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PETAL (ParallEl paThways AnaLyzer): a Python tool for deep biological pathway analysis

License: Other

Python 45.75% CSS 4.03% JavaScript 34.58% HTML 15.65%
biological biological-data-analysis kegg kegg-pathway parallel python python3 unict

petal's People

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xudeh bkbonde genesandatshirt sailfish009 grunict erichilarysmithsr

petal's Issues

Trying to open APP pathway from has05010

I'm running the following code in anaconda prompt:
python main.py -m 0 -p hsa05010 -g APP -d 1000 -c 0

I get the error:

error message

Why does it change the name of the pathway from hsa05010 to hsa:351?

Thank you!!

libf77blas.so.3: cannot open shared object file

When updating libraries, the following error may occur:

File "/home/pi/.local/lib/python3.7/site-packages/numpy/__init__.py", line 140, in <module>
from . import core
File "/home/pi/.local/lib/python3.7/site-packages/numpy/core/__init__.py", line 48, in <module>
raise ImportError(msg)
ImportError:

IMPORTANT: PLEASE READ THIS FOR ADVICE ON HOW TO SOLVE THIS ISSUE!

Importing the numpy C-extensions failed. This error can happen for
many reasons, often due to issues with your setup or how NumPy was
installed.
We have compiled some common reasons and troubleshooting tips at:
https://numpy.org/devdocs/user/troubleshooting-importerror.html
Please note and check the following:
* The Python version is: Python3.7 from "/usr/bin/python3"
* The NumPy version is: "1.19.4"
and make sure that they are the versions you expect.
Please carefully study the documentation linked above for further help.
Original error was: libf77blas.so.3: cannot open shared object file: No such file or directory

To solve the problem on linux, you need to install the following package:
sudo apt-get install libatlas-base-dev

This fix will be added to the README in the next release.

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