I have to schedule the execution of a python script within a docker container. My script uses several packages that I have to install, so this is my Dockerfile:
FROM python:3.9.0b4-alpine3.12
COPY AzureVM /bin/AzureVM
COPY root /var/spool/cron/crontabs/root
RUN pip install azure-common
RUN pip install azure-mgmt-compute
RUN pip install msrestazure
RUN pip install paramiko
RUN chmod +x /bin/AzureVM
CMD crond -l 2 -f
When I try to build the container, it gets huge errors for some of the packages (more specifically msrestazure and paramiko). For example:
Step 6/8 : RUN pip install msrestazure
---> Running in f02284bb6aee
Collecting msrestazure
Downloading msrestazure-0.6.4-py2.py3-none-any.whl (40 kB)
Requirement already satisfied: msrest<2.0.0,>=0.6.0 in /usr/local/lib/python3.9/site-packages (from msrestazure) (0.6.19)
Collecting adal<2.0.0,>=0.6.0
Downloading adal-1.2.4-py2.py3-none-any.whl (55 kB)
Requirement already satisfied: six in /usr/local/lib/python3.9/site-packages (from msrestazure) (1.15.0)
Requirement already satisfied: certifi>=2017.4.17 in /usr/local/lib/python3.9/site-packages (from msrest<2.0.0,>=0.6.0->msrestazure) (2020.6.20)
Requirement already satisfied: requests-oauthlib>=0.5.0 in /usr/local/lib/python3.9/site-packages (from msrest<2.0.0,>=0.6.0->msrestazure) (1.3.0)
Requirement already satisfied: requests~=2.16 in /usr/local/lib/python3.9/site-packages (from msrest<2.0.0,>=0.6.0->msrestazure) (2.24.0)
Requirement already satisfied: isodate>=0.6.0 in /usr/local/lib/python3.9/site-packages (from msrest<2.0.0,>=0.6.0->msrestazure) (0.6.0)
Collecting python-dateutil>=2.1.0
Downloading python_dateutil-2.8.1-py2.py3-none-any.whl (227 kB)
Collecting PyJWT>=1.0.0
Downloading PyJWT-1.7.1-py2.py3-none-any.whl (18 kB)
Collecting cryptography>=1.1.0
Downloading cryptography-3.1.tar.gz (534 kB)
Installing build dependencies: started
Installing build dependencies: finished with status 'error'
ERROR: Command errored out with exit status 1:
command: /usr/local/bin/python /usr/local/lib/python3.9/site-packages/pip install --ignore-installed --no-user --prefix /tmp/pip-build-env-8e8f308c/overlay --no-warn-script-location --no-binary :none: --only-binary :none: -i https://pypi.org/simple -- 'setuptools>=40.6.0' wheel 'cffi>=1.8,!=1.11.3; platform_python_implementation != '"'"'PyPy'"'"''
cwd: None
Complete output (37 lines):
Collecting setuptools>=40.6.0
Downloading setuptools-50.3.0-py3-none-any.whl (785 kB)
Collecting wheel
Downloading wheel-0.35.1-py2.py3-none-any.whl (33 kB)
Collecting cffi!=1.11.3,>=1.8
Downloading cffi-1.14.3.tar.gz (470 kB)
ERROR: Command errored out with exit status 1:
command: /usr/local/bin/python -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-5nw42fq5/cffi/setup.py'"'"'; __file__='"'"'/tmp/pip-install-5nw42fq5/cffi/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' egg_info --egg-base /tmp/pip-pip-egg-info-l9k0d28w
cwd: /tmp/pip-install-5nw42fq5/cffi/
Complete output (23 lines):
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-install-5nw42fq5/cffi/setup.py", line 163, in <module>
ask_supports_thread()
File "/tmp/pip-install-5nw42fq5/cffi/setup.py", line 81, in ask_supports_thread
config.try_compile('__thread int some_threadlocal_variable_42;'))
File "/usr/local/lib/python3.9/distutils/command/config.py", line 225, in try_compile
self._compile(body, headers, include_dirs, lang)
File "/usr/local/lib/python3.9/distutils/command/config.py", line 132, in _compile
self.compiler.compile([src], include_dirs=include_dirs)
File "/usr/local/lib/python3.9/distutils/ccompiler.py", line 574, in compile
self._compile(obj, src, ext, cc_args, extra_postargs, pp_opts)
File "/usr/local/lib/python3.9/distutils/unixccompiler.py", line 117, in _compile
self.spawn(compiler_so + cc_args + [src, '-o', obj] +
File "/usr/local/lib/python3.9/distutils/ccompiler.py", line 910, in spawn
spawn(cmd, dry_run=self.dry_run)
File "/usr/local/lib/python3.9/distutils/spawn.py", line 74, in spawn
proc = subprocess.Popen(cmd, env=env)
File "/usr/local/lib/python3.9/subprocess.py", line 947, in __init__
self._execute_child(args, executable, preexec_fn, close_fds,
File "/usr/local/lib/python3.9/subprocess.py", line 1819, in _execute_child
raise child_exception_type(errno_num, err_msg, err_filename)
FileNotFoundError: [Errno 2] No such file or directory: 'gcc'
----------------------------------------
ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.
