In oharac/provRmd: Track Provenance Within R Markdown scripts

recordr_run.Rmd

``` {r setup, echo = FALSE}

OLD DEPENDENCY INSTALLATION:

recordr package is dependent on dataone, datapackage, and EML; make sure those are in place before installing recordr. 'datapackage' requires 'redland' package. Why must this be such a pain?

on computer, install macports (or PC analogue), then in terminal try 'sudo port install redland', then in R, install.packages('redland')

install.packages('drat'); library(drat); addRepo('NCEAS'); install.packages('datapackage'); library(datapackage)

install.packages('dataonelibs'); install.packages('dataone')

devtools::install_github("ropensci/EML", build=FALSE, dependencies=c("DEPENDS", "IMPORTS"))

NEW: SHOULD INSTALL DEPENDENCIES AUTOMATICALLY

install.packages('drat'); library(drat); addRepo('NCEAS'); install.packages('recordr')

looks like you still need to do the macports/redland thing and the EML install...

library(recordr)

``` {r run the script, echo = TRUE}
dir_git <- '~/github/ohibc'
dir_test <- file.path(dir_git, 'rmd_testing')

rc <- new("Recordr")
sampleScript <- path.expand(file.path(dir_test, 'recordr_test.R'))
sampleScript <- system.file('extdata/EmCoverage.R', package = 'recordr')
runid <- record(rc, sampleScript, tag="first recordr run")

oharac/provRmd documentation built on June 25, 2019, 9:06 p.m.