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35 lines
1.4 KiB
35 lines
1.4 KiB
# Test GCAT processing of an example multiplate file with default settings as of revision 537
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INPUT.FILE = system.file("extdata/default_examples","multi_test_YYYY_MM_DD_HH_MM_SS.csv",package="GCAT")
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OUTPUT.DIR = paste(getwd(),"GCAT_test_out_multiplate.1",sep="/")
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library(GCAT)
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context("Multiplate example with parameter set 1")
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# Run GCAT
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out = gcat.analysis.main(file.list = INPUT.FILE, single.plate = F, layout.file = NULL,
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out.dir = OUTPUT.DIR, graphic.dir = OUTPUT.DIR,
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add.constant = 0.1, blank.value = NULL, start.index = 2, growth.cutoff = 0.05,
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use.linear.param=F, use.loess=F, smooth.param=0.1,
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points.to.remove = integer(), remove.jumps = F, time.input="%Y-%m-%d %H:%M:%S",
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silent = T, verbose = F, return.fit = T, overview.jpgs = T)
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# Test output well array
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test_that("output well array is returned", {
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expect_equal(typeof(out), "list")
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expect_is(out, "array")
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expect_equal(length(out), 192)
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expect_true(all(sapply(out, is, "well")))
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})
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# Test well D05 from plate 2
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test_that("well D05 from plate 2 is fit", {
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expect_is(out[[132]],"well")
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expect_true(getPosition(out[[132]])["row"]=="D")
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expect_true(getPosition(out[[132]])["col"]=="5")
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expect_false(getCurPar(out[[132]])$no.growth)
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expect_is(getFitPar(out[[132]])$u,"numeric")
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})
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# Clean up
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unlink(OUTPUT.DIR, recursive=T) |