retistruct.batch: Batch operation using the parallel package

In retistruct: Retinal Reconstruction Program

Description

This function reconstructs a number of datasets, using the R parallel package to distribute the reconstruction of multiple datasets across CPUs. If datasets is not specified the function recurses through a directory tree starting at tldir, determining whether the directory contains valid raw data and markup, and performing the reconstruction if it does.

Usage

retistruct.batch(
  tldir = ".",
  outputdir = tldir,
  datasets = NULL,
  device = "pdf",
  titrate = FALSE,
  cpu.time.limit = 3600,
  mc.cores = getOption("mc.cores", 2L)
)

Arguments

tldir	If datasets is not specified, the top level of the directory tree through which to recurse in order to find datasets.
outputdir	directory in which to dump a log file and images
datasets	Vector of dataset directories to reconstruct
device	string indicating what type of graphics output required. Options are "pdf" and "png".
titrate	Whether to "titrate" the reconstruction for different values of phi0. See titrate.reconstructedOutline.
cpu.time.limit	amount of CPU after which to terminate the process
mc.cores	The number of cores to use. Defaults to the value given by the option mc.cores

Author(s)

David Sterratt

retistruct documentation built on April 4, 2020, 5:08 p.m.