install fails missing cython

External Email - Use Caution

Hi everyone,

A problem I've had in the past:
Install on a fresh ubuntu (mint) install following instructions
https://martinos.org/mne/stable/install_mne_python.html#install-dependencies-and-mne
fails with these messages:
mkl-random 1.0.1 requires cython, which is not installed.
mkl-fft 1.0.2 requires cython, which is not installed.

Installed cython with apt install, now it is present on my system.
Problem 1:
conda env create -f environment.yml
fails saying
CondaValueError: prefix already exists:
/home/maximilien.chaumon/anaconda3/envs/mne

Fair enough. After total removal of anaconda and settings, check cython is
installed, reinstall after reboot, same fail, complaining cython isn't
there.

In any case, it seems that ubuntu doesn't ship with cython, so it may be a
good idea to add an install procedure to the instructions.

Any help much appreciated.
Max
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External Email - Use Caution

Usually these messages about Cython are non-fatal warnings rather than
errors. Does the environment work? You can check at a very basic level with
with something like:

$ source activate mne
$ python -c "import mne; mne.sys_info()"

?
This should succeed and print a list of libraries, and then you can move on
to trying some examples.

Eric

External Email - Use Caution

Ok, thanks for your reply. I thought I was getting trouble right after that
the last time I installed it. I'll test it further. Thanks.

Le mar. 17 juil. 2018 ? 14:34, Eric Larson <larson.eric.d at gmail.com> a
?crit :

        External Email - Use Caution

Usually these messages about Cython are non-fatal warnings rather than
errors. Does the environment work? You can check at a very basic level with
with something like:

source activate mne python -c "import mne; mne.sys_info()"

?
This should succeed and print a list of libraries, and then you can move
on to trying some examples.

Eric

        External Email - Use Caution

Hi everyone,

A problem I've had in the past:
Install on a fresh ubuntu (mint) install following instructions
https://martinos.org/mne/stable/install_mne_python.html#install-dependencies-and-mne
fails with these messages:
mkl-random 1.0.1 requires cython, which is not installed.
mkl-fft 1.0.2 requires cython, which is not installed.

Installed cython with apt install, now it is present on my system.
Problem 1:
conda env create -f environment.yml
fails saying
CondaValueError: prefix already exists:
/home/maximilien.chaumon/anaconda3/envs/mne

Fair enough. After total removal of anaconda and settings, check cython
is installed, reinstall after reboot, same fail, complaining cython isn't
there.

In any case, it seems that ubuntu doesn't ship with cython, so it may be
a good idea to add an install procedure to the instructions.

Any help much appreciated.
Max

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