I try to download alignments ( 606,582 lines, format: axt) and press "save" link. This gives "Internal server error" after a few seconds of waiting. 

Smaller history elems (like a bed file) can be downloaded without any problems.

You can inspect my history, user:radek, history:arf, history elems giving errors:3-6

This used to work like a charm for even bigger files in older galaxies.

Radek Szklarczyk, radek@cs.vu.nl, www.cs.vu.nl/~radek