Installation error SCT 4.3

Downloading matplotlib-3.2.1-cp36-cp36m-macosx_10_9_x86_64.whl (12.4 MB)
|█████ | 2.0 MB 10 kB/s eta 0:17:07
ERROR: Exception:
Traceback (most recent call last):
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_vendor/urllib3/response.py”, line 425, in _error_catcher
yield
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_vendor/urllib3/response.py”, line 507, in read
data = self._fp.read(amt) if not fp_closed else b""
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_vendor/cachecontrol/filewrapper.py”, line 62, in read
data = self.__fp.read(amt)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/http/client.py”, line 459, in read
n = self.readinto(b)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/http/client.py”, line 503, in readinto
n = self.fp.readinto(b)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/socket.py”, line 586, in readinto
return self._sock.recv_into(b)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/ssl.py”, line 1012, in recv_into
return self.read(nbytes, buffer)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/ssl.py”, line 874, in read
return self._sslobj.read(len, buffer)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/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 “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/cli/base_command.py”, line 188, in _main
status = self.run(options, args)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/cli/req_command.py”, line 185, in wrapper
return func(self, options, args)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/commands/install.py”, line 333, in run
reqs, check_supported_wheels=not options.target_dir
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/resolution/legacy/resolver.py”, line 179, in resolve
discovered_reqs.extend(self._resolve_one(requirement_set, req))
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/resolution/legacy/resolver.py”, line 362, in _resolve_one
abstract_dist = self._get_abstract_dist_for(req_to_install)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/resolution/legacy/resolver.py”, line 314, in _get_abstract_dist_for
abstract_dist = self.preparer.prepare_linked_requirement(req)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/operations/prepare.py”, line 469, in prepare_linked_requirement
hashes=hashes,
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/operations/prepare.py”, line 259, in unpack_url
hashes=hashes,
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/operations/prepare.py”, line 130, in get_http_url
link, downloader, temp_dir.path, hashes
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/operations/prepare.py”, line 281, in _download_http_url
for chunk in download.chunks:
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/cli/progress_bars.py”, line 166, in iter
for x in it:
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_internal/network/utils.py”, line 39, in response_chunks
decode_content=False,
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_vendor/urllib3/response.py”, line 564, in stream
data = self.read(amt=amt, decode_content=decode_content)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_vendor/urllib3/response.py”, line 529, in read
raise IncompleteRead(self._fp_bytes_read, self.length_remaining)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/contextlib.py”, line 99, in exit
self.gen.throw(type, value, traceback)
File “/Users/baobeibeixiaoshitou/sct_4.3/python/envs/venv_sct/lib/python3.6/site-packages/pip/_vendor/urllib3/response.py”, line 430, in _error_catcher
raise ReadTimeoutError(self._pool, None, “Read timed out.”)
pip._vendor.urllib3.exceptions.ReadTimeoutError: HTTPSConnectionPool(host=‘files.pythonhosted.org’, port=443): Read timed out.

Failed running pip install: 0

Installation failed!

Please copy the historic of this Terminal (starting with the command install_sct) and paste it in a new created topic on SCT’s forum:

–> http://forum.spinalcordmri.org/c/sct

Hi,

first of all, we are very sorry for the late response. For some reasons your post needed approval and I missed the notification.

Now, regarding your installation error, it seems to be related to an internet connection issue:

socket.timeout: The read operation timed out

Which country are you based at? Are you able to find a better connection and go through a VPN if you have country-specific limitations?

Hello, I come from China. I am a neurosurgeon. I mainly focus on spinal cord diseases. Under your guidance, I successfully installed SCT 4.3. Next, I will study the use of SCT, hope to learn from you and the forum, thank you very much!

1 Like

Glad to hear @DeshengKong!

Thank you for giving SCT a try. Please don’t hesitate if you have questions.

Best,
Julien