Installation Error on MacOSX

[ReneKat]

Happy New Year EukRep team!
I have installed EukRep onto my Mac OSX 10.14.6 using
conda create -y -n eukrep -c bioconda scikit-learn==0.19.2 eukrep
I cloned the EukRep git repository and added its directory to my path.
I am trying to run EukRep for the first time and am getting an Import Error:

EukRep -i assembly.fa -o euk_contigs.fa --min 1000 --prokarya pro_contigs.fa

Traceback (most recent call last):
File "/Users/Owl/opt/anaconda3/envs/eukrep/bin/EukRep", line 12, in
import EukRep.EukRep as EukRep
ImportError: No module named EukRep.EukRep

I'm hoping this is an easy fix. Thanks for your guidance!
René

[SilentGene]

Hi @ReneKat I had the same issue and I finally sorted it out. The problem was that conda installed python2.7 by default, but the EukRep module is developed in python 3. You can solve the problem by installing python3 first before you install eukrep. The code is as below for your reference:

conda create -y -n eukrep python=3.6
conda activate eukrep
conda install -c bioconda scikit-learn==0.19.2 eukrep

However, I recommend the author solve this by assigning python version in the conda recipe, which will solve the problem fundamentally.

Cheers,
Heyu

[bgruening]

I think we can avoid this by creating a proper conda package for EukRep.