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 method
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