I have already installed CMake and now am trying to install dlib for a face recognition project. I have seen some videos and the issue seems to be from compatibility issues. For Python 3.9.1 which version of dlib is more compatible? I have tried using pip to install dlib, manually downloaded it and still it is showing the following error:
WARNING: Value for scheme.headers does not match. Please report this to <https://github.com/pypa/pip/issues/9617>
distutils: c:\users\aviparna.biswas\appdata\local\programs\python\python39\Include\UNKNOWN
sysconfig: c:\users\aviparna.biswas\appdata\local\programs\python\python39\Include
WARNING: Additional context:
user = False
home = None
root = None
prefix = None
Collecting dlib
Using cached dlib-19.22.0.tar.gz (7.4 MB)
Building wheels for collected packages: dlib
Building wheel for dlib (setup.py) ... error
ERROR: Command errored out with exit status 1:
command: 'c:\users\aviparna.biswas\appdata\local\programs\python\python39\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\setup.py'"'"'; __file__='"'"'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d 'C:\Users\aviparna.biswas\AppData\Local\Temp\pip-wheel-nx3osnd3'
cwd: C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\
Complete output (58 lines):
running bdist_wheel
running build
running build_py
package init file 'tools\python\dlib\__init__.py' not found (or not a regular file)
running build_ext
Building extension for Python 3.9.1 (tags/v3.9.1:1e5d33e, Dec 7 2020, 17:08:21) [MSC v.1927 64 bit (AMD64)]
Invoking CMake setup: 'cmake C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\tools\python -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\build\lib.win-amd64-3.9 -DPYTHON_EXECUTABLE=c:\users\aviparna.biswas\appdata\local\programs\python\python39\python.exe -DCMAKE_LIBRARY_OUTPUT_DIRECTORY_RELEASE=C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\build\lib.win-amd64-3.9 -A x64'
-- Building for: NMake Makefiles
CMake Error at CMakeLists.txt:5 (message):
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
You must use Visual Studio to build a python extension on windows. If you
are getting this error it means you have not installed Visual C++. Note
that there are many flavors of Visual Studio, like Visual Studio for C#
development. You need to install Visual Studio for C++.
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
-- Configuring incomplete, errors occurred!
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\setup.py", line 222, in <module>
setup(
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\site-packages\setuptools\__init__.py", line 165,
in setup
return distutils.core.setup(**attrs)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\core.py", line 148, in setup
dist.run_commands()
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 966, in run_commands
self.run_command(cmd)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 985, in run_command
cmd_obj.run()
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\site-packages\wheel\bdist_wheel.py", line 299, in run
self.run_command('build')
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 985, in run_command
cmd_obj.run()
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\command\build.py", line 135, in run
self.run_command(cmd_name)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 985, in run_command
cmd_obj.run()
File "C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\setup.py", line 134, in run
self.build_extension(ext)
File "C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\setup.py", line 171, in build_extension
subprocess.check_call(cmake_setup, cwd=build_folder)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\subprocess.py", line 373, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['cmake', 'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\tools\\python', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\build\\lib.win-amd64-3.9', '-DPYTHON_EXECUTABLE=c:\\users\\aviparna.biswas\\appdata\\local\\programs\\python\\python39\\python.exe', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY_RELEASE=C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\build\\lib.win-amd64-3.9', '-A', 'x64']' returned non-zero exit status 1.
----------------------------------------
ERROR: Failed building wheel for dlib
Running setup.py clean for dlib
Failed to build dlib
Installing collected packages: dlib
Running setup.py install for dlib ... error
ERROR: Command errored out with exit status 1:
command: 'c:\users\aviparna.biswas\appdata\local\programs\python\python39\python.exe' -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\setup.py'"'"'; __file__='"'"'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record 'C:\Users\aviparna.biswas\AppData\Local\Temp\pip-record-prgz7cvz\install-record.txt' --single-version-externally-managed --compile --install-headers 'c:\users\aviparna.biswas\appdata\local\programs\python\python39\Include\dlib'
cwd: C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\
Complete output (60 lines):
running install
running build
running build_py
package init file 'tools\python\dlib\__init__.py' not found (or not a regular file)
running build_ext
Building extension for Python 3.9.1 (tags/v3.9.1:1e5d33e, Dec 7 2020, 17:08:21) [MSC v.1927 64 bit (AMD64)]
Invoking CMake setup: 'cmake C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\tools\python -DCMAKE_LIBRARY_OUTPUT_DIRECTORY=C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\build\lib.win-amd64-3.9 -DPYTHON_EXECUTABLE=c:\users\aviparna.biswas\appdata\local\programs\python\python39\python.exe -DCMAKE_LIBRARY_OUTPUT_DIRECTORY_RELEASE=C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\build\lib.win-amd64-3.9 -A x64'
-- Building for: NMake Makefiles
CMake Error at CMakeLists.txt:5 (message):
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
You must use Visual Studio to build a python extension on windows. If you
are getting this error it means you have not installed Visual C++. Note
that there are many flavors of Visual Studio, like Visual Studio for C#
development. You need to install Visual Studio for C++.
!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!
-- Configuring incomplete, errors occurred!
