jupyter lab importing modules

Question

I am using jupyter lab on linux, and I have started it various working directories, including / , but I am having problems importing a module I installed with pip.

Here is what I did:

pip install primer3-py

Then run ipython

Within ipython run import primer3 works as expected where primer3.calcTm('GTAAAACGACGGCCAGT') returns 49.16808228911765

However, if I run jupyter lab Open a console and run import primer3 I now get an import error:

---------------------------------------------------------------------------
ImportError                               Traceback (most recent call last)
<ipython-input-1-1493f16bb490> in <module>()
----> 1 import primer3

ImportError: No module named primer3

Am I doing something wrong here?

Answer 1

Since you already have Anaconda installed have you tried installing primer3 with conda ?

Try the following as described here

conda install -c bioconda primer3-py 

Your Linux installation may have more than one Python distribution installed in addition to your Anaconda installation. I use Anaconda for my personal Python needs so I don't overlap with the OS's needs. If there is a package on PyPI which is not on Anaconda Cloud then you can install it with the copy of pip which comes with your Anaconda installation.