Vortex is used on the Conservation Biology MSc course at UCT to simulate the extinction process of a species stochastically. Its user interface in managing/renaming different scenarios isn’t great, and I was a bit lazy and ended up with a single vortex project file containing a huge number of scenarios that were redundant for my project. I certainly wasn’t going to create them all again from scratch, so I manually removed the chunks in my .vpj pertaining to the simulations I no longer wanted, and wrote a quick script which would fix all of the numbering and references throughout the .vpj program using Python and regex. I hope this will help someone else:
import re btm = open('C:/yourpathto/vortexproject.vpj', 'r') i = 0 outputdata =  # Iterate through all of the scenario notes, keeping track of what number we are on and changing numbers as necessary for line in btm: match = re.match('^\[(\d\d?\d?) Scenario Notes\]$', line) if match: i = i + 1 match = re.search('^\[\d\d?\d?\d? ', line) if match: line = re.sub('^\[\d\d?\d?\d? ','[' + str(i) + ' ', line) outputdata.append(line) # Create a new file to output the data outputfile = open('C:/replacementvortexproject.vpj', 'w') # Loop through each line in outputdata and add it to the new file for line in outputdata: outputfile.write(line.lstrip('\r\n')) # Close the file and print to screen to know the program has ended btm.close() outputfile.close() print 'Finished'