tests/testthat.R

In Spectra: Spectra Infrastructure for Mass Spectrometry Data

library("testthat")
library("Spectra")

register(SerialParam())

sciex_file <- normalizePath(
    dir(system.file("sciex", package = "msdata"), full.names = TRUE))
cdf_file <- normalizePath(
    dir(system.file("cdf", package = "msdata"), full.names = TRUE))

sciex_mzr <- backendInitialize(MsBackendMzR(), files = sciex_file)
sciex_pks <- peaksData(sciex_mzr)
fl <- normalizePath(
    dir(system.file("proteomics", package = "msdata"), full.names = TRUE))
tmt_mzr <- backendInitialize(MsBackendMzR(), files = fl[5])

sciex_hd5 <- backendInitialize(MsBackendHdf5Peaks(),
                               data = spectraData(sciex_mzr),
                               hdf5path = tempdir())

test_check("Spectra")