Apply operations using clusters
These functions provide several ways to parallelize computations using a cluster.
NOTE: This man page is for the clusterCall, clusterApply,
clusterApplyLB, clusterEvalQ, clusterExport,
clusterMap, clusterSplit, parLapply, parSapply,
parApply, parRapply, parCapply, parLapplyLB,
and parSapplyLB S4 generic functions defined in the
BiocGenerics package.
See ?parallel::clusterApply for the default
methods (defined in the parallel package).
Bioconductor packages can define specific methods for cluster-like
objects not supported by the default methods.
clusterCall(cl=NULL, fun, ...)
clusterApply(cl=NULL, x, fun, ...)
clusterApplyLB(cl=NULL, x, fun, ...)
clusterEvalQ(cl=NULL, expr)
clusterExport(cl=NULL, varlist, envir=.GlobalEnv)
clusterMap(cl=NULL, fun, ..., MoreArgs=NULL, RECYCLE=TRUE,
SIMPLIFY=FALSE, USE.NAMES=TRUE,
.scheduling=c("static", "dynamic"))
clusterSplit(cl=NULL, seq)
parLapply(cl=NULL, X, fun, ..., chunk.size=NULL)
parSapply(cl=NULL, X, FUN, ..., simplify=TRUE,
USE.NAMES=TRUE, chunk.size=NULL)
parApply(cl=NULL, X, MARGIN, FUN, ..., chunk.size=NULL)
parRapply(cl=NULL, x, FUN, ..., chunk.size=NULL)
parCapply(cl=NULL, x, FUN, ..., chunk.size=NULL)
parLapplyLB(cl=NULL, X, fun, ..., chunk.size=NULL)
parSapplyLB(cl=NULL, X, FUN, ..., simplify=TRUE,
USE.NAMES=TRUE, chunk.size=NULL)cl |
A cluster-like object. |
x |
A vector-like object for |
seq |
Vector-like object to split. |
X |
A vector-like object for |
fun, ..., expr, varlist, envir, MoreArgs, RECYCLE, SIMPLIFY,
USE.NAMES, .scheduling, chunk.size, FUN, simplify, MARGIN |
See |
See ?parallel::clusterApply for the value returned
by the default methods.
Specific methods defined in Bioconductor packages should behave like the default methods.
parallel::clusterApply for the default
methods.
showMethods for displaying a summary of the
methods defined for a given generic function.
selectMethod for getting the definition of
a specific method.
BiocGenerics for a summary of all the generics defined in the BiocGenerics package.
clusterCall # note the dispatch on the 'cl' arg only
showMethods("clusterCall")
selectMethod("clusterCall", "ANY") # the default method
clusterApply # note the dispatch on the 'cl' and 'x' args only
showMethods("clusterApply")
selectMethod("clusterApply", c("ANY", "ANY")) # the default method
clusterApplyLB # note the dispatch on the 'cl' and 'x' args only
showMethods("clusterApplyLB")
selectMethod("clusterApplyLB", c("ANY", "ANY")) # the default method
clusterEvalQ # note the dispatch on the 'cl' arg only
showMethods("clusterEvalQ")
selectMethod("clusterEvalQ", "ANY") # the default method
clusterExport # note the dispatch on the 'cl' arg only
showMethods("clusterExport")
selectMethod("clusterExport", "ANY") # the default method
clusterMap # note the dispatch on the 'cl' arg only
showMethods("clusterMap")
selectMethod("clusterMap", "ANY") # the default method
clusterSplit
showMethods("clusterSplit")
selectMethod("clusterSplit", c("ANY", "ANY")) # the default method
parLapply # note the dispatch on the 'cl' and 'X' args only
showMethods("parLapply")
selectMethod("parLapply", c("ANY", "ANY")) # the default method
parSapply # note the dispatch on the 'cl' and 'X' args only
showMethods("parSapply")
selectMethod("parSapply", c("ANY", "ANY")) # the default method
parApply # note the dispatch on the 'cl' and 'X' args only
showMethods("parApply")
selectMethod("parApply", c("ANY", "ANY")) # the default method
parRapply # note the dispatch on the 'cl' and 'x' args only
showMethods("parRapply")
selectMethod("parRapply", c("ANY", "ANY")) # the default method
parCapply # note the dispatch on the 'cl' and 'x' args only
showMethods("parCapply")
selectMethod("parCapply", c("ANY", "ANY")) # the default method
parLapplyLB # note the dispatch on the 'cl' and 'X' args only
showMethods("parLapplyLB")
selectMethod("parLapplyLB", c("ANY", "ANY")) # the default method
parSapplyLB # note the dispatch on the 'cl' and 'X' args only
showMethods("parSapplyLB")
selectMethod("parSapplyLB", c("ANY", "ANY")) # the default methodPlease choose more modern alternatives, such as Google Chrome or Mozilla Firefox.