WARNING: You are using pip version 20.1.1; however, version 20.2.3 is available.
You should consider upgrading via the '/usr/local/bin/python -m pip install --upgrade pip' command.
----------------------------------------
ERROR: Command errored out with exit status 1: /usr/local/bin/python /usr/local/lib/python3.9/site-packages/pip install --ignore-installed --no-user --prefix /tmp/pip-build-env-8e8f308c/overlay --no-warn-script-location --no-binary :none: --only-binary :none: -i https://pypi.org/simple -- 'setuptools>=40.6.0' wheel 'cffi>=1.8,!=1.11.3; platform_python_implementation != '"'"'PyPy'"'"'' Check the logs for full command output.
WARNING: You are using pip version 20.1.1; however, version 20.2.3 is available.
You should consider upgrading via the '/usr/local/bin/python -m pip install --upgrade pip' command.
The command '/bin/sh -c pip install msrestazure' returned a non-zero code: 1
I tried to change the base image (slim, buster, slim-buster) and all the packages were installed, but then I got the following error every time:
Crond not found
When I try to schedule a simple script (without any strange installs) it works fine (only with python:3.9.0b4-alpine3.12). I don't know what to do, so please help!
Add this before running pip commands.
RUN apk add build-base libffi-dev openssl-dev --no-cache
Tested below Dockerfile. Rest steps you can add accordingly.
FROM python:3.9.0b4-alpine3.12
RUN apk add build-base libffi-dev openssl-dev --no-cache
RUN pip install azure-common \
&& pip install azure-mgmt-compute \
&& pip install msrestazure \
&& pip install paramiko
Related
After calling the "pip install" command of any library, an error occurs:
ERROR: Command errored out with exit status 2:
command: 'c:\users\roman\appdata\local\programs\python\python38\python.exe' 'c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip' install -
-ignore-installed --no-user --prefix 'C:\Users\roman\AppData\Local\Temp\pip-build-env-2tu6fau4\overlay' --no-warn-script-location --no-binary :none: --only-binary :no
ne: -i https://pypi.org/simple -- 'setuptools>=40.8.0' wheel
cwd: None
Complete output (24 lines):
Collecting setuptools>=40.8.0
Using cached setuptools-67.0.0-py3-none-any.whl (1.1 MB)
Collecting wheel
Using cached wheel-0.38.4-py3-none-any.whl (36 kB)
Installing collected packages: setuptools, wheel
ERROR: Exception:
Traceback (most recent call last):
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\cli\base_command.py", line 216, in _main
status = self.run(options, args)
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\cli\req_command.py", line 182, in wrapper
return func(self, options, args)
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\commands\install.py", line 412, in run
installed = install_given_reqs(
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\req\__init__.py", line 82, in install_given_reqs
requirement.install(
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\req\req_install.py", line 778, in install
scheme = get_scheme(
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\locations.py", line 185, in get_scheme
scheme = distutils_scheme(
File "c:\users\roman\appdata\local\programs\python\python38\lib\site-packages\pip\_internal\locations.py", line 118, in distutils_scheme
assert not (home and prefix), "home={} prefix={}".format(home, prefix)
AssertionError: home=C:\Users\roman\AppData\Local\Temp\pip-target-tdo35poo prefix=C:\Users\roman\AppData\Local\Temp\pip-build-env-2tu6fau4\overlay
WARNING: You are using pip version 20.2.1; however, version 22.3.1 is available.
