Ошибка при установке пакетов через pip3

[ABiatov]

OS Xubuntu 18.04 64bit
в системе установлен python2, как python по умолчанию и jupyter notebook для него.

Запустил терминал из каталога, куда расаковал архив python-patterns

При первой попытке запустить python3 -m venv env вернуло сообщение с просьбой установить пакет python3-venv.

$ python3 -m venv env
The virtual environment was not created successfully because ensurepip is not
available.  On Debian/Ubuntu systems, you need to install the python3-venv
package using the following command.

    apt-get install python3-venv

You may need to use sudo with that command.  After installing the python3-venv
package, recreate your virtual environment.

Failing command: ['/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/bin/python3', '-Im', 'ensurepip', '--upgrade', '--default-pip']

Установил этот пакет

sudo apt-get install python3-venv

В каталоге распаковки выполнил команду
python3 -m venv env

Потом выполнил команду
pip3 install -r requirements.txt
от простого пользователя, без sudo .

Пошел процесс установки.
Многие прокеты при установке возвращали сообщения: Cache entry deserialization failed, entry ignored
Пример ниже.

Downloading https://files.pythonhosted.org/packages/84/71/c8ca4f5bb1e08401b916c68003acf0a0655df935d74d93bf3f3364b310e0/backcall-0.1.0.tar.gz
Collecting bleach==3.1.0 (from -r requirements.txt (line 5))
  Cache entry deserialization failed, entry ignored
  Cache entry deserialization failed, entry ignored
  Downloading https://files.pythonhosted.org/packages/ab/05/27e1466475e816d3001efb6e0a85a819be17411420494a1e602c36f8299d/bleach-3.1.0-py2.py3-none-any.whl (157kB)
    100% |████████████████████████████████| 163kB 466kB/s 
Collecting branca==0.3.1 (from -r requirements.txt (line 6))

Процесс установки оборвался на следующей ошибке.

 Downloading https://files.pythonhosted.org/packages/72/4c/5f81e7264b0a7a8bd570810f48cd346ba36faedbd2ba255c873ad556de76/scipy-1.3.0-cp36-cp36m-manylinux1_x86_64.whl (25.2MB)
    72% |███████████████████████         | 18.2MB 22kB/s eta 0:05:06Exception:
Traceback (most recent call last):
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/share/python-wheels/urllib3-1.22-py2.py3-none-any.whl/urllib3/response.py", line 302, in _error_catcher
    yield
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/share/python-wheels/urllib3-1.22-py2.py3-none-any.whl/urllib3/response.py", line 384, in read
    data = self._fp.read(amt)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/share/python-wheels/CacheControl-0.11.7-py2.py3-none-any.whl/cachecontrol/filewrapper.py", line 60, in read
    data = self.__fp.read(amt)
  File "/usr/lib/python3.6/http/client.py", line 449, in read
    n = self.readinto(b)
  File "/usr/lib/python3.6/http/client.py", line 493, in readinto
    n = self.fp.readinto(b)
  File "/usr/lib/python3.6/socket.py", line 586, in readinto
    return self._sock.recv_into(b)
  File "/usr/lib/python3.6/ssl.py", line 1012, in recv_into
    return self.read(nbytes, buffer)
  File "/usr/lib/python3.6/ssl.py", line 874, in read
    return self._sslobj.read(len, buffer)
  File "/usr/lib/python3.6/ssl.py", line 631, in read
    v = self._sslobj.read(len, buffer)
socket.timeout: The read operation timed out

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/basecommand.py", line 215, in main
    status = self.run(options, args)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/commands/install.py", line 353, in run
    wb.build(autobuilding=True)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/wheel.py", line 749, in build
    self.requirement_set.prepare_files(self.finder)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/req/req_set.py", line 380, in prepare_files
    ignore_dependencies=self.ignore_dependencies))
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/req/req_set.py", line 620, in _prepare_file
    session=self.session, hashes=hashes)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/download.py", line 821, in unpack_url
    hashes=hashes
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/download.py", line 659, in unpack_http_url
    hashes)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/download.py", line 882, in _download_http_url
    _download_url(resp, link, content_file, hashes)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/download.py", line 603, in _download_url
    hashes.check_against_chunks(downloaded_chunks)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/utils/hashes.py", line 46, in check_against_chunks
    for chunk in chunks:
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/download.py", line 571, in written_chunks
    for chunk in chunks:
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/utils/ui.py", line 139, in iter
    for x in it:
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/lib/python3.6/site-packages/pip/download.py", line 560, in resp_read
    decode_content=False):
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/share/python-wheels/urllib3-1.22-py2.py3-none-any.whl/urllib3/response.py", line 436, in stream
    data = self.read(amt=amt, decode_content=decode_content)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/share/python-wheels/urllib3-1.22-py2.py3-none-any.whl/urllib3/response.py", line 401, in read
    raise IncompleteRead(self._fp_bytes_read, self.length_remaining)
  File "/usr/lib/python3.6/contextlib.py", line 99, in __exit__
    self.gen.throw(type, value, traceback)
  File "/home/narwhale/Documents/GIS-PZF-2019/Masterklasses/MK_Kozyr_WD/python-patterns/env/share/python-wheels/urllib3-1.22-py2.py3-none-any.whl/urllib3/response.py", line 307, in _error_catcher
    raise ReadTimeoutError(self._pool, None, 'Read timed out.')
urllib3.exceptions.ReadTimeoutError: HTTPSConnectionPool(host='files.pythonhosted.org', port=443): Read timed out.