Hello fellow Biostars,

while reading the answers of you folks to difficult questions in this forum, I figured that, if anyone in the internet, only you can save a desperate man like me, who is new to bioinformatics, with your impressive knowledge and experience! I am looking forward to you answers and do not think that you guys will be intimidated by a post that is a bit longer!

So I recently installed BUSCO, and while the test busco run yields the exact log that I am supposed to yield and the analysis do run without any errors, I still do not know whether I have made any mistakes. I do not want to discard all of my analysis in the end because I made a decisive mistake in the beginning, Therefore I wanted to ask you guys a couple of questions. Specifically there are a few tips in the user guide that I chose to ignore, because I thought that I would crush my entire seemingly working installation, if I tried to implement them in the wrong manner (https://busco.ezlab.org/busco_userguide.html#mandatory-arguments).

Info: I am trying to examine the quality of genome assemblies of many plants and algae. I chose the installation via anaconda.

1. At first I wanted to use metaeuk instead of augustus, but according to the user guide, the anaconda metaeuk version does not work for the current BUSCO pipeline. So I installed it manually instead, but it does not seem to be installed as a part of busco (I can see that by typing "busco -h". Normally, there would be optional arguments for metaeuk, but there are none, so busco does not recognize it or something.). Consequently, I decided to just use augustus instead.
There are a few tips regarding augustus in the user guide of BUSCO. For example, it says that I should use the 3.2.3 version and type in "-- augustus" in the command line. In Addtion, there is a section that says that I should set a few variables as the following:

export PATH="/path/to/AUGUSTUS/augustus-3.2.3/bin:$PATH"

export PATH="/path/to/AUGUSTUS/augustus-3.2.3/scripts:$PATH"

export AUGUSTUS_CONFIG_PATH="/path/to/AUGUSTUS/augustus-3.2.3/config/"

I havent done either of them. I use the version 3.3.3., the analysis runs augustus prediction regardless of whether I am typing "-- augutstus" or not and I also did not type in the export commands, because they are part of the section for the Manual installation for BUSCO and I installed it as a conda package, not manually. But is it for some reason I do not know critical to do those steps anyway? 

2. Moreover, there is a sentence in the README.md stating "Do not forget to edit the ``config/config.ini`` file to match your environment. The script `scripts/busco_configurator.py` can help with this." I have not run the script because, as I said, I do not want to break something when it is all seemingly working fine right now. I do know what an environment is, but I do not know what is meant by "paths matching my environment". I can find and edit the config file and all the paths that are declared in the file are findable on my computer. So everything should be fine I guess?

I am verry sorry for the long post, but I hope you guys can help me!

Best regards,
Thies
My question has been answered elsewhere. As assumed, it was totally fine to ignore these steps, thank you for your input!
Unfortunately I do not know how to close a thread, so I will just leave it as it is.