You should consider upgrading via the 'c:\users\roman\appdata\local\programs\python\python38\python.exe -m pip install --upgrade pip' command.
----------------------------------------
ERROR: Command errored out with exit status 2: 'c:\users\roman\appdata\local\programs\python\python38\python.exe' 'c:\users\roman\appdata\local\programs\python\python
38\lib\site-packages\pip' install --ignore-installed --no-user --prefix 'C:\Users\roman\AppData\Local\Temp\pip-build-env-2tu6fau4\overlay' --no-warn-script-location -
-no-binary :none: --only-binary :none: -i https://pypi.org/simple -- 'setuptools>=40.8.0' wheel Check the logs for full command output.`
Important nuances:
I have a new project in paycharm without modules.
Pure Python 3.9
pip (python 3.8).
I am not an admin in Windows 10 system.
I correctly added Python 3.9 to the system path.
Installing libraries through the interpreter settings also gives the same error
I reinstalled python and paycharm
I tried writing pip3 and --no-user
Upon googling the error assert not (home and prefix), we can find this pypa/pip issue where someone has solved this by making sure their pip.conf doesn't have a target line.
You should make sure your pip configuration files don't have extraneous cruft left over in them and/or that nothing has set a PIP_TARGET environment variable or similar.
When I try to install a python package (cryptography in this case) in the Linux terminal, I get an error. I am using Python version 3.8. Here's the code:
Input:
python3.8 -m pip install cryptography or pip install cryptography
Output (anything after "Installing build dependencies ... error" is in RED):
Defaulting to user installation because normal site-packages is not writeable
Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
Collecting cryptography
Using cached cryptography-36.0.1.tar.gz (572 kB)
Installing build dependencies ... error
ERROR: Command errored out with exit status 1:
command: /usr/local/bin/python3.8
/usr/local/lib/python3.8/site-packages/pip install --ignore-installed
--no-user --prefix /tmp/pip-build-env-j3i9og4s/overlay
--no-warn-script-location --no-binary :none: --only-binary :none: -i
https://pypi.org/simple --extra-index-url
https://www.piwheels.org/simple -- 'setuptools>=40.6.0' wheel
'cffi>=1.12; platform_python_implementation != '"'"'PyPy'"'"''
'setuptools-rust>=0.11.4'
cwd: None
Complete output (26 lines):
Looking in indexes: https://pypi.org/simple,
https://www.piwheels.org/simple, https://www.piwheels.org/simple
Collecting setuptools>=40.6.0
Using cached setuptools-60.9.3-py3-none-any.whl (1.1 MB)
Collecting wheel
Using cached wheel-0.37.1-py2.py3-none-any.whl (35 kB)
Collecting cffi>=1.12
Using cached cffi-1.15.0.tar.gz (484 kB)
ERROR: Command errored out with exit status 1:
command: /usr/local/bin/python3.8 -c 'import sys, setuptools,
tokenize; sys.argv[0] =
'"'"'/tmp/pip-install-9sokml3p/cffi/setup.py'"'"';
__file__='"'"'/tmp/pip-install-9sokml3p/cffi/setup.py'"'"';f=getattr(tokenize,
'"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"',
'"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))'
egg_info --egg-base /tmp/pip-pip-egg-info-5ylb3zxi
cwd: /tmp/pip-install-9sokml3p/cffi/
Complete output (11 lines):
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/usr/local/lib/python3.8/site-packages/setuptools/__init__.py",
line 19, in <module>
from setuptools.dist import Distribution
File "/usr/local/lib/python3.8/site-packages/setuptools/dist.py",
line 34, in <module>
from setuptools import windows_support
File "/usr/local/lib/python3.8/site-packages/setuptools/windows_support.py",
line 2, in <module>
import ctypes
File "/usr/local/lib/python3.8/ctypes/__init__.py", line 7, in <module>
from _ctypes import Union, Structure, Array
ModuleNotFoundError: No module named '_ctypes'
----------------------------------------
ERROR: Command errored out with exit status 1: python setup.py
egg_info Check the logs for full command output.
WARNING: You are using pip version 20.1.1; however, version 22.0.3
is available.
You should consider upgrading via the '/usr/local/bin/python3.8 -m
pip install --upgrade pip' command.
