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Can I install Jalview on a server?

Yes! Just remember to include the '-nodisplay' flag on the command line (and if in doubt, also include java -Djava.awt.headless=true to tell Java not to attempt to use the graphics environment)

For example:

java -Djava.awt.headless=true .. jalview.bin.Jalview -nodisplay -open ...

The latest version of Jalview should run fine on a server without a graphics environment, but some operations may fail. If you encounter problems, submit a bug report.

The old Jalview had font size and page orientation settings for its Postscript output. Where have they gone?

Jalview now exports images and graphics using the same settings as the alignment display window. Just set the font and font size, and the layout style (normal or wrapped) using the View menu.
If you do want to specify portrait or landscape, you could use the File→Print dialog box, and redirect the output to a file.

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