getSubCmdTokens,ClusterArchitectureSGE-method {RnBeads} | R Documentation |
Returns a string for the of command line corresponding to submitting a job with the given command to the cluster.
## S4 method for signature 'ClusterArchitectureSGE' getSubCmdTokens( object, cmd.tokens, log, job.name = "", res.req = character(0), depend.jobs = character(0), sub.binary = TRUE, quote.cmd = TRUE )
object |
|
cmd.tokens |
a character vector specifying the executable command that should be wrapped in the cluster submission command |
log |
file name and path of the log file that the submitted job writes to |
job.name |
name of the submitted job |
res.req |
character vector specifying required resources. The resource requirements should be the values of the vector, the names should specify the resource name |
depend.jobs |
character vector containg names or ids of jobs the submitted job will depend on. |
sub.binary |
treat the command as binary (see |
quote.cmd |
Flag indicating whether the submitted cammed should also be wrapped in quotes |
For a concrete child class implementation for a sun grid architecture specification see ClusterArchitectureSGE
A character vector containing the submission command tokens
Fabian Mueller
arch <- new("ClusterArchitectureSGE", name="my_sge_architecture" ) getSubCmdTokens(arch,c("Rscript","my_great_script.R"),"my_logfile.log")