Hi all,
I am trying to install cutadapt in ububtu 14.04.4 LTS. I am unable to install due to SSL errors. Here i am attaching the error commands generated. Could anyone help me in installing this tool?
$ sudo pip install cutadapt
Downloading/unpacking cutadapt
Cleaning up...
Exception:
Traceback (most recent call last):
File "/usr/lib/python2.7/dist-packages/pip/basecommand.py", line 122, in main
status = self.run(options, args)
File "/usr/lib/python2.7/dist-packages/pip/commands/install.py", line 278, in run
requirement_set.prepare_files(finder, force_root_egg_info=self.bundle, bundle=self.bundle)
File "/usr/lib/python2.7/dist-packages/pip/req.py", line 1198, in prepare_files
do_download,
File "/usr/lib/python2.7/dist-packages/pip/req.py", line 1376, in unpack_url
self.session,
File "/usr/lib/python2.7/dist-packages/pip/download.py", line 546, in unpack_http_url
resp = session.get(target_url, stream=True)
File "/usr/share/python-wheels/requests-2.2.1-py2.py3-none-any.whl/requests/sessions.py", line 467, in get
return self.request('GET', url, **kwargs)
File "/usr/lib/python2.7/dist-packages/pip/download.py", line 237, in request
return super(PipSession, self).request(method, url, *args, **kwargs)
File "/usr/share/python-wheels/requests-2.2.1-py2.py3-none-any.whl/requests/sessions.py", line 455, in request
resp = self.send(prep, **send_kwargs)
File "/usr/share/python-wheels/requests-2.2.1-py2.py3-none-any.whl/requests/sessions.py", line 558, in send
r = adapter.send(request, **kwargs)
File "/usr/share/python-wheels/requests-2.2.1-py2.py3-none-any.whl/requests/adapters.py", line 385, in send
raise SSLError(e)
SSLError: [Errno 1] _ssl.c:510: error:14090086:SSL routines:SSL3_GET_SERVER_CERTIFICATE:certificate verify failed
Storing debug log for failure in /home/shanthi/.pip/pip.logenter code here
Appreciate your help.
Thank you
•
written
by
nivya.james2016 •
Would be easier through conda.
Download and run https://repo.continuum.io/miniconda/Miniconda2-latest-Linux-x86_64.sh if 64 bit.
Then exit and re-login for ~/.bashrc entries to take effect or run source ~/.bashrc instead.
Then install cut adapt with command conda install -c bioconda cutadapt
(You would not need sudo privileges for doing any of the above.)
I was able to download and install cutadapt using this method. Thank you so much.
Yes i tried but the same error as above was coming.
See if this Q&A on stack overlflow helps https://stackoverflow.com/questions/25981703/pip-install-fails-with-connection-error-ssl-certificate-verify-failed-certi
According to the top answer you may just need to add flags --trusted-host pypi.org --trusted-host files.pythonhosted.org to your pip command.
(Not that I particularly recommend trying random things found in random posts...)
I tried adding flags but was of no avail.
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