----------------------------------------
ERROR: Command errored out with exit status 1:
/usr/local/bin/python3.8 /usr/local/lib/python3.8/site-packages/pip
install --ignore-installed --no-user --prefix
/tmp/pip-build-env-j3i9og4s/overlay --no-warn-script-location
--no-binary :none: --only-binary :none: -i https://pypi.org/simple
--extra-index-url https://www.piwheels.org/simple --
'setuptools>=40.6.0' wheel 'cffi>=1.12; platform_python_implementation
!= '"'"'PyPy'"'"'' 'setuptools-rust>=0.11.4' Check the logs for full
command output.
I don't really understand what this means, and I'd like some assistance installing a package and trying to fix this error. Thanks! -Shane
EDIT: I found near the beginning the text 'Command errored out with exit status 1'
EDIT: I have installed libffi-dev.
Solved by upgrading pip to pip3 using sudo apt-get -y install python3-pip.
Looks like you may need to install libffi-dev. I'm not sure your distro, but it'll be there. Distro is raspbian.
Install with:
apt-get install libffi-dev
There are other questions that looks similar since they have the _ctypes issue, but I won't mark this as a duplicate since your question is exactly the same. I think the underlying root cause is probably the same. See here and here.
Context:
I am using the brand new MacBook pro with M1 pro, it has macOS Monterey 12.0 it is only has a week old.
I installed pyenv with brew and then I installed version 3.7.12, I wanted to create a venv and install pandas inside it but by mistake, I started to install it on the pyenv of the 3.7.12 without the venv created. When it was executing the installation and I realized I pressed Command + C and stopped.
After that, I created the venv "cosa5" and try to install it but it showed me the following error:
(cosa5) matiasnavarrete#MacBook-Pro-de-Matias codetest % pip install pandas
Collecting pandas
Using cached pandas-1.3.4.tar.gz (4.7 MB)
Installing build dependencies ... error
ERROR: Command errored out with exit status 1:
command: /Users/matiasnavarrete/Desktop/codetest/cosa5/bin/python /Users/matiasnavarrete/Desktop/codetest/cosa5/lib/python3.7/site-packages/pip install --ignore-installed --no-user --prefix /private/var/folders/4p/syttjfhj7896l__s3gtxnxkm0000gn/T/pip-build-env-44pq47ee/overlay --no-warn-script-location --no-binary :none: --only-binary :none: -i https://pypi.org/simple -- 'setuptools>=51.0.0' wheel 'Cython>=0.29.24,<3' 'oldest-supported-numpy>=0.10'
cwd: None
Complete output (29 lines):
Collecting setuptools>=51.0.0
Using cached setuptools-59.4.0-py3-none-any.whl (952 kB)
Collecting wheel
Using cached wheel-0.37.0-py2.py3-none-any.whl (35 kB)
Collecting Cython<3,>=0.29.24
Using cached Cython-0.29.24-py2.py3-none-any.whl (979 kB)
Collecting oldest-supported-numpy>=0.10
Using cached oldest_supported_numpy-0.12-py3-none-any.whl (3.8 kB)
Collecting numpy==1.14.5; python_version == "3.7" and platform_machine != "aarch64" and platform_system != "AIX" and platform_python_implementation != "PyPy"
Using cached numpy-1.14.5.zip (4.9 MB)
ERROR: Command errored out with exit status 1:
command: /Users/matiasnavarrete/Desktop/codetest/cosa5/bin/python -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/4p/syttjfhj7896l__s3gtxnxkm0000gn/T/pip-install-r3mgeudj/numpy/setup.py'"'"'; __file__='"'"'/private/var/folders/4p/syttjfhj7896l__s3gtxnxkm0000gn/T/pip-install-r3mgeudj/numpy/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' egg_info --egg-base /private/var/folders/4p/syttjfhj7896l__s3gtxnxkm0000gn/T/pip-pip-egg-info-h4uqe4mm
cwd: /private/var/folders/4p/syttjfhj7896l__s3gtxnxkm0000gn/T/pip-install-r3mgeudj/numpy/
Complete output (11 lines):
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/Users/matiasnavarrete/Desktop/codetest/cosa5/lib/python3.7/site-packages/setuptools/__init__.py", line 19, in <module>
from setuptools.dist import Distribution
File "/Users/matiasnavarrete/Desktop/codetest/cosa5/lib/python3.7/site-packages/setuptools/dist.py", line 34, in <module>
from setuptools import windows_support
File "/Users/matiasnavarrete/Desktop/codetest/cosa5/lib/python3.7/site-packages/setuptools/windows_support.py", line 2, in <module>
import ctypes
File "/Users/matiasnavarrete/.pyenv/versions/3.7.12/lib/python3.7/ctypes/__init__.py", line 7, in <module>
from _ctypes import Union, Structure, Array
ModuleNotFoundError: No module named '_ctypes'
----------------------------------------
ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.
