tests/testthat/test-Macarron.R

In biobakery/MACARRoN: Prioritization of potentially bioactive metabolic features from epidemiological and environmental metabolomics datasets

library(testthat)
library(Macarron)

prism_abundances = system.file("extdata", "demo_abundances.csv", package="Macarron")
abundances_df = read.csv(file = prism_abundances, row.names = 1)
prism_annotations = system.file("extdata", "demo_annotations.csv", package="Macarron")
annotations_df = read.csv(file = prism_annotations, row.names = 1)
prism_metadata = system.file("extdata", "demo_metadata.csv", package="Macarron")
metadata_df = read.csv(file = prism_metadata, row.names = 1)
met_taxonomy = system.file("extdata", "demo_taxonomy.csv", package="Macarron")
taxonomy_df = read.csv(file = met_taxonomy)

prism_prioritized <- Macarron(abundances_df,
                              annotations_df,
                              metadata_df,
                              taxonomy_df)
expect_true(is.data.frame(prism_prioritized[[1]]))
expect_true(is.data.frame(prism_prioritized[[2]]))
expect_equal(ncol(prism_prioritized[[1]]), ncol(prism_prioritized[[2]]))
expect_equal(ncol(prism_prioritized[[1]]), ncol(annotations_df) + 10)