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\setup.py", line 222, in <module>
setup(
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\site-packages\setuptools\__init__.py", line 165, in setup
return distutils.core.setup(**attrs)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\core.py", line 148, in setup
dist.run_commands()
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 966, in run_commands
self.run_command(cmd)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 985, in run_command
cmd_obj.run()
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\site-packages\setuptools\command\install.py", line 61, in run
return orig.install.run(self)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\command\install.py", line 546, in run
self.run_command('build')
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 985, in run_command
cmd_obj.run()
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\command\build.py", line 135, in run
self.run_command(cmd_name)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\distutils\dist.py", line 985, in run_command
cmd_obj.run()
File "C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\setup.py", line 134, in run
self.build_extension(ext)
File "C:\Users\aviparna.biswas\AppData\Local\Temp\pip-install-1u1dh1_j\dlib_0e99482dc2db4cb5a05e1507ea95d200\setup.py", line 171, in build_extension
subprocess.check_call(cmake_setup, cwd=build_folder)
File "c:\users\aviparna.biswas\appdata\local\programs\python\python39\lib\subprocess.py", line 373, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['cmake', 'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\tools\\python', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\build\\lib.win-amd64-3.9', '-DPYTHON_EXECUTABLE=c:\\users\\aviparna.biswas\\appdata\\local\\programs\\python\\python39\\python.exe', '-DCMAKE_LIBRARY_OUTPUT_DIRECTORY_RELEASE=C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\build\\lib.win-amd64-3.9', '-A', 'x64']' returned non-zero exit status 1.
----------------------------------------
ERROR: Command errored out with exit status 1: 'c:\users\aviparna.biswas\appdata\local\programs\python\python39\python.exe' -u
-c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\setup.py'"'"'; __file__='"'"'C:\\Users\\aviparna.biswas\\AppData\\Local\\Temp\\pip-install-1u1dh1_j\\dlib_0e99482dc2db4cb5a05e1507ea95d200\\setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record 'C:\Users\aviparna.biswas\AppData\Local\Temp\pip-record-prgz7cvz\install-record.txt' --single-version-externally-managed --compile --install-headers 'c:\users\aviparna.biswas\appdata\local\programs\python\python39\Include\dlib' Check the logs for full command output.```
https://github.com/shashankx86/dlib_compiled
I have compiled dlib from source for python 3.9
You can use this
it worked for me to install Cmake,dlib and face recognition:
First i Downloaded Visual Studio C++ from this link
https://visualstudio.microsoft.com/thank-you-for-downloading-visual-studio-for-cplusplus/?sku=Community&rel=16&rid=30005
Then I download Cmake,dlib then face_recognition.
picture
I'm having some difficulty figuring out how to run conda install ... in a Dockerfile, while referencing a non-standard certificates file. In my Dockerfile, I have:
RUN REQUESTS_CA_BUNDLE=/non-standard-certificates.pem conda update -n base conda -y
which appears to run fine. But then I have:
RUN REQUESTS_CA_BUNDLE=/non-standard-certificates.pem CURL_CA_BUNDLE=/non-standard-certificates.pem conda install -n base -c defaults -c conda-forge <list-of-packages>
which ends in:
CondaHTTPError: HTTP 000 CONNECTION FAILED for url <https://conda.anaconda.org/conda-forge/linux-64/current_repodata.json>
Elapsed: -
An HTTP error occurred when trying to retrieve this URL.
HTTP errors are often intermittent, and a simple retry will get you on your way.
'https://conda.anaconda.org/conda-forge/linux-64'
Can anyone see what is incorrect here?
Update:
I have since figured out that I should probably be using RUN conda config --set client_ssl_cert ..., and that the certificate file in question had Windows carriage-returns in it (which I removed with dos2unix), but now I'm getting a different error:
Step 7/29 : RUN conda update -n base conda -y
---> Running in 052e36266aef
Collecting package metadata (current_repodata.json): ...working... failed
# >>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<
Traceback (most recent call last):
File "/opt/conda/lib/python3.7/site-packages/conda/exceptions.py", line 1074, in __call__
return func(*args, **kwargs)
File "/opt/conda/lib/python3.7/site-packages/conda/cli/main.py", line 84, in _main
exit_code = do_call(args, p)
File "/opt/conda/lib/python3.7/site-packages/conda/cli/conda_argparse.py", line 82, in do_call
exit_code = getattr(module, func_name)(args, parser)
File "/opt/conda/lib/python3.7/site-packages/conda/cli/main_update.py", line 20, in execute
install(args, parser, 'update')
File "/opt/conda/lib/python3.7/site-packages/conda/cli/install.py", line 265, in install
