Related
I am trying to build a shared library using a C extension file but first I have to generate the output file using the command below:
gcc -Wall utilsmodule.c -o Utilc
After executing the command, I get this error message:
> utilsmodule.c:1:20: fatal error: Python.h: No such file or directory
compilation terminated.
I have tried all the suggested solutions over the internet but the problem still exists. I have no problem with Python.h. I managed to locate the file on my machine.
Looks like you haven't properly installed the header files and static libraries for python dev. Use your package manager to install them system-wide.
For apt (Ubuntu, Debian...):
sudo apt-get install python-dev # for python2.x installs
sudo apt-get install python3-dev # for python3.x installs
For yum (CentOS, RHEL...):
sudo yum install python-devel # for python2.x installs
sudo yum install python3-devel # for python3.x installs
For dnf (Fedora...):
sudo dnf install python2-devel # for python2.x installs
sudo dnf install python3-devel # for python3.x installs
For zypper (openSUSE...):
sudo zypper in python-devel # for python2.x installs
sudo zypper in python3-devel # for python3.x installs
For apk (Alpine...):
# This is a departure from the normal Alpine naming
# scheme, which uses py2- and py3- prefixes
sudo apk add python2-dev # for python2.x installs
sudo apk add python3-dev # for python3.x installs
For apt-cyg (Cygwin...):
apt-cyg install python-devel # for python2.x installs
apt-cyg install python3-devel # for python3.x installs
Note: python3-dev does not automatically cover all minor versions of python3, if you are using e.g. python 3.8 you may need to install python3.8-dev.
On Ubuntu, I was running Python 3 and I had to install
sudo apt-get install python3-dev
If you want to use a version of Python that is not linked to python3, install the associated python3.x-dev package. For example:
sudo apt-get install python3.5-dev
For Python 3.7 and Ubuntu in particular, I needed
sudo apt install libpython3.7-dev
.
I think at some point names were changed from pythonm.n-dev to this.
for Python 3.6, 3.8 through 3.10 (and counting…) similarly:
sudo apt install libpython3.6-dev
sudo apt install libpython3.8-dev
sudo apt install libpython3.9-dev
sudo apt install libpython3.10-dev
Two things you have to do.
Install development package for Python, in case of Debian/Ubuntu/Mint it's done with command:
sudo apt-get install python-dev
Second thing is that include files are not by default in the include path, nor is Python library linked with executable by default. You need to add these flags (replace Python's version accordingly):
-I/usr/include/python2.7 -lpython2.7
In other words your compile command ought to be:
gcc -Wall -I/usr/include/python2.7 -lpython2.7 utilsmodule.c -o Utilc
on Fedora run this for Python 2:
sudo dnf install python2-devel
and for Python 3:
sudo dnf install python3-devel
If you are using tox to run tests on multiple versions of Python, you may need to install the Python dev libraries for each version of Python you are testing on.
sudo apt-get install python2.6-dev
sudo apt-get install python2.7-dev
etc.
Make sure that the Python dev files come with your OS.
You should not hard code the library and include paths. Instead, use pkg-config, which will output the correct options for your specific system:
$ pkg-config --cflags --libs python2
-I/usr/include/python2.7 -lpython2.7
You may add it to your gcc line:
gcc -Wall utilsmodule.c -o Utilc $(pkg-config --cflags --libs python2)
For me, changing it to this worked:
#include <python2.7/Python.h>
I found the file /usr/include/python2.7/Python.h, and since /usr/include is already in the include path, then python2.7/Python.h should be sufficient.
You could also add the include path from command line instead - gcc -I/usr/lib/python2.7 (thanks #erm3nda).
Solution for Cygwin
You need to install the package python2-devel or python3-devel, depending on the Python version you're using.
You can quickly install it using the 32-bit or 64-bit setup.exe (depending on your installation) from Cygwin.com.
Example (modify setup.exe's filename and Python's major version if you need):
$ setup.exe -q --packages=python3-devel
You can also check my other answer for a few more options to install Cygwin's packages from the command-line.
In AWS API (centOS) its
yum install python27-devel
AWS EC2 install running python34:
sudo yum install python34-devel
If you use a virtualenv with a 3.6 python (edge right now), be sure to install the matching python 3.6 dev sudo apt-get install python3.6-dev, otherwise executing sudo python3-dev will install the python dev 3.3.3-1, which won't solve the issue.
In my case, what fixed it in Ubuntu was to install the packages libpython-all-dev (or libpython3-all-dev if you use Python 3).
It's not the same situation, but it also works for me and now I can use SWIG with Python3.5:
I was trying to compile:
gcc -fPIC -c existe.c existe_wrap.c -I /usr/include/python3.5m/
With Python 2.7 works fine, not with my version 3.5:
existe_wrap.c:147:21: fatal error: Python.h: No existe el archivo o el
directorio compilation terminated.
After run in my Ubuntu 16.04 installation:
sudo apt-get install python3-dev # for python3.x installs
Now I can compile without problems Python3.5:
gcc -fPIC -c existe.c existe_wrap.c -I /usr/include/python3.5m/
I managed to solve this issue and generate the .so file in one command
gcc -shared -o UtilcS.so
-fPIC -I/usr/include/python2.7 -lpython2.7 utilsmodule.c
I also encountered this error when I was installing coolprop in ubuntu.
For ubuntu 16.04 with python 3.6
sudo apt-get install python3.6-dev
If ever this doesn't work try installing/updating gcc lib.
sudo apt-get install gcc
try apt-file. It is difficult to remember the package name where the missing file resides. It is generic and useful for any package files.
For example:
root#ubuntu234:~/auto# apt-file search --regexp '/Python.h$'
pypy-dev: /usr/lib/pypy/include/Python.h
python2.7-dbg: /usr/include/python2.7_d/Python.h
python2.7-dev: /usr/include/python2.7/Python.h
python3.2-dbg: /usr/include/python3.2dmu/Python.h
python3.2-dev: /usr/include/python3.2mu/Python.h
root#ubuntu234:~/auto#
Now you can make an expert guess as to which one to choose from.
This problem can also arrive when you have different Python versions installed and you use a pip that's not the system's one. In that case, the non-system pip won't find the right version of Python headers.
It happened to me when trying to pip install a package for a Python bundled with an application. As it was not system's python, apt install pythonXX-dev didn't work.
