startBlat: Start a blat server

In sherrillmix/dnar: Miscellaneous functions to deal with bioinformatic analyses

Start a blat server

Description

Start a blat server

Usage

startBlat(
  nibDir,
  options = "",
  gfServer = "gfServer",
  bit2 = NULL,
  startPort = 37900,
  nibSuffix = ".nib",
  wait = 120
)

Arguments

nibDir	directory containing nib files to align against
options	options to gfServer
gfServer	path to gfServer program
bit2	a bit2 file alternative to nib directory
startPort	begin looking for open (no other R called gfServer using) ports on startPort and add 1 until finding one
nibSuffix	nib files end in nibSuffix
wait	number of 5 second intervals to wait for gfServer to finish starting before giving up

Value

port of blat server

sherrillmix/dnar documentation built on July 18, 2022, 10:07 p.m.