should_retry_solve=(_should_retry_unfrozen or repodata_fn != repodata_fns[-1]),
File "/opt/conda/lib/python3.7/site-packages/conda/core/solve.py", line 117, in solve_for_transaction
should_retry_solve)
File "/opt/conda/lib/python3.7/site-packages/conda/core/solve.py", line 158, in solve_for_diff
force_remove, should_retry_solve)
File "/opt/conda/lib/python3.7/site-packages/conda/core/solve.py", line 262, in solve_final_state
ssc = self._collect_all_metadata(ssc)
File "/opt/conda/lib/python3.7/site-packages/conda/common/io.py", line 88, in decorated
return f(*args, **kwds)
File "/opt/conda/lib/python3.7/site-packages/conda/core/solve.py", line 415, in _collect_all_metadata
index, r = self._prepare(prepared_specs)
File "/opt/conda/lib/python3.7/site-packages/conda/core/solve.py", line 1004, in _prepare
self.subdirs, prepared_specs, self._repodata_fn)
File "/opt/conda/lib/python3.7/site-packages/conda/core/index.py", line 214, in get_reduced_index
repodata_fn=repodata_fn)
File "/opt/conda/lib/python3.7/site-packages/conda/core/subdir_data.py", line 97, in query_all
result = tuple(concat(executor.map(subdir_query, channel_urls)))
File "/opt/conda/lib/python3.7/concurrent/futures/_base.py", line 598, in result_iterator
yield fs.pop().result()
File "/opt/conda/lib/python3.7/concurrent/futures/_base.py", line 435, in result
return self.__get_result()
File "/opt/conda/lib/python3.7/concurrent/futures/_base.py", line 384, in __get_result
raise self._exception
File "/opt/conda/lib/python3.7/concurrent/futures/thread.py", line 57, in run
result = self.fn(*self.args, **self.kwargs)
File "/opt/conda/lib/python3.7/site-packages/conda/core/subdir_data.py", line 90, in <lambda>
package_ref_or_match_spec))
File "/opt/conda/lib/python3.7/site-packages/conda/core/subdir_data.py", line 102, in query
self.load()
File "/opt/conda/lib/python3.7/site-packages/conda/core/subdir_data.py", line 166, in load
_internal_state = self._load()
File "/opt/conda/lib/python3.7/site-packages/conda/core/subdir_data.py", line 240, in _load
repodata_fn=self.repodata_fn)
File "/opt/conda/lib/python3.7/site-packages/conda/core/subdir_data.py", line 477, in fetch_repodata_remote_request
timeout=timeout)
File "/opt/conda/lib/python3.7/site-packages/requests/sessions.py", line 546, in get
return self.request('GET', url, **kwargs)
File "/opt/conda/lib/python3.7/site-packages/requests/sessions.py", line 533, in request
resp = self.send(prep, **send_kwargs)
File "/opt/conda/lib/python3.7/site-packages/requests/sessions.py", line 646, in send
r = adapter.send(request, **kwargs)
File "/opt/conda/lib/python3.7/site-packages/requests/adapters.py", line 449, in send
timeout=timeout
File "/opt/conda/lib/python3.7/site-packages/urllib3/connectionpool.py", line 600, in urlopen
chunked=chunked)
File "/opt/conda/lib/python3.7/site-packages/urllib3/connectionpool.py", line 343, in _make_request
self._validate_conn(conn)
File "/opt/conda/lib/python3.7/site-packages/urllib3/connectionpool.py", line 839, in _validate_conn
conn.connect()
File "/opt/conda/lib/python3.7/site-packages/urllib3/connection.py", line 344, in connect
ssl_context=context)
File "/opt/conda/lib/python3.7/site-packages/urllib3/util/ssl_.py", line 338, in ssl_wrap_socket
context.load_cert_chain(certfile, keyfile)
File "/opt/conda/lib/python3.7/site-packages/urllib3/contrib/pyopenssl.py", line 439, in load_cert_chain
self._ctx.use_privatekey_file(keyfile or certfile)
File "/opt/conda/lib/python3.7/site-packages/OpenSSL/SSL.py", line 990, in use_privatekey_file
self._raise_passphrase_exception()
File "/opt/conda/lib/python3.7/site-packages/OpenSSL/SSL.py", line 967, in _raise_passphrase_exception
_raise_current_error()
File "/opt/conda/lib/python3.7/site-packages/OpenSSL/_util.py", line 54, in exception_from_error_queue
raise exception_type(errors)
OpenSSL.SSL.Error: [('PEM routines', 'get_name', 'no start line'), ('SSL routines', 'SSL_CTX_use_PrivateKey_file', 'PEM lib')]
`$ /opt/conda/bin/conda update -n base conda -y`
environment variables:
CIO_TEST=<not set>
CONDA_ROOT=/opt/conda
PATH=/opt/conda/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin
:/bin
REQUESTS_CA_BUNDLE=<not set>
SSL_CERT_FILE=<not set>
active environment : None
user config file : /root/.condarc
populated config files : /root/.condarc
conda version : 4.7.12
conda-build version : not installed
python version : 3.7.4.final.0
virtual packages :
base environment : /opt/conda (writable)
channel URLs : https://repo.anaconda.com/pkgs/main/linux-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/r/linux-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /opt/conda/pkgs
/root/.conda/pkgs
envs directories : /opt/conda/envs
/root/.conda/envs
platform : linux-64
user-agent : conda/4.7.12 requests/2.22.0 CPython/3.7.4 Linux/3.10.0-1160.6.1.el7.x86_64 debian/10 glibc/2.28
UID:GID : 0:0
netrc file : None
offline mode : False
An unexpected error has occurred. Conda has prepared the above report.