In this case, the solution is to find the right python header:
find / -iname 'Python.h'
In the output, you will see system python headers, and hopefully the one you are looking for, for example:
/usr/include/python3.7m/Python.h
/usr/include/python3.6m/Python.h
/home/ubuntu/workspace/blender-git/lib/linux_centos7_x86_64/python/include/python3.7m/Python.h
/home/ubuntu/miniconda3/pkgs/python-3.8.5-h7579374_1/include/python3.8/Python.h
/home/ubuntu/miniconda3/pkgs/python-3.7.0-h6e4f718_3/include/python3.7m/Python.h
/home/ubuntu/miniconda3/include/python3.8/Python.h
/home/ubuntu/miniconda3/envs/sim/include/python3.7m/Python.h
/home/ubuntu/src/blender-deps/Python-3.7.7/Include/Python.h
/opt/lib/python-3.7.7/include/python3.7m/Python.h
Then, you can set a compiler flag that will get used by gcc when called by pip.
Mine was /home/ubuntu/workspace/blender-git/lib/linux_centos7_x86_64/python/include/python3.7m/Python.h, so I did:
export CPPFLAGS=-I/home/ubuntu/src/blender-deps/Python-3.7.7/Include
pip install <package>
For CentOS 7:
sudo yum install python36u-devel
I followed the instructions here for installing python3.6 on several VMs: https://www.digitalocean.com/community/tutorials/how-to-install-python-3-and-set-up-a-local-programming-environment-on-centos-7
and was then able to build mod_wsgi and get it working with a python3.6 virtualenv
For the OpenSuse comrades out there:
sudo zypper install python3-devel
Here is yet another solution, because none of these solutions worked for me. For reference, I was trying to pip install something on an Amazon Linux AMI base Docker image for Python 3.6.
Non-docker solution:
# Install python3-devel like everyone says
yum -y install python36-devel.x86_64
# Find the install directory of `Python.h`
rpm -ql python36-devel.x86_64 | grep -i "Python.h"
# Forcefully add it to your include path
C_INCLUDE_PATH='/usr/include/python3.6m'
export C_INCLUDE_PATH
Docker solution:
# Install python3-devel like everyone says
RUN yum -y install python36-devel.x86_64
# Find the install directory of `Python.h`, for me it was /usr/include/python3.6m
RUN rpm -ql python36-devel.x86_64 | grep -i "Python.h" && fake_command_so_docker_fails_and_shows_us_the_output
# Since the previous command contains a purposeful error, remove it before the next run
# Forcefully add it to your include path
ARG C_INCLUDE_PATH='/usr/include/python3.6m'
NOTE: If you're getting the error when compiling C++, use CPLUS_INCLUDE_PATH.
Alternatively, you may prefer to use another Docker image. For example, I was trying to install asyncpg~=0.24.0 on python:3.9.4-slim, which generated the same error as you saw. However, when I updated the image to python:3, it worked fine.
If you're using Python 3.6 on Amazon Linux (based on RHEL, but the RHEL answers given here didn't work):
sudo yum install python36-devel
You must install the Python development files on your operating system if the Python provided with your operating system does not come with them. The many answers on this question show the myriad ways this can be achieved on different systems.
When you have done so, the problem is telling the compiler where they're located and how to compile against them. Python comes with a program called python-config. For compilation, you need the --includes output and for linking a program against the Python library (embedding Python into your program) the --ldflags output. Example:
gcc -c mypythonprogram.c $(python3-config --includes)
gcc -o program mypythonprogram.o $(python3-config --ldflags)
The python-config program can be named after the Python versions - on Debian, Ubuntu for example these can be named python3-config or python3.6-config.
Sure python-dev or libpython-all-dev are the first thing to (apt )install, but if that doesn't help as was my case, I advice you to install the foreign Function Interface packages by sudo apt-get install libffi-dev and sudo pip install cffi.
This should help out especially if you see the error as/from c/_cffi_backend.c:2:20: fatal error: Python.h: No such file or directory.
try locate your Python.h:
gemfield#ThinkPad-X1C:~$ locate Python.h
/home/gemfield/anaconda3/include/python3.7m/Python.h
/home/gemfield/anaconda3/pkgs/python-3.7.6-h0371630_2/include/python3.7m/Python.h
/usr/include/python3.8/Python.h
if not found, then install python-dev or python3-dev; else include the correct header path for compiler:
g++ -I/usr/include/python3.8 ...
I am on Ubuntu. I have installed all packages as was recommended in some answers.
sudo apt-get install python-dev # for python2.x installs
sudo apt-get install python3-dev # for python3.x installs
I still had this problem, the line:
#include "Python.h"
And some others, I can edit them manually, it is a bad practice.
I know the secret now, it comes from the cython source code. I have the file. It compiles without errors. That is the file.
Change PYTHON to python version you have, python/python3. Change FILE to your c-filename. The name of the makefile file should be Makefile. Run the the file with the command:
make all
Makefile for creating our standalone Cython program
FILE := file.c
PYTHON := python3
PYVERSION := $(shell $(PYTHON) -c "import sys;
print(sys.version[:3])")
PYPREFIX := $(shell $(PYTHON) -c "import sys; print(sys.prefix)")
INCDIR := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_python_inc())")
PLATINCDIR := $(shell $(PYTHON) -c "from distutils import
sysconfig; print(sysconfig.get_python_inc(plat_specific=True))")
LIBDIR1 := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBDIR'))")
LIBDIR2 := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBPL'))")
PYLIB := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBRARY')[3:-2])")
CC := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('CC'))")
LINKCC := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LINKCC'))")
LINKFORSHARED := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LINKFORSHARED'))")
LIBS := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LIBS'))")
SYSLIBS := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('SYSLIBS'))")
.PHONY: paths all clean test
paths:
#echo "PYTHON=$(PYTHON)"
#echo "PYVERSION=$(PYVERSION)"
#echo "PYPREFIX=$(PYPREFIX)"
#echo "INCDIR=$(INCDIR)"
#echo "PLATINCDIR=$(PLATINCDIR)"
#echo "LIBDIR1=$(LIBDIR1)"
#echo "LIBDIR2=$(LIBDIR2)"
#echo "PYLIB=$(PYLIB)"
#echo "CC=$(CC)"
#echo "LINKCC=$(LINKCC)"
#echo "LINKFORSHARED=$(LINKFORSHARED)"
#echo "LIBS=$(LIBS)"
#echo "SYSLIBS=$(SYSLIBS)"
$(FILE:.c=): $(FILE:.c=.o)
$(LINKCC) -o $# $^ -L$(LIBDIR1) -L$(LIBDIR2) -l$(PYLIB)
$(LIBS) $(SYSLIBS) $(LINKFORSHARED)
$(FILE:.c=.o): $(FILE)
$(CC) -c $^ -I$(INCDIR) -I$(PLATINCDIR)
all: $(FILE:.c=)
This error occurred when I attempted to install ctds on CentOS 7 with Python3.6. I did all the tricks mentioned here including yum install python34-devel. The problem was Python.h was found in /usr/include/python3.4m but not in /usr/include/python3.6m. I tried to use --global-option to point to include dir (pip3.6 install --global-option=build_ext --global-option="--include-dirs=/usr/include/python3.4m" ctds). This resulted in a lpython3.6m not found when linking ctds.
