Question

Muscle Alignments On Amazon Ec2 Reset/Crash

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12.5 years ago

User 7351 ▴ 40

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?

cloud • 2.1k views

ADD COMMENT • link updated 12.5 years ago by Istvan Albert 102k • written 12.5 years ago by User 7351 ▴ 40

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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?

ADD REPLY • link 12.5 years ago by Andreas ★ 2.5k

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Shameless plug: if you're aligning protein sequences, try Clustal Omega. It uses much less memory during the pairwise alignment stage than others methods

ADD REPLY • link 12.5 years ago by Andreas ★ 2.5k

score 1 · Answer 1 · 2012-05-15

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12.5 years ago

Istvan Albert 102k

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.

ADD COMMENT • link 12.5 years ago by Istvan Albert 102k

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they need to get their act together. my grandmother has 64GB. ok well, not quite.

ADD REPLY • link 12.5 years ago by Jeremy Leipzig 22k

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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.

ADD REPLY • link 12.5 years ago by Istvan Albert 102k