Upload did not complete.
ERROR: Service 'base_image' failed to build: The command '/bin/sh -c conda update -n base conda -y' returned a non-zero code: 1
I am trying to install and use nighres from https://nighres.readthedocs.io/en/latest/installation.html
I started by the docker image installation image.
Below you find a link for my modified version of Dockerfile:
https://github.com/marsup13/MyStruggleWithAIM/blob/main/Dockerfile
I have made a lot of changes in the original Dockerfile (python version mainly).
The problem I have faced is when executing the following command from Dockerfile:
RUN sudo apt-get install -y jcc && \
python3.7 -m pip install --upgrade pip \
wheel \
JCC \
urllib3 \
jupyter \
nilearn \
sklearn \
nose \
matplotlib \
scipy
I got these errors (I am using Docker on Ubuntu 20.04).
Building wheels for collected packages: JCC, sklearn, pandocfilters, argon2-cffi, pyrsistent
Running setup.py bdist_wheel for JCC: started
Running setup.py bdist_wheel for JCC: finished with status 'error'
Complete output from command /usr/bin/python3.7 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-5ffcvkyp/JCC/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmpwvntxw0ypip-wheel- --python-tag cp37:
Failed building wheel for JCC
Applied shared mode monkeypatch to: <module 'setuptools' from '/usr/lib/python3/dist-packages/setuptools/__init__.py'>
Loading source files for package org.apache.jcc...
Constructing Javadoc information...
Standard Doclet version 1.8.0_282
Building tree for all the packages and classes...
Generating javadoc/org/apache/jcc/PythonException.html...
Generating javadoc/org/apache/jcc/PythonVM.html...
Generating javadoc/org/apache/jcc/package-frame.html...
Generating javadoc/org/apache/jcc/package-summary.html...
Generating javadoc/org/apache/jcc/package-tree.html...
Generating javadoc/constant-values.html...
Generating javadoc/serialized-form.html...
Building index for all the packages and classes...
Generating javadoc/overview-tree.html...
Generating javadoc/index-all.html...
Generating javadoc/deprecated-list.html...
Building index for all classes...
Generating javadoc/allclasses-frame.html...
Generating javadoc/allclasses-noframe.html...
Generating javadoc/index.html...
Generating javadoc/help-doc.html...
running bdist_wheel
running build
running build_py
writing /tmp/pip-build-5ffcvkyp/JCC/jcc3/config.py
creating build
creating build/lib.linux-x86_64-3.7
creating build/lib.linux-x86_64-3.7/jcc
...
copying jcc3/classes/org/apache/jcc/PythonVM.class -> build/lib.linux-x86_64-3.7/jcc/classes/org/apache/jcc
copying jcc3/classes/org/apache/jcc/PythonException.class -> build/lib.linux-x86_64-3.7/jcc/classes/org/apache/jcc
running build_ext
building 'jcc3' extension
creating build/temp.linux-x86_64-3.7
creating build/temp.linux-x86_64-3.7/jcc3
creating build/temp.linux-x86_64-3.7/jcc3/sources
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_jcc_lib -DJCC_VER="3.8" -I/docker-java-home/include -I/docker-java-home/include/linux -I_jcc3 -Ijcc3/sources -I/usr/include/python3.7m -c jcc3/sources/jcc.cpp -o build/temp.linux-x86_64-3.7/jcc3/sources/jcc.o -DPYTHON -fno-strict-aliasing -Wno-write-strings
jcc3/sources/jcc.cpp:25:20: fatal error: Python.h: No such file or directory
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Running setup.py clean for JCC
Running setup.py bdist_wheel for sklearn: started
Running setup.py bdist_wheel for sklearn: finished with status 'done'
Stored in directory: /root/.cache/pip/wheels/76/03/bb/589d421d27431bcd2c6da284d5f2286c8e3b2ea3cf1594c074
Running setup.py bdist_wheel for pandocfilters: started
Running setup.py bdist_wheel for pandocfilters: finished with status 'done'
Stored in directory: /root/.cache/pip/wheels/93/9a/79/b2c3567908fd6209e4674ca23d9fcf005aae5fe89148913727
Running setup.py bdist_wheel for argon2-cffi: started
Running setup.py bdist_wheel for argon2-cffi: finished with status 'error'
Complete output from command /usr/bin/python3.7 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-5ffcvkyp/argon2-cffi/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" bdist_wheel -d /tmp/tmp4c5jlxxfpip-wheel- --python-tag cp37:
c/_cffi_backend.c:2:20: fatal error: Python.h: No such file or directory
compilation terminated.