Finally what worked was fixing the development environment for Python3.6 needs to correct with the include and libs.
yum -y install https://dl.iuscommunity.org/pub/ius/stable/CentOS/7/x86_64/python36u-libs-3.6.3-1.ius.centos7.x86_64.rpm
Python.h needs to be in your include path for gcc. Whichever version of python is used, for example if it's 3.6, then it should be in /usr/include/python3.6m/Python.h typically.
Sometimes even after installing python-dev the error persists,
Check for the error if it is 'gcc' missing.
First download as stated in https://stackoverflow.com/a/21530768/8687063, then install gcc
For apt (Ubuntu, Debian...):
sudo apt-get install gcc
For yum (CentOS, RHEL...):
sudo yum install gcc
For dnf (Fedora...):
sudo dnf install gcc
For zypper (openSUSE...):
sudo zypper in gcc
For apk (Alpine...):
sudo apk gcc
It often appear when you trying to remove python3.5 and install python3.6.
So when using python3 (which python3 -V => python3.6) to install some packages required python3.5 header will appear this error.
Resolve by install python3.6-dev module.
This means that Python.h isn't in your compiler's default include paths. Have you installed it system-wide or locally? What's your OS?
You could use the -I<path> flag to specify an additional directory where your compiler should look for headers. You will probably have to follow up with -L<path> so that gcc can find the library you'll be linking with using -l<name>.
I am trying to build a shared library using a C extension file but first I have to generate the output file using the command below:
gcc -Wall utilsmodule.c -o Utilc
After executing the command, I get this error message:
> utilsmodule.c:1:20: fatal error: Python.h: No such file or directory
compilation terminated.
I have tried all the suggested solutions over the internet but the problem still exists. I have no problem with Python.h. I managed to locate the file on my machine.
Looks like you haven't properly installed the header files and static libraries for python dev. Use your package manager to install them system-wide.
For apt (Ubuntu, Debian...):
sudo apt-get install python-dev # for python2.x installs
sudo apt-get install python3-dev # for python3.x installs
For yum (CentOS, RHEL...):
sudo yum install python-devel # for python2.x installs
sudo yum install python3-devel # for python3.x installs
For dnf (Fedora...):
sudo dnf install python2-devel # for python2.x installs
sudo dnf install python3-devel # for python3.x installs
For zypper (openSUSE...):
sudo zypper in python-devel # for python2.x installs
sudo zypper in python3-devel # for python3.x installs
For apk (Alpine...):
# This is a departure from the normal Alpine naming
# scheme, which uses py2- and py3- prefixes
sudo apk add python2-dev # for python2.x installs
sudo apk add python3-dev # for python3.x installs
For apt-cyg (Cygwin...):
apt-cyg install python-devel # for python2.x installs
apt-cyg install python3-devel # for python3.x installs
Note: python3-dev does not automatically cover all minor versions of python3, if you are using e.g. python 3.8 you may need to install python3.8-dev.
On Ubuntu, I was running Python 3 and I had to install
sudo apt-get install python3-dev
If you want to use a version of Python that is not linked to python3, install the associated python3.x-dev package. For example:
sudo apt-get install python3.5-dev
For Python 3.7 and Ubuntu in particular, I needed
sudo apt install libpython3.7-dev
.
I think at some point names were changed from pythonm.n-dev to this.
for Python 3.6, 3.8 through 3.10 (and counting…) similarly:
sudo apt install libpython3.6-dev
sudo apt install libpython3.8-dev
sudo apt install libpython3.9-dev
sudo apt install libpython3.10-dev
Two things you have to do.
Install development package for Python, in case of Debian/Ubuntu/Mint it's done with command:
sudo apt-get install python-dev
Second thing is that include files are not by default in the include path, nor is Python library linked with executable by default. You need to add these flags (replace Python's version accordingly):
-I/usr/include/python2.7 -lpython2.7
In other words your compile command ought to be:
gcc -Wall -I/usr/include/python2.7 -lpython2.7 utilsmodule.c -o Utilc
on Fedora run this for Python 2:
sudo dnf install python2-devel
and for Python 3:
sudo dnf install python3-devel
If you are using tox to run tests on multiple versions of Python, you may need to install the Python dev libraries for each version of Python you are testing on.
sudo apt-get install python2.6-dev
sudo apt-get install python2.7-dev
etc.
Make sure that the Python dev files come with your OS.
You should not hard code the library and include paths. Instead, use pkg-config, which will output the correct options for your specific system:
$ pkg-config --cflags --libs python2
-I/usr/include/python2.7 -lpython2.7
You may add it to your gcc line:
gcc -Wall utilsmodule.c -o Utilc $(pkg-config --cflags --libs python2)
For me, changing it to this worked:
#include <python2.7/Python.h>
I found the file /usr/include/python2.7/Python.h, and since /usr/include is already in the include path, then python2.7/Python.h should be sufficient.
You could also add the include path from command line instead - gcc -I/usr/lib/python2.7 (thanks #erm3nda).
Solution for Cygwin
You need to install the package python2-devel or python3-devel, depending on the Python version you're using.
You can quickly install it using the 32-bit or 64-bit setup.exe (depending on your installation) from Cygwin.com.
Example (modify setup.exe's filename and Python's major version if you need):
$ setup.exe -q --packages=python3-devel
You can also check my other answer for a few more options to install Cygwin's packages from the command-line.
