Question: How to run SOAPdenovo-127mer in normal PC
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gravatar for wpwupingwp
3.9 years ago by
wpwupingwp110
China
wpwupingwp110 wrote:

I want to use soapdenovo-127mer to assembly chloroplast genome, but when it was running at half, Linux shows "out of memory", and I got the informations from htop that soapdenovo-127mer used more than 20G RAM, which is larger than my computer(16GB).

Please tell me how to do it on my computer. I try to apply for some supercomputers, but since I am not American, I got reject from XSEDE, and Chiese native supercomputers seems do not open for personal.

 

P.S.: I don't know whether it is about /swap size, I have 8GB and I can't change the size or I have to reinstall the system.

assembly • 1.4k views
ADD COMMENTlink modified 3.9 years ago by orange30 • written 3.9 years ago by wpwupingwp110
0
gravatar for orange
3.9 years ago by
orange30
Korea, Republic Of
orange30 wrote:

Increasing  the swap may be useful,but run slower.And i am adoubt that why assembly of chloroplast genome use so many memory.What type of reads do you have?If you have 454 reads,maybe you can see How To Assemble Chloroplast Genome?

ADD COMMENTlink written 3.9 years ago by orange30
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