WARNING: You are using pip version 20.1.1; however, version 21.3.1 is available.
You should consider upgrading via the '/Users/matiasnavarrete/Desktop/codetest/cosa5/bin/python -m pip install --upgrade pip' command.
----------------------------------------
ERROR: Command errored out with exit status 1: /Users/matiasnavarrete/Desktop/codetest/cosa5/bin/python /Users/matiasnavarrete/Desktop/codetest/cosa5/lib/python3.7/site-packages/pip install --ignore-installed --no-user --prefix /private/var/folders/4p/syttjfhj7896l__s3gtxnxkm0000gn/T/pip-build-env-44pq47ee/overlay --no-warn-script-location --no-binary :none: --only-binary :none: -i https://pypi.org/simple -- 'setuptools>=51.0.0' wheel 'Cython>=0.29.24,<3' 'oldest-supported-numpy>=0.10' Check the logs for full command output.
WARNING: You are using pip version 20.1.1; however, version 21.3.1 is available.
You should consider upgrading via the '/Users/matiasnavarrete/Desktop/codetest/cosa5/bin/python -m pip install --upgrade pip' command.
I don't know if the fact that I stopped it is related to the bug or not, but I mentioned it anyway.
Tried uninstalling 3.7.12 from pyenv, installing it again, creating a new venv but it keeps showing the same error.
After this I installed 3.9.9, I created the venv and I installed pandas and I had no problem with that version. It is 3.7.12 that keeps giving me problems.
Question:
How can I fix it?
I am trying to install paramiko package using pip and not able to proceed due to this error.
OS: Win 10 x64
Python version: 3.4.0 x86
I also installed MS Visual C++ 2008 Express edition and found that the environment variable is set correctly.
But, still it says that the vcvarsall.bat can't be found. The command line is attached below. Pl. suggest a solution for this.
C:\>pip install paramiko
Collecting paramiko
Using cached https://files.pythonhosted.org/packages/95/19/124e9287b43e6ff3ebb9cdea3e5e8e88475a873c05ccdf8b7e20d2c4201e/paramiko-2.7.2-py2.py3-none-any.whl
Collecting bcrypt>=3.1.3 (from paramiko)
Using cached https://files.pythonhosted.org/packages/04/1c/a026eef0c7547b9eef7c61d25df0c21ddacf91592725d6279ab2a500a39d/bcrypt-3.1.7-cp34-cp34m-win32.whl
Collecting pynacl>=1.0.1 (from paramiko)
Using cached https://files.pythonhosted.org/packages/cf/5a/25aeb636baeceab15c8e57e66b8aa930c011ec1c035f284170cacb05025e/PyNaCl-1.4.0.tar.gz
Installing build dependencies ... error
Complete output from command C:\Python34\python.exe -m pip install --ignore-installed --no-user --prefix C:\Users\Raghavan\AppData\Local\Temp\pip-build-env-nnl_k10v --no-warn-script-location --no-binary :none: --only-binary :none: -i https://pypi.org/simple -- setuptools>=40.8.0 wheel "cffi>=1.4.1; python_implementation != 'PyPy'":
Collecting setuptools>=40.8.0
Using cached https://files.pythonhosted.org/packages/91/af/18d58ed8a8e7e6b91d71b0367034faf8ea41e1004018811388ed07a7f2d6/setuptools-43.0.0-py2.py3-none-any.whl
Collecting wheel
Using cached https://files.pythonhosted.org/packages/00/83/b4a77d044e78ad1a45610eb88f745be2fd2c6d658f9798a15e384b7d57c9/wheel-0.33.6-py2.py3-none-any.whl
Collecting cffi>=1.4.1
Using cached https://files.pythonhosted.org/packages/cb/ae/380e33d621ae301770358eb11a896a34c34f30db188847a561e8e39ee866/cffi-1.14.3.tar.gz
Complete output from command python setup.py egg_info:
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "C:\Users\Raghavan\AppData\Local\Temp\pip-install-3wu31oij\cffi\setup.py", line 131, in <module>
if sys.platform == 'win32' and uses_msvc():
File "C:\Users\Raghavan\AppData\Local\Temp\pip-install-3wu31oij\cffi\setup.py", line 109, in uses_msvc
return config.try_compile('#ifndef _MSC_VER\n#error "not MSVC"\n#endif')