In AWS API (centOS) its
yum install python27-devel
AWS EC2 install running python34:
sudo yum install python34-devel
If you use a virtualenv with a 3.6 python (edge right now), be sure to install the matching python 3.6 dev sudo apt-get install python3.6-dev, otherwise executing sudo python3-dev will install the python dev 3.3.3-1, which won't solve the issue.
In my case, what fixed it in Ubuntu was to install the packages libpython-all-dev (or libpython3-all-dev if you use Python 3).
It's not the same situation, but it also works for me and now I can use SWIG with Python3.5:
I was trying to compile:
gcc -fPIC -c existe.c existe_wrap.c -I /usr/include/python3.5m/
With Python 2.7 works fine, not with my version 3.5:
existe_wrap.c:147:21: fatal error: Python.h: No existe el archivo o el
directorio compilation terminated.
After run in my Ubuntu 16.04 installation:
sudo apt-get install python3-dev # for python3.x installs
Now I can compile without problems Python3.5:
gcc -fPIC -c existe.c existe_wrap.c -I /usr/include/python3.5m/
I managed to solve this issue and generate the .so file in one command
gcc -shared -o UtilcS.so
-fPIC -I/usr/include/python2.7 -lpython2.7 utilsmodule.c
I also encountered this error when I was installing coolprop in ubuntu.
For ubuntu 16.04 with python 3.6
sudo apt-get install python3.6-dev
If ever this doesn't work try installing/updating gcc lib.
sudo apt-get install gcc
try apt-file. It is difficult to remember the package name where the missing file resides. It is generic and useful for any package files.
For example:
root#ubuntu234:~/auto# apt-file search --regexp '/Python.h$'
pypy-dev: /usr/lib/pypy/include/Python.h
python2.7-dbg: /usr/include/python2.7_d/Python.h
python2.7-dev: /usr/include/python2.7/Python.h
python3.2-dbg: /usr/include/python3.2dmu/Python.h
python3.2-dev: /usr/include/python3.2mu/Python.h
root#ubuntu234:~/auto#
Now you can make an expert guess as to which one to choose from.
This problem can also arrive when you have different Python versions installed and you use a pip that's not the system's one. In that case, the non-system pip won't find the right version of Python headers.
It happened to me when trying to pip install a package for a Python bundled with an application. As it was not system's python, apt install pythonXX-dev didn't work.
In this case, the solution is to find the right python header:
find / -iname 'Python.h'
In the output, you will see system python headers, and hopefully the one you are looking for, for example:
/usr/include/python3.7m/Python.h
/usr/include/python3.6m/Python.h
/home/ubuntu/workspace/blender-git/lib/linux_centos7_x86_64/python/include/python3.7m/Python.h
/home/ubuntu/miniconda3/pkgs/python-3.8.5-h7579374_1/include/python3.8/Python.h
/home/ubuntu/miniconda3/pkgs/python-3.7.0-h6e4f718_3/include/python3.7m/Python.h
/home/ubuntu/miniconda3/include/python3.8/Python.h
/home/ubuntu/miniconda3/envs/sim/include/python3.7m/Python.h
/home/ubuntu/src/blender-deps/Python-3.7.7/Include/Python.h
/opt/lib/python-3.7.7/include/python3.7m/Python.h
Then, you can set a compiler flag that will get used by gcc when called by pip.
Mine was /home/ubuntu/workspace/blender-git/lib/linux_centos7_x86_64/python/include/python3.7m/Python.h, so I did:
export CPPFLAGS=-I/home/ubuntu/src/blender-deps/Python-3.7.7/Include
pip install <package>
For CentOS 7:
sudo yum install python36u-devel
I followed the instructions here for installing python3.6 on several VMs: https://www.digitalocean.com/community/tutorials/how-to-install-python-3-and-set-up-a-local-programming-environment-on-centos-7
and was then able to build mod_wsgi and get it working with a python3.6 virtualenv
For the OpenSuse comrades out there:
sudo zypper install python3-devel
Here is yet another solution, because none of these solutions worked for me. For reference, I was trying to pip install something on an Amazon Linux AMI base Docker image for Python 3.6.
Non-docker solution:
# Install python3-devel like everyone says
yum -y install python36-devel.x86_64
# Find the install directory of `Python.h`
rpm -ql python36-devel.x86_64 | grep -i "Python.h"
# Forcefully add it to your include path
C_INCLUDE_PATH='/usr/include/python3.6m'
export C_INCLUDE_PATH
Docker solution:
# Install python3-devel like everyone says
RUN yum -y install python36-devel.x86_64
# Find the install directory of `Python.h`, for me it was /usr/include/python3.6m
RUN rpm -ql python36-devel.x86_64 | grep -i "Python.h" && fake_command_so_docker_fails_and_shows_us_the_output
# Since the previous command contains a purposeful error, remove it before the next run
# Forcefully add it to your include path
ARG C_INCLUDE_PATH='/usr/include/python3.6m'
NOTE: If you're getting the error when compiling C++, use CPLUS_INCLUDE_PATH.
Alternatively, you may prefer to use another Docker image. For example, I was trying to install asyncpg~=0.24.0 on python:3.9.4-slim, which generated the same error as you saw. However, when I updated the image to python:3, it worked fine.
If you're using Python 3.6 on Amazon Linux (based on RHEL, but the RHEL answers given here didn't work):
sudo yum install python36-devel
You must install the Python development files on your operating system if the Python provided with your operating system does not come with them. The many answers on this question show the myriad ways this can be achieved on different systems.
When you have done so, the problem is telling the compiler where they're located and how to compile against them. Python comes with a program called python-config. For compilation, you need the --includes output and for linking a program against the Python library (embedding Python into your program) the --ldflags output. Example:
gcc -c mypythonprogram.c $(python3-config --includes)
gcc -o program mypythonprogram.o $(python3-config --ldflags)
The python-config program can be named after the Python versions - on Debian, Ubuntu for example these can be named python3-config or python3.6-config.
Sure python-dev or libpython-all-dev are the first thing to (apt )install, but if that doesn't help as was my case, I advice you to install the foreign Function Interface packages by sudo apt-get install libffi-dev and sudo pip install cffi.
This should help out especially if you see the error as/from c/_cffi_backend.c:2:20: fatal error: Python.h: No such file or directory.
try locate your Python.h:
gemfield#ThinkPad-X1C:~$ locate Python.h
/home/gemfield/anaconda3/include/python3.7m/Python.h
/home/gemfield/anaconda3/pkgs/python-3.7.6-h0371630_2/include/python3.7m/Python.h
/usr/include/python3.8/Python.h
if not found, then install python-dev or python3-dev; else include the correct header path for compiler:
g++ -I/usr/include/python3.8 ...
