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If you are running Linux, the command to use is "convert". Not only can this command combine PDF's like you want, but it can convert things from different formats as well (doesn't sound like you need that however).
The command line would be "convert *.pdf outputfile.pdf"
This is assuming that all your *.pdf input files are named so that they sort into the proper order that you want them combined. If the files are named more randomly and don't sort cleanly, you can replace "*.pdf" with "file1.pdf theotherfile.pdf input.pdf mychapter.pdf" - in other words, list your files in the specific order that you want them combined.
Your input files don't all have to be PDF's either. You could have some JPG's, PNG's, etc mixed in there as well.
If you're running Windows, sorry, I can't help you. Google search would be your friend.
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