provParseR

Parses the provenance collected by rdtLite or rdt and returns selected provenance as an R data frame.

Installation

Install from GitHub:

# install.packages("devtools")
devtools::install_github("End-to-end-provenance/provParseR")

Once installed, load the package:

library("provParseR")

Usage

The prov.parse function parses the prov.json file or string created by rdtLite or rdt and returns an R object of class ProvInfo. This object can then be queried to return a data frame containing the desired values. For example:

prov <- prov.parse("c:/prov/prov.json")
data.nodes <- get.data.nodes(prov)

creates an R object “prov” (where the path to the provenance file is “c:/prov/prov.json”) and a data frame “data.nodes” that contains all data nodes in the provenance graph.

The access functions below return a data frame with the specified content. For more details, please see the help pages for provParseR.

ENVIRONMENT

# Computing environment
get.environment()

# Libraries used
get.libs()

# Provenance collection tool
get.tool.info()

# Arguments
get.args()

SCRIPTS

# Scripts executed
get.scripts()

# Location of saved scripts
get.saved.scripts()

NODES

# Procedure nodes
get.proc.nodes()

# Data nodes
get.data.nodes()

# Function nodes
get.func.nodes()

# Error nodes
get.error.nodes()

EDGES

# Procedure-to-procedure edges
get.proc.proc()

# Data-to-procedure edges
get.data.proc()

# Procedure-to-data edges
get.proc.data()

# Function-to-procedure edges
get.func.proc()

# Function-library edges
get.func.lib()

INPUTS/OUTPUTS

# Files read
get.input.files()

# Files written
get.output.files()

# URLs read
get.urls()

# Standard output
get.stdout.nodes()

VARIABLES

# Variable data type
get.val.type()

# Variables with specified name
get.variable.named()

# Variables assigned
get.variables.set()

# Variables used
get.variables.used()