In a terminal type:
sudo apt-get install pdftk
Now you can merge pdf files by putting them in the same directory and in a terminal typing:
pdftk 1.pdf 2.pdf 3.pdf cat output merged.pdf
- substituting the number for the names of the pdfs files.More options can be found on the pdftk website. pdftk can split files, encrypt, decrypt, password protect, rotate an image, etc.