bpvectorize: Transform vectorized functions into parallelized, vectorized...

In BiocParallel: Bioconductor facilities for parallel evaluation

Description

This transforms a vectorized function into a parallel, vectorized function. Any function FUN can be used, provided its parallelized argument (by default, the first argument) has a length and [ method defined, and the return value of FUN can be concatenated with c.

Usage

bpvectorize(FUN, ..., BPREDO=list(), BPPARAM=bpparam())

## S4 method for signature 'ANY,ANY'
bpvectorize(FUN, ..., BPREDO=list(), BPPARAM=bpparam())

## S4 method for signature 'ANY,missing'
bpvectorize(FUN, ..., BPREDO=list(), 
    BPPARAM=bpparam())

Arguments

FUN	A function whose first argument has a length and can be subset [, and whose evaluation would benefit by splitting the argument into subsets, each one of which is independently transformed by FUN. The return value of FUN must support concatenation with c.
...	Additional arguments to parallization, unused.
BPPARAM	An optional BiocParallelParam instance determining the parallel back-end to be used during evaluation.
BPREDO	A list of output from bpvectorize with one or more failed elements. When a list is given in BPREDO, bpok is used to identify errors, tasks are rerun and inserted into the original results.

Details

The result of bpvectorize is a function with signature ...; arguments to the returned function are the original arguments FUN. BPPARAM is used for parallel evaluation.

When BPPARAM is a class for which no method is defined (e.g., SerialParam), FUN(X) is used.

See methods{bpvectorize} for additional methods, if any.

Value

A function taking the same arguments as FUN, but evaluated using bpvec for parallel evaluation across available cores.

Author(s)

Ryan Thompson mailto:[e-mail]

See Also

bpvec

Examples

psqrt <- bpvectorize(sqrt) ## default parallelization
psqrt(1:10)

Example output

 [1] 1.000000 1.414214 1.732051 2.000000 2.236068 2.449490 2.645751 2.828427
 [9] 3.000000 3.162278

BiocParallel documentation built on Nov. 8, 2020, 5:46 p.m.