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lightdock / lightdock-python2.7

Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
https://lightdock.org/
GNU General Public License v3.0
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Problem with Pip3 Install #25

Closed ccgauvin94 closed 4 years ago

ccgauvin94 commented 4 years ago

Expected Behavior

lightdock should install and place binaries or .py files properly

Current Behavior

/usr/local/lib/python3.7/dist-packes/lightdock has no binaries or lightdock.py file. Instead, lightdock3.py and lightdock3_setup.py are located in /usr/local/bin and when trying to run setup.json, the script cannot find the setup files.

Steps to Reproduce

Used the command sudo pip3 install lightdock on Ubuntu Server 19.10, received no installation errors.

Context (Environment)

Renders the software unusable because the python file can't find the install directory.

Output of sudo pip3 show lightdock:

Name: lightdock Version: 0.8.0a1 Summary: A macromolecular docking framework Home-page: https://lightdock.org/ Author: None Author-email: None License: GPLv3 License Location: /usr/local/lib/python3.7/dist-packages Requires: freesasa, biopython, scipy, pyparsing, cython, prody, numpy Required-by:

brianjimenez commented 4 years ago

Hi, Note that this is the repository for legacy Python 2.7 version, which does not support the installation via pip. If you install with pip3 install lightdock better use virtualenv to avoid system-wide installations.

Commands are correct for Python 3 as they have been renamed to avoid confusions: lightdock3.py and lightdock3_setup.py. Please check source code here (https://github.com/lightdock/lightdock) and tutorials here: https://lightdock.org/tutorials/

brianjimenez commented 4 years ago

Installed Ubuntu Server 19.10 in a virtual machine and followed the instructions to install lightdock from https://github.com/lightdock/lightdock

Setup and docking worked smoothly:

lightdock_ubuntu_server