I am conducting some rather large alignments on the cloud and each time am getting a server reset/crash on my Amazon EC2 extra large computing instance. What is going on here? How much RAM do I need to do these alignments?
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User 7351 •
15GB is not that large amount when it comes to memory - try the High-Memory Quadruple Extra Large Instance (what a silly name ;-) that gives you 64GB.
they need to get their act together. my grandmother has 64GB. ok well, not quite.
I think the issue is rather that it is not that easy to build a system that can offer 64GB in a cloud settings. Hard disk and CPUs are a lot easier to multiply.
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How many sequences are you trying to align and how long are they? Do you have some kind of log-file you could post?
Shameless plug: if you're aligning protein sequences, try Clustal Omega. It uses much less memory during the pairwise alignment stage than others methods