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Merged
bbimber merged 2 commits into from
Apr 13, 2026
Merged

Test updates #149

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b83e803
Test updates
bbimber Apr 10, 2026
b3be2e1
Test updates
bbimber Apr 10, 2026
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6 changes: 3 additions & 3 deletions tests/testthat/test-celltypist.R
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Original file line number Diff line number Diff line change
Expand Up @@ -57,7 +57,7 @@ test_that("celltypist runs", {
expect_equal(4, length(unique(seuratObj$RIRA.majority_voting)), info = 'using RIRA model', tolerance = 1)
expect_equal(346, unname(table(seuratObj$RIRA.majority_voting)['Bcell']), tolerance = 1)
expect_equal(1653, unname(table(seuratObj$RIRA.majority_voting)['T_NK']), tolerance = 1)
expect_equal(684, unname(table(seuratObj$RIRA.majority_voting)['Myeloid']))
expect_equal(686, unname(table(seuratObj$RIRA.majority_voting)['Myeloid']))

# NOTE: this is very slow, so skip in automated testing for now
modelFile <- 'myModel.pkl'
Expand Down Expand Up @@ -137,8 +137,8 @@ test_that("FilterDisallowedClasses works as expected", {

expect_equal('RIRA_Immune_v2', seuratObj@misc$RIRA_Immune_Model)
expect_equal(256, sum(seuratObj$RIRA_Immune_v2.cellclass == 'Bcell', na.rm = T), tolerance = 1)
expect_equal(576, sum(seuratObj$RIRA_Immune_v2.cellclass == 'Myeloid', na.rm = T))
expect_equal(1331, sum(seuratObj$RIRA_Immune_v2.cellclass == 'T_NK', na.rm = T))
expect_equal(577, sum(seuratObj$RIRA_Immune_v2.cellclass == 'Myeloid', na.rm = T))
expect_equal(1340, sum(seuratObj$RIRA_Immune_v2.cellclass == 'T_NK', na.rm = T))

print('DisallowedUCellCombinations:')
print(table(seuratObj$DisallowedUCellCombinations))
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1 change: 1 addition & 0 deletions tests/testthat/test-geo.R
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Expand Up @@ -11,6 +11,7 @@ test_that("GEO Files Exist", {
"GSE277821_RIRA.All.MergedClonotypes.txt.gz",
"GSE277821_RIRA.All.Metadata.rds",
"GSE277821_RIRA.All.RNA.counts.rds",
"GSE277821_RIRA.All.ADT.counts.int.rds",
"GSE277821_RIRA.All.seurat.rds",
"GSE277821_RIRA.Bcell.seurat.rds",
"GSE277821_RIRA.Myeloid.seurat.rds",
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