I am on Ubuntu. I have installed all packages as was recommended in some answers.
sudo apt-get install python-dev # for python2.x installs
sudo apt-get install python3-dev # for python3.x installs
I still had this problem, the line:
#include "Python.h"
And some others, I can edit them manually, it is a bad practice.
I know the secret now, it comes from the cython source code. I have the file. It compiles without errors. That is the file.
Change PYTHON to python version you have, python/python3. Change FILE to your c-filename. The name of the makefile file should be Makefile. Run the the file with the command:
make all
Makefile for creating our standalone Cython program
FILE := file.c
PYTHON := python3
PYVERSION := $(shell $(PYTHON) -c "import sys;
print(sys.version[:3])")
PYPREFIX := $(shell $(PYTHON) -c "import sys; print(sys.prefix)")
INCDIR := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_python_inc())")
PLATINCDIR := $(shell $(PYTHON) -c "from distutils import
sysconfig; print(sysconfig.get_python_inc(plat_specific=True))")
LIBDIR1 := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBDIR'))")
LIBDIR2 := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBPL'))")
PYLIB := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBRARY')[3:-2])")
CC := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('CC'))")
LINKCC := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LINKCC'))")
LINKFORSHARED := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LINKFORSHARED'))")
LIBS := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LIBS'))")
SYSLIBS := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('SYSLIBS'))")
.PHONY: paths all clean test
paths:
#echo "PYTHON=$(PYTHON)"
#echo "PYVERSION=$(PYVERSION)"
#echo "PYPREFIX=$(PYPREFIX)"
#echo "INCDIR=$(INCDIR)"
#echo "PLATINCDIR=$(PLATINCDIR)"
#echo "LIBDIR1=$(LIBDIR1)"
#echo "LIBDIR2=$(LIBDIR2)"
#echo "PYLIB=$(PYLIB)"
#echo "CC=$(CC)"
#echo "LINKCC=$(LINKCC)"
#echo "LINKFORSHARED=$(LINKFORSHARED)"
#echo "LIBS=$(LIBS)"
#echo "SYSLIBS=$(SYSLIBS)"
$(FILE:.c=): $(FILE:.c=.o)
$(LINKCC) -o $# $^ -L$(LIBDIR1) -L$(LIBDIR2) -l$(PYLIB)
$(LIBS) $(SYSLIBS) $(LINKFORSHARED)
$(FILE:.c=.o): $(FILE)
$(CC) -c $^ -I$(INCDIR) -I$(PLATINCDIR)
all: $(FILE:.c=)
This error occurred when I attempted to install ctds on CentOS 7 with Python3.6. I did all the tricks mentioned here including yum install python34-devel. The problem was Python.h was found in /usr/include/python3.4m but not in /usr/include/python3.6m. I tried to use --global-option to point to include dir (pip3.6 install --global-option=build_ext --global-option="--include-dirs=/usr/include/python3.4m" ctds). This resulted in a lpython3.6m not found when linking ctds.
Finally what worked was fixing the development environment for Python3.6 needs to correct with the include and libs.
yum -y install https://dl.iuscommunity.org/pub/ius/stable/CentOS/7/x86_64/python36u-libs-3.6.3-1.ius.centos7.x86_64.rpm
Python.h needs to be in your include path for gcc. Whichever version of python is used, for example if it's 3.6, then it should be in /usr/include/python3.6m/Python.h typically.
Sometimes even after installing python-dev the error persists,
Check for the error if it is 'gcc' missing.
First download as stated in https://stackoverflow.com/a/21530768/8687063, then install gcc
For apt (Ubuntu, Debian...):
sudo apt-get install gcc
For yum (CentOS, RHEL...):
sudo yum install gcc
For dnf (Fedora...):
sudo dnf install gcc
For zypper (openSUSE...):
sudo zypper in gcc
For apk (Alpine...):
sudo apk gcc
It often appear when you trying to remove python3.5 and install python3.6.
So when using python3 (which python3 -V => python3.6) to install some packages required python3.5 header will appear this error.
Resolve by install python3.6-dev module.
This means that Python.h isn't in your compiler's default include paths. Have you installed it system-wide or locally? What's your OS?
You could use the -I<path> flag to specify an additional directory where your compiler should look for headers. You will probably have to follow up with -L<path> so that gcc can find the library you'll be linking with using -l<name>.
I try to install the pythonnet library on linux, but I can have trouble with nuget/mono.
I tryed to run the following (Install pythonnet on Ubuntu 18.04, Python 3.6.7 64-bit, Mono 5.16 fails):
sudo apt update
sudo apt-get install clang
sudo apt install nuget
git config --global http.proxy http://my.proxy.address:port
/usr/bin/python3 -m pip install -U pycparser --user
/usr/bin/python3 -m pip install -U pythonnet --user
However, this results in the following error:
mono tools/nuget/nuget.exe update -self' returned non-zero exit status 1.
When I clone the repository from github and just run mono tools/nuget/nuget.exe update -self, I get the following error:
Checking for updates from https://www.nuget.org/api/v2/. Invalid URI: Invalid port specified.
I came across this link: https://github.com/NuGet/Home/issues/2880, but most of the advice is Windows focussed. Does anyone know how to fix this?
Thank you!
I had the same problem and needed to install mono first:
sudo apt-get install mono-complete
I am trying to build a shared library using a C extension file but first I have to generate the output file using the command below:
gcc -Wall utilsmodule.c -o Utilc
After executing the command, I get this error message:
> utilsmodule.c:1:20: fatal error: Python.h: No such file or directory
compilation terminated.
I have tried all the suggested solutions over the internet but the problem still exists. I have no problem with Python.h. I managed to locate the file on my machine.
Looks like you haven't properly installed the header files and static libraries for python dev. Use your package manager to install them system-wide.
