swissmodel_automation

Due to the API being way too limited, this is a selenium UI solution that replicates the the manual workflow of the site through chrome on linux

How to use this:

1. on linux, install chrome webdriver (the dependency libraries called by the script if the package manager didn't get them)
2. copy your input .fa file in this directory, open swissmode_selenium_geturl.py and give the input path as the value of inputfile variable
3. run swissmodel_selenium_geturl.py to initialize the modelling job for you
   this appends the project url-s in project_urls.txt in <seq_name>\n<seq_url>\n format
4. wait until the moddeling jobs finish, idk how long this should take, ex. it finished the 300 jobs i gave it in an hour or two
5. run swissmodel_selenium_download.py to start downloading the models
   this checks for the best sequence identity matching template and generates it wasn't initially generated, then downloads it's pdb file and moves it to a pdb_downloads folder in the project forder, files named from the names in the fasta file
6. if this script gets stuck, a thing you could try is going back to previous page
   if that doesn't work, manually download the project it's currently stuck on, then go to project_urls.txt, delete already downloaded projects and restart