Traceback (most recent call last):
File "/usr/lib/python3.7/distutils/unixccompiler.py", line 118, in _compile
extra_postargs)
File "/usr/lib/python3.7/distutils/ccompiler.py", line 910, in spawn
spawn(cmd, dry_run=self.dry_run)
File "/usr/lib/python3.7/distutils/spawn.py", line 36, in spawn
_spawn_posix(cmd, search_path, dry_run=dry_run)
File "/usr/lib/python3.7/distutils/spawn.py", line 159, in _spawn_posix
% (cmd, exit_status))
distutils.errors.DistutilsExecError: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/python3.7/distutils/core.py", line 148, in setup
dist.run_commands()
File "/usr/lib/python3.7/distutils/dist.py", line 966, in run_commands
self.run_command(cmd)
File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/bdist_egg.py", line 161, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/usr/lib/python3/dist-packages/setuptools/command/bdist_egg.py", line 147, in call_command
self.run_command(cmdname)
File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/install_lib.py", line 23, in run
self.build()
File "/usr/lib/python3.7/distutils/command/install_lib.py", line 109, in build
self.run_command('build_ext')
File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/build_ext.py", line 49, in run
_build_ext.run(self)
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 340, in run
self.build_extensions()
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 449, in build_extensions
self._build_extensions_serial()
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 474, in _build_extensions_serial
self.build_extension(ext)
File "/usr/lib/python3/dist-packages/setuptools/command/build_ext.py", line 174, in build_extension
_build_ext.build_extension(self, ext)
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 534, in build_extension
depends=ext.depends)
File "/usr/lib/python3.7/distutils/ccompiler.py", line 574, in compile
self._compile(obj, src, ext, cc_args, extra_postargs, pp_opts)
File "/usr/lib/python3.7/distutils/unixccompiler.py", line 120, in _compile
raise CompileError(msg)
distutils.errors.CompileError: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 154, in save_modules
yield saved
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 195, in setup_context
yield
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 243, in run_setup
DirectorySandbox(setup_dir).run(runner)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 273, in run
return func()
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 242, in runner
_execfile(setup_script, ns)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 46, in _execfile
exec(code, globals, locals)
File "/tmp/easy_install-nhryt98i/cffi-1.14.5/setup.py", line 238, in <module>
"""
File "/usr/lib/python3.7/distutils/core.py", line 163, in setup
raise SystemExit("error: " + str(msg))
SystemExit: error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 1087, in run_setup
run_setup(setup_script, args)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 246, in run_setup
raise
File "/usr/lib/python3.7/contextlib.py", line 130, in __exit__
self.gen.throw(type, value, traceback)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 195, in setup_context
yield
File "/usr/lib/python3.7/contextlib.py", line 130, in __exit__
self.gen.throw(type, value, traceback)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 166, in save_modules
saved_exc.resume()
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 141, in resume
six.reraise(type, exc, self._tb)
File "/usr/lib/python3/dist-packages/pkg_resources/_vendor/six.py", line 685, in reraise
raise value.with_traceback(tb)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 154, in save_modules
yield saved
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 195, in setup_context
yield
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 243, in run_setup
DirectorySandbox(setup_dir).run(runner)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 273, in run
return func()
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 242, in runner
_execfile(setup_script, ns)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 46, in _execfile
exec(code, globals, locals)
File "/tmp/easy_install-nhryt98i/cffi-1.14.5/setup.py", line 238, in <module>
"""
File "/usr/lib/python3.7/distutils/core.py", line 163, in setup
raise SystemExit("error: " + str(msg))
SystemExit: error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-build-5ffcvkyp/argon2-cffi/setup.py", line 387, in <module>
**keywords_with_side_effects(sys.argv)
File "/usr/lib/python3.7/distutils/core.py", line 108, in setup
_setup_distribution = dist = klass(attrs)
File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 269, in __init__
self.fetch_build_eggs(attrs['setup_requires'])
File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 313, in fetch_build_eggs
replace_conflicting=True,
File "/usr/lib/python3/dist-packages/pkg_resources/__init__.py", line 826, in resolve
dist = best[req.key] = env.best_match(req, ws, installer)
File "/usr/lib/python3/dist-packages/pkg_resources/__init__.py", line 1092, in best_match
return self.obtain(req, installer)
File "/usr/lib/python3/dist-packages/pkg_resources/__init__.py", line 1104, in obtain
return installer(requirement)
File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 380, in fetch_build_egg
return cmd.easy_install(req)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 663, in easy_install
return self.install_item(spec, dist.location, tmpdir, deps)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 693, in install_item
dists = self.install_eggs(spec, download, tmpdir)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 873, in install_eggs
return self.build_and_install(setup_script, setup_base)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 1101, in build_and_install
self.run_setup(setup_script, setup_base, args)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 1089, in run_setup
raise DistutilsError("Setup script exited with %s" % (v.args[0],))
distutils.errors.DistutilsError: Setup script exited with error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Failed building wheel for argon2-cffi
Running setup.py clean for argon2-cffi
Complete output from command /usr/bin/python3.7 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-5ffcvkyp/argon2-cffi/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" clean --all:
c/_cffi_backend.c:2:20: fatal error: Python.h: No such file or directory
compilation terminated.
