‘z_crc_t’
src/zip.h:83: note: previous declaration of ‘z_crc_t’ was here
src/zip.c:201: warning: function declaration isn’t a prototype
src/zip.c:203: warning: function declaration isn’t a prototype
error: command 'gcc' failed with exit status 1
Is there any alternate of pyminizip package ?
I want to create a password protected zip. So, even if there is any alternate solution to it, please let me know.
Would be useful know what docker image you use... but Try to Install python developer version:
sudo apt-get install python-dev
and libevent libraries
sudo apt-get install libevent-dev
This issue has been resolved. It is working fine with pyminizip version 0.2.1. I had faced this issue on 0.2.2 and
0.2.3 but version 0.2.1 is working fine for me.
I upgraded my Mac to macOS Sierra and I had to start a new account. Right now I am trying to establish my environment. I ran into a problem installing pyaudio. The procedure I used is first use homebrew and install port audio.
brew install portaudio
It installs with no errors.
I proceed to install pyaudio using pip
pip install pyaudio
I receive the following error message.
cc -fno-strict-aliasing -fno-common -dynamic -arch x86_64 -arch i386 -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch x86_64 -arch i386 -pipe -DMACOSX=1 -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c src/_portaudiomodule.c -o build/temp.macosx-10.12-intel-2.7/src/_portaudiomodule.o
src/_portaudiomodule.c:29:10: fatal error: 'portaudio.h' file not found
#include "portaudio.h"
^
1 error generated.
error: command 'cc' failed with exit status 1
portaudio.h is available in /usr/local/Cellar/portaudio/19.20140130/include
I am unfamiliar with pip and don't know how to pass the path to the complier.
Any help will be greatly appreciated.
thanks
Rod
Thanks for the suggestion. I tried it but it did not work.
It seems pip is not finding both include files and libraries when attempting to install in macOS Sierra
I did some digging into how to pass paths with pip and I successfully installed pyaudio using the following command.
sudo python3 -B -u -m pip -v install --no-warn-script-location --no-cache-dir --global-option=build_ext --global-option="-I$(brew --prefix portaudio)/include" --global-option="-L$(brew --prefix portaudio)/lib" pyaudio
Please try the command below.
sudo CPATH="$CPATH:/usr/local/include" LIBRARY_PATH="$LIBRARY_PATH:/usr/local/lib" pip install pyaudio
You can add the directory to your CPATH. Try:
CPATH="$CPATH:/usr/local/Cellar/portaudio/19.20140130/include"
pip install pyaudio
Question about Python's setuptools. I just did a fresh install of Mac OS 10.8 and installed the official Python 2.7.3 package. When installing the binary module py-bcrypt (or any other binary module for that matter), I get the following error:
bcrypt/bcrypt_python.c:17:10: fatal error: 'Python.h' file not found
#include "Python.h"
^
1 error generated.
error: Setup script exited with error: command 'clang' failed with exit status 1
Running sudo easy_install --verbose py-bcrypt shows the following call to CLang:
clang -fno-strict-aliasing -fno-common -dynamic -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -arch i386 -arch x86_64 -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c bcrypt/bcrypt_python.c -o build/temp.macosx-10.8-intel-2.7/bcrypt/bcrypt_python.o
...which is fine except for this part:
-I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7
Because Python.h is actually stored in the non-System Library here: /Library/Frameworks/Python.framework/Versions/2.7/include/python2.7/Python.h
So to finally get to the point: How do you change the default include path used by setuptools?
In Ubuntu, doing this in .bashrc or .zshrc would solve the issue:
export C_INCLUDE_PATH=/you_name_it/include/python2.7
export CPLUS_INCLUDE_PATH=/you_name_it/include/python2.7
It enabled gcc to find other headers you need, but I'm not sure whether it works for clang.
I still have no idea how to actually do this, but I found a workaround. Installing XCode's Command Line Tools (Preferences -> Download -> Command Line Tools) put Python headers in the right place.
I am trying to install MySQLdb 1.2.3 on Mac OSX Lion 10.7.3. When I run
$ sudo ARCHFLAGS="-arch x86_64" python setup.py build
An error is thrown that says:
gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -isysroot /Developer/SDKs/MacOSX10.6.sdk
-g -O2 -DNDEBUG -g -O3 -Dversion_info=(1,2,3,'final',0) -D__version__=1.2.3 - I/usr/local/mysql/include - I/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c _mysql.c -o build/temp.macosx-10.6-x86_64-2.7/_mysql.o -Os -g -fno-common -fno-strict-aliasing -arch i386
unable to execute gcc-4.2: No such file or directory
error: command 'gcc-4.2' failed with exit status 1
I saw this similar forum post but noticed that MySQLdb 1.2.3 does not include a user_config.py.
My question is, which .py file can I edit to change 'gcc-4.2' to 'gcc'? This could likely fix the problem.
Meh.
CC=gcc python setup.py ...
I followed the installation instructions for installing oursql on Mac OS X. Since
sudo pip install oursql
told me, that it couldn't find mysql_config I (located it with locate mysql_config and) told it where to find it by
sudo MYSQL_CONFIG=/usr/local/mysql-5.5.14-osx10.6-x86_64/bin/mysql_config pip install oursql
I added the terminal output at the bottom for readability reasons. After that I fired up python in terminal (On Mac OS Lion it is python 2.7 now,...) and did
>>> import oursql
but python keeps telling me:
>>> import oursql
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError: dlopen(/Library/Python/2.7/site-packages/oursql.so, 2): Library not loaded: libmysqlclient.18.dylib
Referenced from: /Library/Python/2.7/site-packages/oursql.so
Reason: image not found
What do I miss? Any suggestions?
