xml2eco: XML to EcoJSON

In dsidavis/SpilloverDA: Munging and Exploring the Viral Spillover Data Set

Description

Takes an XML file from a PDF created using pdftohtml, and runs the augmented keyword extractor on it. The intermediate text, broken into sections, and the results can be cached to disk.

Usage

xml2eco(XML, ecoextractLoc = getEcoExtractPyScript(),
        results_dir = character(), cache.dir = character())

Arguments

XML	the name of the XML document generated by converting the PDF document to XML via pdftohtml or indirectly via the convertPDF2XML function in ReadPDF.
ecoextractLoc	the file path to the ecoextract.py script. Defaults to the included script in python/ecoextract.py.
results_dir	optional directory to save the results into. Will be created if it does not exist.
cache.dir	optional directory to save the intermediate text, broken into sections.

Value

A list representation of the JSON object returned by ecoextract.py

location
date
resolved_keyword
txt	original text

Author(s)

Matt Espe

Examples

f = system.file("sampleDocs", "Rondini-2008-Development of multiplex PCR-liga.xml", package = "SpilloverDA")
tmp = xml2eco(f)

dsidavis/SpilloverDA documentation built on June 1, 2019, 2:55 p.m.