For apt (Ubuntu, Debian...):
sudo apt-get install python-dev # for python2.x installs
sudo apt-get install python3-dev # for python3.x installs
For yum (CentOS, RHEL...):
sudo yum install python-devel # for python2.x installs
sudo yum install python3-devel # for python3.x installs
For dnf (Fedora...):
sudo dnf install python2-devel # for python2.x installs
sudo dnf install python3-devel # for python3.x installs
For zypper (openSUSE...):
sudo zypper in python-devel # for python2.x installs
sudo zypper in python3-devel # for python3.x installs
For apk (Alpine...):
# This is a departure from the normal Alpine naming
# scheme, which uses py2- and py3- prefixes
sudo apk add python2-dev # for python2.x installs
sudo apk add python3-dev # for python3.x installs
For apt-cyg (Cygwin...):
apt-cyg install python-devel # for python2.x installs
apt-cyg install python3-devel # for python3.x installs
Note: python3-dev does not automatically cover all minor versions of python3, if you are using e.g. python 3.8 you may need to install python3.8-dev.
On Ubuntu, I was running Python 3 and I had to install
sudo apt-get install python3-dev
If you want to use a version of Python that is not linked to python3, install the associated python3.x-dev package. For example:
sudo apt-get install python3.5-dev
For Python 3.7 and Ubuntu in particular, I needed
sudo apt install libpython3.7-dev
.
I think at some point names were changed from pythonm.n-dev to this.
for Python 3.6, 3.8 through 3.10 (and counting…) similarly:
sudo apt install libpython3.6-dev
sudo apt install libpython3.8-dev
sudo apt install libpython3.9-dev
sudo apt install libpython3.10-dev
Two things you have to do.
Install development package for Python, in case of Debian/Ubuntu/Mint it's done with command:
sudo apt-get install python-dev
Second thing is that include files are not by default in the include path, nor is Python library linked with executable by default. You need to add these flags (replace Python's version accordingly):
-I/usr/include/python2.7 -lpython2.7
In other words your compile command ought to be:
gcc -Wall -I/usr/include/python2.7 -lpython2.7 utilsmodule.c -o Utilc
on Fedora run this for Python 2:
sudo dnf install python2-devel
and for Python 3:
sudo dnf install python3-devel
If you are using tox to run tests on multiple versions of Python, you may need to install the Python dev libraries for each version of Python you are testing on.
sudo apt-get install python2.6-dev
sudo apt-get install python2.7-dev
etc.
Make sure that the Python dev files come with your OS.
You should not hard code the library and include paths. Instead, use pkg-config, which will output the correct options for your specific system:
$ pkg-config --cflags --libs python2
-I/usr/include/python2.7 -lpython2.7
You may add it to your gcc line:
gcc -Wall utilsmodule.c -o Utilc $(pkg-config --cflags --libs python2)
For me, changing it to this worked:
#include <python2.7/Python.h>
I found the file /usr/include/python2.7/Python.h, and since /usr/include is already in the include path, then python2.7/Python.h should be sufficient.
You could also add the include path from command line instead - gcc -I/usr/lib/python2.7 (thanks #erm3nda).
Solution for Cygwin
You need to install the package python2-devel or python3-devel, depending on the Python version you're using.
You can quickly install it using the 32-bit or 64-bit setup.exe (depending on your installation) from Cygwin.com.
Example (modify setup.exe's filename and Python's major version if you need):
$ setup.exe -q --packages=python3-devel
You can also check my other answer for a few more options to install Cygwin's packages from the command-line.
In AWS API (centOS) its
yum install python27-devel
AWS EC2 install running python34:
sudo yum install python34-devel
If you use a virtualenv with a 3.6 python (edge right now), be sure to install the matching python 3.6 dev sudo apt-get install python3.6-dev, otherwise executing sudo python3-dev will install the python dev 3.3.3-1, which won't solve the issue.
In my case, what fixed it in Ubuntu was to install the packages libpython-all-dev (or libpython3-all-dev if you use Python 3).
It's not the same situation, but it also works for me and now I can use SWIG with Python3.5:
I was trying to compile:
gcc -fPIC -c existe.c existe_wrap.c -I /usr/include/python3.5m/
With Python 2.7 works fine, not with my version 3.5:
existe_wrap.c:147:21: fatal error: Python.h: No existe el archivo o el
directorio compilation terminated.
After run in my Ubuntu 16.04 installation:
sudo apt-get install python3-dev # for python3.x installs
Now I can compile without problems Python3.5:
gcc -fPIC -c existe.c existe_wrap.c -I /usr/include/python3.5m/
I managed to solve this issue and generate the .so file in one command
gcc -shared -o UtilcS.so
-fPIC -I/usr/include/python2.7 -lpython2.7 utilsmodule.c
I also encountered this error when I was installing coolprop in ubuntu.
For ubuntu 16.04 with python 3.6
sudo apt-get install python3.6-dev
If ever this doesn't work try installing/updating gcc lib.
sudo apt-get install gcc
try apt-file. It is difficult to remember the package name where the missing file resides. It is generic and useful for any package files.
For example:
root#ubuntu234:~/auto# apt-file search --regexp '/Python.h$'
pypy-dev: /usr/lib/pypy/include/Python.h
python2.7-dbg: /usr/include/python2.7_d/Python.h
python2.7-dev: /usr/include/python2.7/Python.h
python3.2-dbg: /usr/include/python3.2dmu/Python.h
python3.2-dev: /usr/include/python3.2mu/Python.h
root#ubuntu234:~/auto#
Now you can make an expert guess as to which one to choose from.
This problem can also arrive when you have different Python versions installed and you use a pip that's not the system's one. In that case, the non-system pip won't find the right version of Python headers.
It happened to me when trying to pip install a package for a Python bundled with an application. As it was not system's python, apt install pythonXX-dev didn't work.
In this case, the solution is to find the right python header:
find / -iname 'Python.h'
In the output, you will see system python headers, and hopefully the one you are looking for, for example:
/usr/include/python3.7m/Python.h
/usr/include/python3.6m/Python.h
/home/ubuntu/workspace/blender-git/lib/linux_centos7_x86_64/python/include/python3.7m/Python.h
/home/ubuntu/miniconda3/pkgs/python-3.8.5-h7579374_1/include/python3.8/Python.h
/home/ubuntu/miniconda3/pkgs/python-3.7.0-h6e4f718_3/include/python3.7m/Python.h
/home/ubuntu/miniconda3/include/python3.8/Python.h
/home/ubuntu/miniconda3/envs/sim/include/python3.7m/Python.h
/home/ubuntu/src/blender-deps/Python-3.7.7/Include/Python.h
/opt/lib/python-3.7.7/include/python3.7m/Python.h
Then, you can set a compiler flag that will get used by gcc when called by pip.
