checkpoint: Save time storing longer analysis step on disk

In Rqc: Quality Control Tool for High-Throughput Sequencing Data

Description

This utility function can be used to save time on task that takes long time to complete. A Rda file are written on disk containing only objects setted to keep. If checkpoint function find related Rda file then this Rda will be loaded.

Usage

checkpoint(label, CODE, path = ".", overwrite = FALSE,
  verbose = FALSE, keep = NULL)

Arguments

label	name of this code, will create a Rda file with the same name.
CODE	R code.
path	directory to write/load Rda file.
overwrite	Rerun CODE and replace Rda file.
verbose	argument passed to load function
keep	vector of object/variable name to keep. NULL means error.

Value

Nothing.

Note

Experimental function.

Author(s)

Welliton Souza

Examples

checkpoint("Rqc", path=system.file(package="Rqc", "extdata"), {
  folder <- system.file(package="ShortRead", "extdata/E-MTAB-1147")
  files <- list.files(full.names=TRUE, path=folder)
  rqcResultSet <- rqcQA(files, pair=c(1,1), workers=1)
}, keep="rqcResultSet")

Rqc documentation built on Nov. 8, 2020, 5:11 p.m.