-
Notifications
You must be signed in to change notification settings - Fork 25
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
tests/testthat/test-query-condition.R
- Loading branch information
Showing
4 changed files
with
234 additions
and
31 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,206 @@ | ||
| test_that("DataFrame Factory", { | ||
| uri <- tempfile() | ||
| if (dir.exists(uri)) unlink(uri, recursive=TRUE) | ||
|
|
||
| ctx <- soma_context() | ||
|
|
||
| sch <- arrow::schema( | ||
| arrow::field("soma_joinid", arrow::int64()), | ||
| arrow::field("int8", arrow::int8()), | ||
| arrow::field("int16", arrow::int16()), | ||
| arrow::field("int32", arrow::int32()), | ||
| arrow::field("int64", arrow::int64()), | ||
| arrow::field("uint8", arrow::uint8()), | ||
| arrow::field("uint16", arrow::uint16()), | ||
| arrow::field("uint32", arrow::uint32()), | ||
| arrow::field("uint64", arrow::uint64()), | ||
| arrow::field("string", arrow::string()), | ||
| arrow::field("large_utf8", arrow::large_utf8()), | ||
| arrow::field("enum", | ||
| arrow::dictionary( | ||
| index_type = arrow::int8(), | ||
| value_type = arrow::utf8(), | ||
| ordered = TRUE)), | ||
| arrow::field("float32", arrow::float32()), | ||
| arrow::field("float64", arrow::float64()) | ||
| # TODO: for a follow-up PR | ||
| # arrow::field("timestamp_s", arrow::timestamp(unit="s")), | ||
| # arrow::field("timestamp_ms", arrow::timestamp(unit="ms")), | ||
| # arrow::field("timestamp_us", arrow::timestamp(unit="us")), | ||
| # arrow::field("timestamp_ns", arrow::timestamp(unit="ns")) | ||
| # Not supported in libtiledbsoma | ||
| # arrow::field("datetime_day", arrow::date32()) | ||
| ) | ||
|
|
||
| sdf <- SOMADataFrameCreate(uri, sch, index_column_names = "soma_joinid") | ||
| expect_true(sdf$exists()) | ||
| expect_true(dir.exists(uri)) | ||
|
|
||
| tbl <- arrow::arrow_table( | ||
| soma_joinid = 1L:10L, | ||
| int8 = -11L:-20L, | ||
| int16 = -201L:-210L, | ||
| int32 = -301L:-310L, | ||
| int64 = -401L:-410L, | ||
| uint8 = 11L:20L, | ||
| uint16 = 201L:210L, | ||
| uint32 = 301L:310L, | ||
| uint64 = 401L:410L, | ||
| string = c("apple", "ball", "cat", "dog", "egg", "fig", "goose", "hay", "ice", "jam"), | ||
| large_utf8 = c("APPLE", "BALL", "CAT", "DOG", "EGG", "FIG", "GOOSE", "HAY", "ICE", "JAM"), | ||
| enum = factor( | ||
| c("red", "yellow", "green", "red", "red", "red", "yellow", "green", "red", "green"), | ||
| levels = c("red", "yellow", "green")), | ||
| float32 = 1.5:10.5, | ||
| float64 = 11.5:20.5, | ||
| # TODO: for a follow-up PR | ||
| # timestamp_s = as.POSIXct(as.numeric(3600 + 1:10), tz="GMT"), | ||
| # timestamp_ms = as.POSIXct(as.numeric(3600*1000 + 1:10), tz="GMT"), | ||
| # timestamp_us = as.POSIXct(as.numeric(3600*1000*1000 + 1:10), tz="GMT"), | ||
| # timestamp_ns = as.POSIXct(as.numeric(3600*1000*1000*1000 + 1:10), tz="GMT"), | ||
| schema = sch) | ||
| sdf$write(tbl) | ||
| sdf$close() | ||
|
|
||
| sdf$reopen("READ") | ||
|
|
||
| good_cases <- list( | ||
| 'soma_joinid > 5' = function(df) { | ||
| expect_equal(df$soma_joinid, 6:10) | ||
| expect_equal(df$int32, -306:-310) | ||
| }, | ||
| 'soma_joinid == 10' = function(df) { | ||
| expect_equal(df$soma_joinid, 10) | ||
| expect_equal(df$int32, -310) | ||
| expect_equal(as.character(df$enum), c("green")) | ||
| }, | ||
| 'soma_joinid > 4 && soma_joinid < 8' = function(df) { | ||
| expect_equal(df$soma_joinid, 5:7) | ||
| expect_equal(df$string, c("egg", "fig", "goose")) | ||
| expect_equal(df$large_utf8, c("EGG", "FIG", "GOOSE")) | ||
| }, | ||
| 'soma_joinid < 4 || soma_joinid > 8' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1:3, 9:10)) | ||
| }, | ||
|
|
||
| 'int8 == 8' = function(df) { | ||
| expect_equal(length(df$soma_joinid), 0) | ||
| }, | ||
| 'int8 == -12' = function(df) { | ||