File "C:\Python34\lib\distutils\command\config.py", line 227, in try_compile
self._compile(body, headers, include_dirs, lang)
File "C:\Python34\lib\distutils\command\config.py", line 133, in _compile
self.compiler.compile([src], include_dirs=include_dirs)
File "C:\Python34\lib\distutils\msvc9compiler.py", line 460, in compile
self.initialize()
File "C:\Python34\lib\distutils\msvc9compiler.py", line 371, in initialize
vc_env = query_vcvarsall(VERSION, plat_spec)
File "C:\Python34\lib\distutils\msvc9compiler.py", line 259, in query_vcvarsall
raise DistutilsPlatformError("Unable to find vcvarsall.bat")
distutils.errors.DistutilsPlatformError: Unable to find vcvarsall.bat
----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in C:\Users\Raghavan\AppData\Local\Temp\pip-install-3wu31oij\cffi\
----------------------------------------
Command "C:\Python34\python.exe -m pip install --ignore-installed --no-user --prefix C:\Users\Raghavan\AppData\Local\Temp\pip-build-env-nnl_k10v --no-warn-script-location --no-binary :none: --only-binary :none: -i https://pypi.org/simple -- setuptools>=40.8.0 wheel "cffi>=1.4.1; python_implementation != 'PyPy'"" failed with error code 1 in None
I was facing issue while installing paramiko for Pycharm.
One suggestion i found was to use anaconda which come preinstalled with many packages including paramiko.
Found solution:
python -m pip install --upgrade pip
This command updated my pip version from 19.2.3 to 20.3.3
then successfully installed paramiko:
python -m pip install -U paramiko
Python 3.8 is installed in my system.
Its scikit-image Download says:
pip install -U scikit-image
or
easy_install -U scikit-image
but both fail, regardless of the flag U, as shown below:
Georgioss-MacBook-Pro:Downloads gsamaras$ sudo pip install scikit-image
The directory '/Users/gsamaras/Library/Caches/pip/http' or its parent directory is not owned by the current user and the cache has been disabled. Please check the permissions and owner of that directory. If executing pip with sudo, you may want sudo's -H flag.
The directory '/Users/gsamaras/Library/Caches/pip' or its parent directory is not owned by the current user and caching wheels has been disabled. check the permissions and owner of that directory. If executing pip with sudo, you may want sudo's -H flag.
Collecting scikit-image
Downloading scikit_image-0.12.3-cp27-cp27m-macosx_10_6_intel.macosx_10_9_intel.macosx_10_9_x86_64.macosx_10_10_intel.macosx_10_10_x86_64.whl (22.2MB)
100% |████████████████████████████████| 22.2MB 53kB/s
Requirement already satisfied: dask[array]>=0.5.0 in /Library/Python/2.7/site-packages (from scikit-image)
Collecting six>=1.7.3 (from scikit-image)
Downloading six-1.10.0-py2.py3-none-any.whl
Collecting networkx>=1.8 (from scikit-image)
Downloading networkx-1.11-py2.py3-none-any.whl (1.3MB)
100% |████████████████████████████████| 1.3MB 133kB/s
Requirement already satisfied: pillow>=2.1.0 in /Library/Python/2.7/site-packages (from scikit-image)
Requirement already satisfied: numpy; extra == "array" in /System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python (from dask[array]>=0.5.0->scikit-image)
Requirement already satisfied: toolz>=0.7.2; extra == "array" in /Library/Python/2.7/site-packages (from dask[array]>=0.5.0->scikit-image)
Collecting decorator>=3.4.0 (from networkx>=1.8->scikit-image)
Downloading decorator-4.0.10-py2.py3-none-any.whl
Installing collected packages: six, decorator, networkx, scikit-image
Found existing installation: six 1.4.1
DEPRECATION: Uninstalling a distutils installed project (six) has been deprecated and will be removed in a future version. This is due to the fact that uninstalling a distutils project will only partially uninstall the project.
