configSkeleton: NOTE: This function is now defunct. Use renderInputNode(),...

In UW-GAC/harmonHelper: harmonHelper

Description

NOTE: This function is now defunct. Use renderInputNode(), renderOutputNode(), and renderMetaNode() Construct the skeleton for the XML configuration file for the harmonization batch. Takes named lists as arguments

Usage

configSkeleton(source_trait_ids, age_trait_ids,
  harmonized_trait_set_version_ids, batch_trait_ids, harmon_functions, name,
  qc_doc, output_dir = "", output_prefix = "output", description = "",
  data_type = "", unit, is_demographic = FALSE, is_longitudinal = FALSE,
  encoded)

Arguments

source_trait_ids	A named vector or list of database IDs of source traits
age_trait_ids	A named vector or list of database IDs of age traits
harmonized_trait_set_version_ids	A named vector or list of database IDs of harmonized trait sets
batch_trait_ids	A named vector or list of database IDs of batch traits
harmon_functions	A named vector or list of paths to harmonization functions
name	Name of the harmonized trait
qc_doc	File path to the accompanying QC document
output_dir	Path to output directory
output_prefix	String to be prepended to the output files
description	Description of the harmonized trait
data_type	Data type of the output
unit	Unit of the harmonized trait
is_demographic	Flags output as a demographic trait
is_longitudinal	Flags output as a longitudinal trait and allows multiple observations per topmed_subject_id
encoded	A named vector of encoded values

UW-GAC/harmonHelper documentation built on May 9, 2019, 9:37 p.m.