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How to start

I am a newer for Modeller. After successfully installing Modeller, I wonder how to start modelling. The questions are as follows:
1: Where can I get that alignment files? Need I convert the sequences in FASTA format into PIR format by hands?
2: Where to write those commands? I mean, in other languages, there are developing environments for programmers to write their own commands,however, I don't know how to do it in Modeller.
Many thanks