Terminal Output, of pip installation:
Downloading/unpacking oursql
Downloading oursql-0.9.2.tar.bz2 (113Kb): 113Kb downloaded
Running setup.py egg_info for package oursql
Installing collected packages: oursql
Running setup.py install for oursql
skipping 'oursqlx/oursql.c' Cython extension (up-to-date)
building 'oursql' extension
/usr/local/mysql-5.5.14-osx10.6-x86_64/bin/mysql_config --cflags
llvm-gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c oursqlx/oursql.c -o build/temp.macosx-10.7-intel-2.7/oursqlx/oursql.o -I/usr/local/mysql-5.5.14-osx10.6-x86_64/include -Os -g -fno-common -fno-strict-aliasing -arch x86_64
oursqlx/oursql.c: In function ‘__pyx_pf_6oursql_10Connection___cinit__’:
oursqlx/oursql.c:4630: warning: implicit conversion shortens 64-bit value into a 32-bit value
oursqlx/oursql.c: In function ‘__pyx_pf_6oursql_10_Statement_execute’:
oursqlx/oursql.c:10219: warning: implicit conversion shortens 64-bit value into a 32-bit value
oursqlx/oursql.c: In function ‘__pyx_pf_6oursql_16_DBAPITypeObject___richcmp__’:
oursqlx/oursql.c:17597: warning: implicit conversion shortens 64-bit value into a 32-bit value
llvm-gcc-4.2 -fno-strict-aliasing -fno-common -dynamic -g -Os -pipe -fno-common -fno-strict-aliasing -fwrapv -mno-fused-madd -DENABLE_DTRACE -DMACOSX -DNDEBUG -Wall -Wstrict-prototypes -Wshorten-64-to-32 -DNDEBUG -g -fwrapv -Os -Wall -Wstrict-prototypes -DENABLE_DTRACE -pipe -I/System/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c oursqlx/compat.c -o build/temp.macosx-10.7-intel-2.7/oursqlx/compat.o -I/usr/local/mysql-5.5.14-osx10.6-x86_64/include -Os -g -fno-common -fno-strict-aliasing -arch x86_64
/usr/local/mysql-5.5.14-osx10.6-x86_64/bin/mysql_config --libs
llvm-gcc-4.2 -Wl,-F. -bundle -undefined dynamic_lookup -Wl,-F. -arch i386 -arch x86_64 build/temp.macosx-10.7-intel-2.7/oursqlx/oursql.o build/temp.macosx-10.7-intel-2.7/oursqlx/compat.o -o build/lib.macosx-10.7-intel-2.7/oursql.so -L/usr/local/mysql-5.5.14-osx10.6-x86_64/lib -lmysqlclient -lpthread
ld: warning: ignoring file build/temp.macosx-10.7-intel-2.7/oursqlx/oursql.o, file was built for unsupported file format which is not the architecture being linked (i386)
ld: warning: ignoring file build/temp.macosx-10.7-intel-2.7/oursqlx/compat.o, file was built for unsupported file format which is not the architecture being linked (i386)
ld: warning: ignoring file /usr/local/mysql-5.5.14-osx10.6-x86_64/lib/libmysqlclient.dylib, file was built for unsupported file format which is not the architecture being linked (i386)
Successfully installed oursql
Cleaning up...
This did the job:
export DYLD_LIBRARY_PATH="$DYLD_LIBRARY_PATH:/usr/local/mysql/lib/"
If you don't want to install a full MySQL you can compile oursql with the mysql-connector-c.
Download mysql-connector-c, unzip and install:
wget http://dev.mysql.com/get/Downloads/Connector-C/mysql-connector-c-6.0.2-osx10.5-x86-64bit.tar.gz/from/http://cdn.mysql.com/
tar -xvf mysql-connector-c-6-1.0.2-osx10.5-x86-64bit.tar
cd mysql-connector-c-6.0.2-osx10.5-x86-64bit
sudo cp bin/* /usr/local/bin/
sudo cp lib/* /usr/local/lib/
sudo cp -r include/* /usr/local/include/
Download and unzip oursql:
wget --no-check-certificate https://launchpad.net/oursql/py3k/py3k-0.9.3/+download/oursql-0.9.3.zip
unzip oursql-0.9.3.zip
Compile oursql:
cd oursql-0.9.3
sudo python setup.py build_ext
This has been verified to work with OSX 10.8.2, Xcode 4.5.2 and Python 3.2.3
I came across this question looking for a solution to installing oursql on OSX 10.10.5. I had previously installed mysql using brew brew install mysql. For those looking to install oursql on yosemite, here is what works for me:
1) Download the package manually. See links here.
2) Open oursql/oursql-0.9.3.1/oursqlx/_exceptions.c in your favourite text editor
3) Comment the last “default”, should look something like this:
/*default:
if (err >= ER_ERROR_FIRST && err <= ER_ERROR_LAST)
return _oursqlx_ProgrammingError;
else if (err > CR_MIN_ERROR && err < CR_MAX_ERROR)
return _oursqlx_InterfaceError;*/
4) Now try running setup again:
[sudo] python setup.py install
The best way for installing mysql-server on mac os snow leopard is trying to install from source file in order to make sure you are compiling mysql for the correct architecture x86_64.