Traceback (most recent call last):
File "/usr/lib/python3.7/distutils/unixccompiler.py", line 118, in _compile
extra_postargs)
File "/usr/lib/python3.7/distutils/ccompiler.py", line 910, in spawn
spawn(cmd, dry_run=self.dry_run)
File "/usr/lib/python3.7/distutils/spawn.py", line 36, in spawn
_spawn_posix(cmd, search_path, dry_run=dry_run)
File "/usr/lib/python3.7/distutils/spawn.py", line 159, in _spawn_posix
% (cmd, exit_status))
distutils.errors.DistutilsExecError: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/python3.7/distutils/core.py", line 148, in setup
dist.run_commands()
File "/usr/lib/python3.7/distutils/dist.py", line 966, in run_commands
self.run_command(cmd)
File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/bdist_egg.py", line 161, in run
cmd = self.call_command('install_lib', warn_dir=0)
File "/usr/lib/python3/dist-packages/setuptools/command/bdist_egg.py", line 147, in call_command
self.run_command(cmdname)
File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/install_lib.py", line 23, in run
self.build()
File "/usr/lib/python3.7/distutils/command/install_lib.py", line 109, in build
self.run_command('build_ext')
File "/usr/lib/python3.7/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/lib/python3/dist-packages/setuptools/command/build_ext.py", line 49, in run
_build_ext.run(self)
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 340, in run
self.build_extensions()
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 449, in build_extensions
self._build_extensions_serial()
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 474, in _build_extensions_serial
self.build_extension(ext)
File "/usr/lib/python3/dist-packages/setuptools/command/build_ext.py", line 174, in build_extension
_build_ext.build_extension(self, ext)
File "/usr/lib/python3.7/distutils/command/build_ext.py", line 534, in build_extension
depends=ext.depends)
File "/usr/lib/python3.7/distutils/ccompiler.py", line 574, in compile
self._compile(obj, src, ext, cc_args, extra_postargs, pp_opts)
File "/usr/lib/python3.7/distutils/unixccompiler.py", line 120, in _compile
raise CompileError(msg)
distutils.errors.CompileError: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 154, in save_modules
yield saved
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 195, in setup_context
yield
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 243, in run_setup
DirectorySandbox(setup_dir).run(runner)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 273, in run
return func()
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 242, in runner
_execfile(setup_script, ns)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 46, in _execfile
exec(code, globals, locals)
File "/tmp/easy_install-dtvehjsg/cffi-1.14.5/setup.py", line 238, in <module>
"""
File "/usr/lib/python3.7/distutils/core.py", line 163, in setup
raise SystemEx Failed cleaning build dir for argon2-cffi
it("error: " + str(msg))
SystemExit: error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 1087, in run_setup
run_setup(setup_script, args)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 246, in run_setup
raise
File "/usr/lib/python3.7/contextlib.py", line 130, in __exit__
self.gen.throw(type, value, traceback)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 195, in setup_context
yield
File "/usr/lib/python3.7/contextlib.py", line 130, in __exit__
self.gen.throw(type, value, traceback)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 166, in save_modules
saved_exc.resume()
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 141, in resume
six.reraise(type, exc, self._tb)
File "/usr/lib/python3/dist-packages/pkg_resources/_vendor/six.py", line 685, in reraise
raise value.with_traceback(tb)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 154, in save_modules
yield saved
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 195, in setup_context
yield
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 243, in run_setup
DirectorySandbox(setup_dir).run(runner)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 273, in run
return func()
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 242, in runner
_execfile(setup_script, ns)
File "/usr/lib/python3/dist-packages/setuptools/sandbox.py", line 46, in _execfile
exec(code, globals, locals)
File "/tmp/easy_install-dtvehjsg/cffi-1.14.5/setup.py", line 238, in <module>
"""
File "/usr/lib/python3.7/distutils/core.py", line 163, in setup
raise SystemExit("error: " + str(msg))
SystemExit: error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-build-5ffcvkyp/argon2-cffi/setup.py", line 387, in <module>
**keywords_with_side_effects(sys.argv)
File "/usr/lib/python3.7/distutils/core.py", line 108, in setup
_setup_distribution = dist = klass(attrs)
File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 269, in __init__
self.fetch_build_eggs(attrs['setup_requires'])
File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 313, in fetch_build_eggs
replace_conflicting=True,
File "/usr/lib/python3/dist-packages/pkg_resources/__init__.py", line 826, in resolve
dist = best[req.key] = env.best_match(req, ws, installer)
File "/usr/lib/python3/dist-packages/pkg_resources/__init__.py", line 1092, in best_match
return self.obtain(req, installer)
File "/usr/lib/python3/dist-packages/pkg_resources/__init__.py", line 1104, in obtain
return installer(requirement)
File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 380, in fetch_build_egg
return cmd.easy_install(req)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 663, in easy_install
return self.install_item(spec, dist.location, tmpdir, deps)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 693, in install_item
dists = self.install_eggs(spec, download, tmpdir)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 873, in install_eggs
return self.build_and_install(setup_script, setup_base)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 1101, in build_and_install
self.run_setup(setup_script, setup_base, args)
File "/usr/lib/python3/dist-packages/setuptools/command/easy_install.py", line 1089, in run_setup