Uninstalling six-1.4.1:
Exception:
Traceback (most recent call last):
File "/Library/Python/2.7/site-packages/pip-9.0.1-py2.7.egg/pip/basecommand.py", line 215, in main
status = self.run(options, args)
File "/Library/Python/2.7/site-packages/pip-9.0.1-py2.7.egg/pip/commands/install.py", line 342, in run
prefix=options.prefix_path,
File "/Library/Python/2.7/site-packages/pip-9.0.1-py2.7.egg/pip/req/req_set.py", line 778, in install
requirement.uninstall(auto_confirm=True)
File "/Library/Python/2.7/site-packages/pip-9.0.1-py2.7.egg/pip/req/req_install.py", line 754, in uninstall
paths_to_remove.remove(auto_confirm)
File "/Library/Python/2.7/site-packages/pip-9.0.1-py2.7.egg/pip/req/req_uninstall.py", line 115, in remove
renames(path, new_path)
File "/Library/Python/2.7/site-packages/pip-9.0.1-py2.7.egg/pip/utils/__init__.py", line 267, in renames
shutil.move(old, new)
File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/shutil.py", line 302, in move
copy2(src, real_dst)
File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/shutil.py", line 131, in copy2
copystat(src, dst)
File "/System/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/shutil.py", line 103, in copystat
os.chflags(dst, st.st_flags)
OSError: [Errno 1] Operation not permitted: '/tmp/pip-qlMJKP-uninstall/System/Library/Frameworks/Python.framework/Versions/2.7/Extras/lib/python/six-1.4.1-py2.7.egg-info'
Georgioss-MacBook-Pro:Downloads gsamaras$
and:
Georgioss-MacBook-Pro:Downloads gsamaras$ sudo easy_install scikit-image
Searching for scikit-image
Reading https://pypi.python.org/simple/scikit-image/
Best match: scikit-image 0.12.3
Downloading https://pypi.python.org/packages/86/d0/b0192dc9a544da90f2d9150bcd84b981c6873e42a1f752b6affb89180ad8/scikit-image-0.12.3.tar.gz#md5=04ea833383e0b6ad5f65da21292c25e1
Processing scikit-image-0.12.3.tar.gz
Writing /tmp/easy_install-X6Pjoh/scikit-image-0.12.3/setup.cfg
Running scikit-image-0.12.3/setup.py -q bdist_egg --dist-dir /tmp/easy_install-X6Pjoh/scikit-image-0.12.3/egg-dist-tmp-lHJxkL
Killed: 9
Notice that brew also fails, it cannot find it.
I have Python 2.7.10, Matplotlib 1.3.1, PIL 3.4.2 and Scipy '0.18.1'. What to do?
It's generally a bad idea to install libraries on your system-wide Python. Use a virtualenv for each project instead.
First install virtualenv globally on your Mac:
$ [sudo] pip install virtualenv
Then use virtualenv command to create a new (a copy) of Python executable:
$ cd your/prefred/folder
$ virtualenv your_project
Activate the virtualenv:
$ source your_project/bin/activate
Your virtualenv is created and activated (the prompt is changed to show the activation). You can install anything in it:
$ pip install -U scikit-image
pip install scikit-image
pip install --upgrade scikit-image
to call use skimage
(Entering this as an answer so as to include the error message).
Using the first answer from #Krackle I got the following (confusing) output which I am adding here to help others:
pip install skimage
Collecting skimage
Using cached skimage-0.0.tar.gz (757 bytes)
ERROR: Command errored out with exit status 1:
command: /opt/anaconda3/bin/python -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/private/var/folders/ft/7j605bsd10l0ftqygyxjjflh0000gq/T/pip-install-xtxr1328/skimage/setup.py'"'"'; __file__='"'"'/private/var/folders/ft/7j605bsd10l0ftqygyxjjflh0000gq/T/pip-install-xtxr1328/skimage/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' egg_info --egg-base /private/var/folders/ft/7j605bsd10l0ftqygyxjjflh0000gq/T/pip-pip-egg-info-q8dwl8rl
cwd: /private/var/folders/ft/7j605bsd10l0ftqygyxjjflh0000gq/T/pip-install-xtxr1328/skimage/
Complete output (3 lines):
*** Please install the `scikit-image` package (instead of `skimage`) ***
----------------------------------------
ERROR: Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.
I then used #Krackle's second command which (so far) has solved the problem.