Mine was /home/ubuntu/workspace/blender-git/lib/linux_centos7_x86_64/python/include/python3.7m/Python.h, so I did:
export CPPFLAGS=-I/home/ubuntu/src/blender-deps/Python-3.7.7/Include
pip install <package>
For CentOS 7:
sudo yum install python36u-devel
I followed the instructions here for installing python3.6 on several VMs: https://www.digitalocean.com/community/tutorials/how-to-install-python-3-and-set-up-a-local-programming-environment-on-centos-7
and was then able to build mod_wsgi and get it working with a python3.6 virtualenv
For the OpenSuse comrades out there:
sudo zypper install python3-devel
Here is yet another solution, because none of these solutions worked for me. For reference, I was trying to pip install something on an Amazon Linux AMI base Docker image for Python 3.6.
Non-docker solution:
# Install python3-devel like everyone says
yum -y install python36-devel.x86_64
# Find the install directory of `Python.h`
rpm -ql python36-devel.x86_64 | grep -i "Python.h"
# Forcefully add it to your include path
C_INCLUDE_PATH='/usr/include/python3.6m'
export C_INCLUDE_PATH
Docker solution:
# Install python3-devel like everyone says
RUN yum -y install python36-devel.x86_64
# Find the install directory of `Python.h`, for me it was /usr/include/python3.6m
RUN rpm -ql python36-devel.x86_64 | grep -i "Python.h" && fake_command_so_docker_fails_and_shows_us_the_output
# Since the previous command contains a purposeful error, remove it before the next run
# Forcefully add it to your include path
ARG C_INCLUDE_PATH='/usr/include/python3.6m'
NOTE: If you're getting the error when compiling C++, use CPLUS_INCLUDE_PATH.
Alternatively, you may prefer to use another Docker image. For example, I was trying to install asyncpg~=0.24.0 on python:3.9.4-slim, which generated the same error as you saw. However, when I updated the image to python:3, it worked fine.
If you're using Python 3.6 on Amazon Linux (based on RHEL, but the RHEL answers given here didn't work):
sudo yum install python36-devel
You must install the Python development files on your operating system if the Python provided with your operating system does not come with them. The many answers on this question show the myriad ways this can be achieved on different systems.
When you have done so, the problem is telling the compiler where they're located and how to compile against them. Python comes with a program called python-config. For compilation, you need the --includes output and for linking a program against the Python library (embedding Python into your program) the --ldflags output. Example:
gcc -c mypythonprogram.c $(python3-config --includes)
gcc -o program mypythonprogram.o $(python3-config --ldflags)
The python-config program can be named after the Python versions - on Debian, Ubuntu for example these can be named python3-config or python3.6-config.
Sure python-dev or libpython-all-dev are the first thing to (apt )install, but if that doesn't help as was my case, I advice you to install the foreign Function Interface packages by sudo apt-get install libffi-dev and sudo pip install cffi.
This should help out especially if you see the error as/from c/_cffi_backend.c:2:20: fatal error: Python.h: No such file or directory.
try locate your Python.h:
gemfield#ThinkPad-X1C:~$ locate Python.h
/home/gemfield/anaconda3/include/python3.7m/Python.h
/home/gemfield/anaconda3/pkgs/python-3.7.6-h0371630_2/include/python3.7m/Python.h
/usr/include/python3.8/Python.h
if not found, then install python-dev or python3-dev; else include the correct header path for compiler:
g++ -I/usr/include/python3.8 ...
I am on Ubuntu. I have installed all packages as was recommended in some answers.
sudo apt-get install python-dev # for python2.x installs
sudo apt-get install python3-dev # for python3.x installs
I still had this problem, the line:
#include "Python.h"
And some others, I can edit them manually, it is a bad practice.
I know the secret now, it comes from the cython source code. I have the file. It compiles without errors. That is the file.
Change PYTHON to python version you have, python/python3. Change FILE to your c-filename. The name of the makefile file should be Makefile. Run the the file with the command:
make all
Makefile for creating our standalone Cython program
FILE := file.c
PYTHON := python3
PYVERSION := $(shell $(PYTHON) -c "import sys;
print(sys.version[:3])")
PYPREFIX := $(shell $(PYTHON) -c "import sys; print(sys.prefix)")
INCDIR := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_python_inc())")
PLATINCDIR := $(shell $(PYTHON) -c "from distutils import
sysconfig; print(sysconfig.get_python_inc(plat_specific=True))")
LIBDIR1 := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBDIR'))")
LIBDIR2 := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBPL'))")
PYLIB := $(shell $(PYTHON) -c "from distutils import sysconfig;
print(sysconfig.get_config_var('LIBRARY')[3:-2])")
CC := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('CC'))")
LINKCC := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LINKCC'))")
LINKFORSHARED := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LINKFORSHARED'))")
LIBS := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('LIBS'))")
SYSLIBS := $(shell $(PYTHON) -c "import distutils.sysconfig;
print(distutils.sysconfig.get_config_var('SYSLIBS'))")
.PHONY: paths all clean test
paths:
#echo "PYTHON=$(PYTHON)"
#echo "PYVERSION=$(PYVERSION)"
#echo "PYPREFIX=$(PYPREFIX)"
#echo "INCDIR=$(INCDIR)"
#echo "PLATINCDIR=$(PLATINCDIR)"
#echo "LIBDIR1=$(LIBDIR1)"
#echo "LIBDIR2=$(LIBDIR2)"
#echo "PYLIB=$(PYLIB)"
#echo "CC=$(CC)"
#echo "LINKCC=$(LINKCC)"
#echo "LINKFORSHARED=$(LINKFORSHARED)"
#echo "LIBS=$(LIBS)"
#echo "SYSLIBS=$(SYSLIBS)"
$(FILE:.c=): $(FILE:.c=.o)
$(LINKCC) -o $# $^ -L$(LIBDIR1) -L$(LIBDIR2) -l$(PYLIB)
$(LIBS) $(SYSLIBS) $(LINKFORSHARED)
$(FILE:.c=.o): $(FILE)
$(CC) -c $^ -I$(INCDIR) -I$(PLATINCDIR)
all: $(FILE:.c=)
This error occurred when I attempted to install ctds on CentOS 7 with Python3.6. I did all the tricks mentioned here including yum install python34-devel. The problem was Python.h was found in /usr/include/python3.4m but not in /usr/include/python3.6m. I tried to use --global-option to point to include dir (pip3.6 install --global-option=build_ext --global-option="--include-dirs=/usr/include/python3.4m" ctds). This resulted in a lpython3.6m not found when linking ctds.