raise DistutilsError("Setup script exited with %s" % (v.args[0],))
distutils.errors.DistutilsError: Setup script exited with error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Running setup.py bdist_wheel for pyrsistent: started
Running setup.py bdist_wheel for pyrsistent: finished with status 'done'
Stored in directory: /root/.cache/pip/wheels/f0/b8/de/b593ad311be4eb458499d100db081e453576032272398b7ddc
Successfully built sklearn pandocfilters pyrsistent
Failed to build JCC argon2-cffi
Installing collected packages: pip, wheel, JCC, urllib3, tornado, backcall, pickleshare, pygments, wcwidth, prompt-toolkit, parso, jedi, ipython-genutils, traitlets, ptyprocess, pexpect, decorator, setuptools, ipython, six, python-dateutil, pyzmq, jupyter-core, jupyter-client, ipykernel, jupyterlab-widgets, attrs, zipp, typing-extensions, importlib-metadata, pyrsistent, jsonschema, nbformat, terminado, prometheus-client, Send2Trash, MarkupSafe, jinja2, pycparser, cffi, enum34, argon2-cffi, async-generator, nest-asyncio, nbclient, jupyterlab-pygments, entrypoints, webencodings, pyparsing, packaging, bleach, pandocfilters, mistune, testpath, defusedxml, nbconvert, notebook, widgetsnbextension, ipywidgets, qtpy, qtconsole, jupyter-console, jupyter, joblib, idna, chardet, certifi, requests, numpy, scipy, threadpoolctl, scikit-learn, nibabel, pytz, pandas, nilearn, sklearn, nose, kiwisolver, cycler, pillow, matplotlib
Found existing installation: pip 8.1.1
Not uninstalling pip at /usr/lib/python3/dist-packages, outside environment /usr
Found existing installation: wheel 0.29.0
Not uninstalling wheel at /usr/lib/python3/dist-packages, outside environment /usr
Running setup.py install for JCC: started
Running setup.py install for JCC: finished with status 'error'
Complete output from command /usr/bin/python3.7 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-5ffcvkyp/JCC/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-b9bi3lz7-record/install-record.txt --single-version-externally-managed --compile:
Applied shared mode monkeypatch to: <module 'setuptools' from '/usr/lib/python3/dist-packages/setuptools/__init__.py'>
Loading source files for package org.apache.jcc...
Constructing Javadoc information...
Standard Doclet version 1.8.0_282
Building tree for all the packages and classes...
Generating javadoc/org/apache/jcc/PythonException.html...
Generating javadoc/org/apache/jcc/PythonVM.html...
Generating javadoc/org/apache/jcc/package-frame.html...
Generating javadoc/org/apache/jcc/package-summary.html...
Generating javadoc/org/apache/jcc/package-tree.html...
Generating javadoc/constant-values.html...
Generating javadoc/serialized-form.html...
Building index for all the packages and classes...
Generating javadoc/overview-tree.html...
Generating javadoc/index-all.html...
Generating javadoc/deprecated-list.html...
Building index for all classes...
Generating javadoc/allclasses-frame.html...
Generating javadoc/allclasses-noframe.html...
Generating javadoc/index.html...
Generating javadoc/help-doc.html...
running install
running build
running build_py
not writing /tmp/pip-build-5ffcvkyp/JCC/jcc3/config.py
creating build
creating build/lib.linux-x86_64-3.7
creating build/lib.linux-x86_64-3.7/jcc
copying jcc3/cpp.py -> build/lib.linux-x86_64-3.7/jcc
copying jcc3/__main__.py -> build/lib.linux-x86_64-3.7/jcc
copying jcc3/__init__.py -> build/lib.linux-x86_64-3.7/jcc
copying jcc3/windows.py -> build/lib.linux-x86_64-3.7/jcc
copying jcc3/python.py -> build/lib.linux-x86_64-3.7/jcc
copying jcc3/config.py -> build/lib.linux-x86_64-3.7/jcc
creating build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/JArray.cpp -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/jcc.cpp -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/JObject.cpp -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/JCCEnv.cpp -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/types.cpp -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/functions.cpp -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/macros.h -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/functions.h -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/JObject.h -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/jccfuncs.h -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/JArray.h -> build/lib.linux-x86_64-3.7/jcc/sources
copying jcc3/sources/JCCEnv.h -> build/lib.linux-x86_64-3.7/jcc/sources
creating build/lib.linux-x86_64-3.7/jcc/classes
creating build/lib.linux-x86_64-3.7/jcc/classes/org
creating build/lib.linux-x86_64-3.7/jcc/classes/org/apache
creating build/lib.linux-x86_64-3.7/jcc/classes/org/apache/jcc
copying jcc3/classes/org/apache/jcc/PythonVM.class -> build/lib.linux-x86_64-3.7/jcc/classes/org/apache/jcc
copying jcc3/classes/org/apache/jcc/PythonException.class -> build/lib.linux-x86_64-3.7/jcc/classes/org/apache/jcc
running build_ext
building 'jcc3' extension
creating build/temp.linux-x86_64-3.7
creating build/temp.linux-x86_64-3.7/jcc3
creating build/temp.linux-x86_64-3.7/jcc3/sources
x86_64-linux-gnu-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -D_jcc_lib -DJCC_VER="3.8" -I/docker-java-home/include -I/docker-java-home/include/linux -I_jcc3 -Ijcc3/sources -I/usr/include/python3.7m -c jcc3/sources/jcc.cpp -o build/temp.linux-x86_64-3.7/jcc3/sources/jcc.o -DPYTHON -fno-strict-aliasing -Wno-write-strings
jcc3/sources/jcc.cpp:25:20: fatal error: Python.h: No such file or directory
compilation terminated.
error: command 'x86_64-linux-gnu-gcc' failed with exit status 1
----------------------------------------
Command "/usr/bin/python3.7 -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-5ffcvkyp/JCC/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp/pip-b9bi3lz7-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-build-5ffcvkyp/JCC/
The command '/bin/sh -c sudo apt-get install -y jcc && python3.7 -m pip install --upgrade pip wheel JCC urllib3 jupyter nilearn sklearn nose matplotlib scipy' returned a non-zero code: 1
So my docker file has the following line
RUN python -m spacy download en_core_web_sm
Which throws an error stating thinc module is not found.
