Hello!
By using SHRiMP (version 1.2.1) I have tried to map about 380 Mio. SOLiD SAGE reads of length 35bp in color space format onto the reference sequence.
However, the RAM memory usage was increasing to more than 5GB, and there was no indication that augmentation would stop. So, I terminated the program manually without having any result or output file.
Has anybody made the same experience?
Should I split the reads file into several smaller data files and run them separately? And what is the optimal/maximal reads one could give as input in a run when the program should not use more than, let's say 2GB of RAM?
Thanks for any help and suggestions!
By using SHRiMP (version 1.2.1) I have tried to map about 380 Mio. SOLiD SAGE reads of length 35bp in color space format onto the reference sequence.
However, the RAM memory usage was increasing to more than 5GB, and there was no indication that augmentation would stop. So, I terminated the program manually without having any result or output file.
Has anybody made the same experience?
Should I split the reads file into several smaller data files and run them separately? And what is the optimal/maximal reads one could give as input in a run when the program should not use more than, let's say 2GB of RAM?
Thanks for any help and suggestions!
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