mpiblast
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===== Frequently Asked Questions ===== | ===== Frequently Asked Questions ===== | ||
Collection of the more-helpful questions and answers from the [[http:// | Collection of the more-helpful questions and answers from the [[http:// | ||
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====How do I format a huge database? | ====How do I format a huge database? | ||
Large databases like nt can consume several gigabytes of disk space and it is preferable to store them in compressed form. Starting with mpiBLAST 1.4.0 it is possible to pipe FastA formatted sequence data into mpiformatdb. This feature provides the ability to directly format a compressed (gzip/bzip etc.) database using command line syntax like: | Large databases like nt can consume several gigabytes of disk space and it is preferable to store them in compressed form. Starting with mpiBLAST 1.4.0 it is possible to pipe FastA formatted sequence data into mpiformatdb. This feature provides the ability to directly format a compressed (gzip/bzip etc.) database using command line syntax like: | ||
< | < | ||
+ | ===== Benchmarks ===== | ||
+ | < | ||
+ | | ||
+ | real 7m48.052s | ||
+ | user 7m40.775s | ||
+ | sys | ||
+ | |||
+ | < | ||
+ | Total Execution Time: 395.754 | ||
+ | |||
+ | real 6m36.841s | ||
+ | user 12m13.891s | ||
+ | sys |