So, I decided to add the following line above the previous line.
RUN pip install thinc
When I compile I get the following error.
Step 30/48 : RUN pip install thinc
---> Running in 7ba293263245
Collecting thinc
Downloading https://files.pythonhosted.org/packages/25/99/e21c2a1622c193b2c93a628496fea4525a0ce93e3b47f3cb06559b6ff3ee/thinc-7.4.3.tar.gz (1.3MB)
Complete output from command python setup.py egg_info:
BLIS_COMPILER? None
WARNING: pip versions <19.3 (currently installed: 9.0.1) are unable to detect binary wheel compatibility for blis. To avoid a source install with a very long compilation time, please upgrade pip with `pip install --upgrade pip`.
If you know what you're doing and you really want to compile blis from source, please set the environment variable BLIS_REALLY_COMPILE=1.
Traceback (most recent call last):
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 157, in save_modules
yield saved
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 198, in setup_context
yield
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 248, in run_setup
DirectorySandbox(setup_dir).run(runner)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 278, in run
return func()
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 246, in runner
_execfile(setup_script, ns)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 47, in _execfile
exec(code, globals, locals)
File "/tmp/easy_install-v4oqr4r6/blis-0.7.3/setup.py", line 219, in <module>
"cython>=0.25",
SystemExit: 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/opt/app-root/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 1101, in run_setup
run_setup(setup_script, args)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 251, in run_setup
raise
File "/opt/rh/rh-python36/root/usr/lib64/python3.6/contextlib.py", line 99, in __exit__
self.gen.throw(type, value, traceback)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 198, in setup_context
yield
File "/opt/rh/rh-python36/root/usr/lib64/python3.6/contextlib.py", line 99, in __exit__
self.gen.throw(type, value, traceback)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 169, in save_modules
saved_exc.resume()
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 144, in resume
six.reraise(type, exc, self._tb)
File "/opt/app-root/lib/python3.6/site-packages/pkg_resources/_vendor/six.py", line 685, in reraise
raise value.with_traceback(tb)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 157, in save_modules
yield saved
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 198, in setup_context
yield
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 248, in run_setup
DirectorySandbox(setup_dir).run(runner)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 278, in run
return func()
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 246, in runner
_execfile(setup_script, ns)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/sandbox.py", line 47, in _execfile
exec(code, globals, locals)
File "/tmp/easy_install-v4oqr4r6/blis-0.7.3/setup.py", line 219, in <module>
"cython>=0.25",
SystemExit: 1
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "/tmp/pip-build-_lc_0t4n/thinc/setup.py", line 276, in <module>
setup_package()
File "/tmp/pip-build-_lc_0t4n/thinc/setup.py", line 272, in setup_package
cmdclass={"build_ext": build_ext_subclass},
File "/opt/rh/rh-python36/root/usr/lib64/python3.6/distutils/core.py", line 108, in setup
_setup_distribution = dist = klass(attrs)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/dist.py", line 315, in __init__
self.fetch_build_eggs(attrs['setup_requires'])
File "/opt/app-root/lib/python3.6/site-packages/setuptools/dist.py", line 361, in fetch_build_eggs
replace_conflicting=True,
File "/opt/app-root/lib/python3.6/site-packages/pkg_resources/__init__.py", line 850, in resolve
dist = best[req.key] = env.best_match(req, ws, installer)
File "/opt/app-root/lib/python3.6/site-packages/pkg_resources/__init__.py", line 1122, in best_match
return self.obtain(req, installer)
File "/opt/app-root/lib/python3.6/site-packages/pkg_resources/__init__.py", line 1134, in obtain
return installer(requirement)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/dist.py", line 429, in fetch_build_egg
return cmd.easy_install(req)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 665, in easy_install
return self.install_item(spec, dist.location, tmpdir, deps)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 695, in install_item
dists = self.install_eggs(spec, download, tmpdir)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 876, in install_eggs
return self.build_and_install(setup_script, setup_base)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 1115, in build_and_install
self.run_setup(setup_script, setup_base, args)
File "/opt/app-root/lib/python3.6/site-packages/setuptools/command/easy_install.py", line 1103, in run_setup
raise DistutilsError("Setup script exited with %s" % (v.args[0],))
distutils.errors.DistutilsError: Setup script exited with 1
----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-build-_lc_0t4n/thinc/
You are using pip version 9.0.1, however version 20.2.4 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
The image is
FROM centos/python-36-centos7
before you install python packages add the following line
RUN pip install --upgrade pip