[BiO BB] Time execute blast and Memory

[Daniel Xavier de Sousa]

Hi for all,
 

  


I’m executing the BLAST  program and have knew stranger (I guess) time
of execute with differences RAM memory.  Same with less memory, the difference of total
time between X memory and X/2 memory is little. 



Look:
 

  
 

PROGRAM NCBI BLAST == DATABASE NR (1.8 GB)
 

                        
 

Memory                    *TIME          * I/O               *SWAP
 

1 GB RAM              *0:03:01         *2610920        *9456
 

512 MB RAM         *0:03:10         *2670376        *18128
 

256 MB RAM         *0:03:35         *2713160        *21856
 

128 MB RAM         *0:04:22         *2751120         *30640
 

64 MB RAM           *0:05:30         *3050656         *64168
 

  
 

PROGRAM WUBLAST1.4 == DATABASE NR (1.8 GB)
 

Memory                     *TIME            *I/O                  *SWAP
 

1 GB RAM              *0:12:14         *2496144              *0
 

512 MB RAM         *0:13:37         *2500216              *0
 

256 MB RAM         *0:13:29         *2502376              *1720
 

128 MB RAM         *0:13:35         *2513432              *1760
 

64 MB RAM           *0:13:57         *2546192              *51048
 

  
 

The difference using more memory, must be better. For
exempla, there is little difference using 1 GB and 512 MB for a database of
1.8GB (NR). The little difference is more accentuated to WUblast 1.4 than NCIBI
BLAST. 


  
 

So, I want help to two things:


1 – It results is normal, to WUBlast1.4 and NCBIBlast?


2 – What can I do to get more difference when I change my
RAM memory?


  
 

  
 

Thank very much, 


Daniel
 
*****************************************************************
*        Daniel Xavier de Sousa                    *
*        Mestrando em Informática - PUC-Rio        *
*        E-MAIL : dsousaARROBAinf.puc-rio.br       *
*        Fone   : +55 21 35271500 - 4543           *
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