Finally what worked was fixing the development environment for Python3.6 needs to correct with the include and libs.
yum -y install https://dl.iuscommunity.org/pub/ius/stable/CentOS/7/x86_64/python36u-libs-3.6.3-1.ius.centos7.x86_64.rpm
Python.h needs to be in your include path for gcc. Whichever version of python is used, for example if it's 3.6, then it should be in /usr/include/python3.6m/Python.h typically.
Sometimes even after installing python-dev the error persists,
Check for the error if it is 'gcc' missing.
First download as stated in https://stackoverflow.com/a/21530768/8687063, then install gcc
For apt (Ubuntu, Debian...):
sudo apt-get install gcc
For yum (CentOS, RHEL...):
sudo yum install gcc
For dnf (Fedora...):
sudo dnf install gcc
For zypper (openSUSE...):
sudo zypper in gcc
For apk (Alpine...):
sudo apk gcc
It often appear when you trying to remove python3.5 and install python3.6.
So when using python3 (which python3 -V => python3.6) to install some packages required python3.5 header will appear this error.
Resolve by install python3.6-dev module.
This means that Python.h isn't in your compiler's default include paths. Have you installed it system-wide or locally? What's your OS?
You could use the -I<path> flag to specify an additional directory where your compiler should look for headers. You will probably have to follow up with -L<path> so that gcc can find the library you'll be linking with using -l<name>.
I am using anaconda for python and I face this problem I tried a lot to solve this error, but still not solved.
I used the following commands so far
sudo apt-get install libstdc++6
sudo add-apt-repository ppa:ubuntu-toolchain-r/test
sudo apt-get update
sudo apt-get upgrade
sudo apt-get dist-upgrade
conda install libgcc
in this link a solution provided but I still don't know how to do that
I solved this by
conda install libgcc=5.2.0
A solution that worked for me was:
conda install -c anaconda libstdcxx-ng
This is because you have some old versions not cleaned up while upgrading gcc.
First of all, make sure that you have the latest lib with conda install -c conda-forge libstdcxx-ng
Find all your lib versions with find / -name "libstdc++.so*". My latest version is 6.0.30.
/usr/lib/x86_64-linux-gnu/libstdc++.so.6.0.29
/usr/lib/x86_64-linux-gnu/libstdc++.so.6.0
/usr/lib/gcc/x86_64-linux-gnu/9/libstdc++.so
/usr/lib/gcc/x86_64-linux-gnu/9/libstdc++.so.6.0.29
/usr/lib/gcc/x86_64-linux-gnu/9/libstdc++.so.6.0
/opt/conda/lib/libstdc++.so.6.0.29
/opt/conda/lib/libstdc++.so.6
/opt/conda/envs/xxx/lib/libstdc++.so.6.0.30
/opt/conda/envs/xxx/lib/libstdc++.so.6
/opt/conda/pkgs/libgcc-7.2.0-h69d50b8_2/lib/libstdc++.so.6.0.21
/opt/conda/pkgs/libstdcxx-ng-12.1.0-ha89aaad_16/lib/libstdc++.so.6.0.30
/opt/conda/pkgs/libstdcxx-ng-12.1.0-ha89aaad_16/lib/libstdc++.so.6
/opt/conda/pkgs/libstdcxx-ng-12.1.0-ha89aaad_16/lib/libstdc++.so
Copy the file to the folder where you are working at and only have the old versions. /opt/conda/lib/ or /opt/conda/envs/xxx/lib/
For example, I'm working on /opt/conda/lib/
cp /opt/conda/pkgs/libstdcxx-ng-12.1.0-ha89aaad_16/lib/libstdc++.so.6.0.30 /opt/conda/lib/
Remove the old files and link the latest lib. Please repeat these steps for other folders.
cd /opt/conda/lib/
rm libstdc++.so.6.0.29
rm libstdc++.so.6.0
ln -s libstdc++.so.6.0.30 libstdc++.so.6
I meet the same problem, which is when I run jupyter notebook, I got
ImportError: /home/cugtyt/software/miniconda3/lib/python3.6/site-packages/zmq/backend/cython/../../../../.././libstdc++.so.6: version `GLIBCXX_3.4.20' not found (required by /home/cugtyt/software/miniconda3/lib/python3.6/site-packages/zmq/backend/cython/../../../../../libzmq.so.5)
I solve it by doing this:
conda uninstall gcc
Hope it can help u!
I ran into a similar problem.
ImportError: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found
I've solved it. Steps as follows:
try conda install -c anaconda libstdcxx-ng, // didn't work
try conda update libstdcxx-ng // didn't work too
But when I execute the command: locate libstdc++.so.6, found amazing things such as: /root/anaconda3/lib/libstdc++.so.6.0.26, which apparently is newer than .so.6.0.
I try:
strings /root/anaconda3/lib/libstdc++.so.6.0.26 | grep GLIBC
see [GLIBCXX_3.4.20][1]
That's the file I want to find.
Next step: ls -l /root/anaconda3/lib/libstdc++.so.6.0.26 - Check the file is true, not a link.
Next step: copy /root/anaconda3/lib/libstdc++.so.6.0.26 to /lib64.
Next step: ls -l /lib64/libstdc++.so.6 - It's a soft link, so I can remove it without worry.
Next step: rm -rf /lib64/libstdc++.so.6
Next step: make a new soft link by:
ln -s libstdc++.so.6.0.26 libstdc++.so.6
That's all. I run my code without error.
God give me wisdom, Glory to God!
Since libgcc=5.2.0 is not available from conda.
I solve it by this:
conda uninstall cmake
pip install cmake
Re-installing scipy library corrected the error automatically for me.
conda install scipy
I use mamba (a faster alternative to conda)
mamba install libgcc
Than it works.
I use anaconda, the following commands works for me:
conda install libgcc
export LD_LIBRARY_PATH=/path/to/anaconda/envs/myenv/lib:$LD_LIBRARY_PATH
cd /path/to/anaconda/envs/myenv/lib
ln -s libstdc++.so.6.0.30 libstdc++.so.6
you can add export LD_LIBRARY_PATH=/path/to/anaconda/envs/myenv/lib:$LD_LIBRARY_PATH to ~/.bashrc file.