Re: [scipion-users] deepLearning toolkit -- installation error

[Pablo C. <pc...@cn...>]

Hi Dmitry, you are using conda provided by eman 2.21

We have not tested that at all and in some cases we've seen issues 
related to  the MPI library provided eman.

I'd avoid this:

eval "$(/usr/local/EMAN_2.21/bin/conda shell.bash hook)"

This is probably coming from a variable in the scipion.conf named 
CONDA_ACTIVATION_CMD

Please set it to point to a non eman conda path (Miniconda installation 
or anaconda)


On 14/12/20 16:04, Dmitry Semchonok wrote:
> Dear colleagues,
>
> We are experiencing some issue with the installation of the 
> deepLearning toolkit.
>
>
> While installing from the command line we have the following error:
>
>
> export PYTHONPATH="" && eval "$(/usr/local/EMAN_2.21/bin/conda 
> shell.bash hook)" && conda create --force --yes -n xmipp_DLTK_v0.3 
> python=3 pandas=0.23 scikit-image=0.14 opencv=3.4 tensorflow-gpu=1.15 
> keras=2.2 scikit-learn=0.22  -c anaconda && conda activate 
> xmipp_DLTK_v0.3 && pip install numpy==1.18.4 numpy==1.18.4 && conda 
> env export > xmipp_DLTK_v0.3.yml
> usage: conda [-h] [-V] command ...
> conda: error: argument command: invalid choice: 
> u'/usr/local/EMAN_2.21/bin/conda' (choose from u'info', u'help', 
> u'list', u'search', u'create', u'install', u'update', u'upgrade', 
> u'remove', u'uninstall', u'config', u'clean', u'package')
>
> CondaValueError: prefix already exists: 
> /home/panos/.conda/envs/xmipp_DLTK_v0.3
>
>
> Could you please advice how to solve that ?
>
>
> Thank you
>
>
> Sincerely,
> Dmitry
>
>
>
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-- 
Pablo Conesa - *Madrid Scipion <http://scipion.i2pc.es> team*