| expect_equal(df$soma_joinid, c(2)) | ||
| }, | ||
| 'int16 > -203' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2)) | ||
| }, | ||
| 'uint16 < 204' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 3)) | ||
| }, | ||
| 'int32 > -303' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2)) | ||
| }, | ||
| 'uint32 < 304' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 3)) | ||
| }, | ||
| 'int64 > -403' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2)) | ||
| }, | ||
| 'uint64 < 404' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 3)) | ||
| }, | ||
|
|
||
| 'float32 < 4.5' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 3)) | ||
| }, | ||
| 'float64 < 14.5' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 3)) | ||
| }, | ||
|
|
||
| 'string == "dog"' = function(df) { | ||
| expect_equal(df$soma_joinid, c(4)) | ||
| }, | ||
| 'string %in% c("fig", "dog")' = function(df) { | ||
| expect_equal(df$soma_joinid, c(4, 6)) | ||
| }, | ||
| 'string %nin% c("fig", "dog")' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 3, 5, 7, 8, 9, 10)) | ||
| }, | ||
|
|
||
| 'enum == "red"' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 4, 5, 6, 9)) | ||
| }, | ||
| 'enum != "red"' = function(df) { | ||
| expect_equal(df$soma_joinid, c(2, 3, 7, 8, 10)) | ||
| }, | ||
| 'enum == "orange"' = function(df) { | ||
| expect_equal(length(df$soma_joinid), 0) | ||
| }, | ||
| 'enum != "orange"' = function(df) { | ||
| expect_equal(df$soma_joinid, 1:10) | ||
| }, | ||
| 'enum %in% c("red", "green")' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 3, 4, 5, 6, 8, 9, 10)) | ||
| }, | ||
| 'enum %nin% c("red", "green")' = function(df) { | ||
| expect_equal(df$soma_joinid, c(2, 7)) | ||
| }, | ||
| 'enum %in% c("orange", "green")' = function(df) { | ||
| expect_equal(df$soma_joinid, c(3, 8, 10)) | ||
| }, | ||
| 'enum %nin% c("orange", "green")' = function(df) { | ||
| expect_equal(df$soma_joinid, c(1, 2, 4, 5, 6, 7, 9)) | ||
| }, | ||
| 'enum %in% c("orange", "purple")' = function(df) { | ||
| expect_equal(length(df$soma_joinid), 0) | ||
| }, | ||
| 'enum %nin% c("orange", "purple")' = function(df) { | ||
| expect_equal(df$soma_joinid, 1:10) | ||
| } | ||
|
|
||
| # TODO: for a follow-up PR | ||
| # 'timestamp_s < "1969-12-31 20:01:04 EST"' = function(df) { | ||
| # expect_equal(df$soma_joinid, 1:3) | ||
| # }, | ||
| # 'timestamp_ms != "1970-02-11 11:00:05 EST"' = function(df) { | ||
| # expect_equal(df$soma_joinid, 1:10) | ||
| # }, | ||
| # 'timestamp_us > "1970-01-01 00:00:01 GMT"' = function(df) { | ||
| # expect_equal(df$soma_joinid, 1:10) | ||
| # }, | ||
| # 'timestamp_ns > "1970-01-01 00:00:01 GMT"' = function(df) { | ||
| # expect_equal(df$soma_joinid, 1:10) | ||
| # } | ||
| ) | ||
|
|
||
| for (query_string in names(good_cases)) { | ||
| parsed <- do.call( | ||
| what = tiledbsoma:::parse_query_condition_new, | ||
| args = list(expr=str2lang(query_string), schema=sch, somactx=ctx)) | ||
| clib_value_filter <- parsed@ptr | ||
|
|
||
| sr <- sr_setup(uri = sdf$uri, ctx, qc=clib_value_filter) | ||
| iter <- TableReadIter$new(sr) | ||
| tbl <- iter$read_next() | ||
| expect_true(iter$read_complete()) | ||
| df <- as.data.frame(tbl) | ||
| # Call the validator | ||
| good_cases[[query_string]](df) | ||
| } | ||
|
|
||
| bad_cases <- list( | ||
| '', | ||
| ' ', | ||
| 'nonesuch < 10', | ||
| 'soma_joinid << 10', | ||
| 'soma_joinid', | ||
| 'soma_joinid < 4 or soma_joinid > 8' | ||
| ) | ||
|
|
||
| for (query_string in names(bad_cases)) { | ||
| expect_error( | ||
| do.call( | ||
| what = tiledbsoma:::parse_query_condition_new, | ||
| args = list(expr=str2lang(query_string), schema=sch, somactx=ctx))) | ||
| } | ||
|
|
||
| sdf$close() | ||
| }) |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters