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bioinfo-ut / PhenotypeSeeker

Identify phenotype-specific k-mers and predict phenotype using sequenced bacterial strains
GNU General Public License v3.0
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Module Not Found Error #17

Closed gracehm closed 2 years ago

gracehm commented 2 years ago

Hello, I just started going through the install process for PhenotypeSeeker. I created a new environment and followed the steps provided, but I keep running into the error: File "/usr/local/bin/phenotypeseeker", line 13, in from PhenotypeSeeker import modeling, prediction, annotation File "/usr/local/lib/python3.6/dist-packages/PhenotypeSeeker/modeling.py", line 45, in import matplotlib ModuleNotFoundError: No module named 'matplotlib'

Do you have recommendations to fix this? I tried sudo apt-get install matplotlib but did not work.

Thanks.

gracehm commented 2 years ago

Solved by going into phenotypeseeker directory and running the command: sudo apt-get install python3-matplotlib

erkiaun commented 2 years ago

Nice that it got solved! Added matplotlib to be installed while installing PhenotypeSeeker!

gracehm commented 2 years ago

Hi! I have one more question for implementing PhenotypeSeeker. Is there an option for a custom Kmer length or an easy way I can change the code for my use case for a length of 31? I am struggling to map the Kmer size of 13 to BLAST hits as there is so much diversity. This would also help me comparing other software I'm also testing out.

Thanks, Grace

On Tue, Oct 12, 2021, 8:10 AM Erki Aun @.***> wrote:

Nice that it got solved! Added matplotlib to be installed while installing PhenotypeSeeker!

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