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Investigate weak performance
For duckdb, it seems that going through a RecordBatchReader is slower than through data frames. Further investigation is needed.
I've tested various scenarios for 10k rows of flights data: streaming, reading as data frame, writing to parquet files.
adbc + duckdb
Stream
library(adbc)
library(duckdb)
#> Loading required package: DBI
library(dbplyr)
library(conflicted)
con <- dbConnect(
adbc(asNamespace("duckdb")$.__NAMESPACE__.$DLLs$duckdb[["path"]], "duckdb_adbc_init")
)
# dbWriteTable() doesn't work yet
flights <- copy_inline(con, nycflights13::flights[1:10000, ])
sql <- flights %>% sql_render()
system.time(dbExecute(con, paste0("CREATE TABLE flights AS ", sql)))
#> user system elapsed
#> 3.438 0.036 3.450
bench::mark(
as.data.frame(dbStreamTable(con, "flights"))[10000:1, ]
)
#> # A tibble: 1 × 6
#> expression min median itr/s…¹
#> <bch:expr> <bch:t> <bch:> <dbl>
#> 1 as.data.frame(dbStreamTable(con, "flights"))[10000:1, ] 32.3ms 32.9ms 30.2
#> # … with 2 more variables: mem_alloc <bch:byt>, `gc/sec` <dbl>, and abbreviated
#> # variable name ¹`itr/sec`Created on 2022-10-23 with reprex v2.0.2
Read
library(adbc)
library(duckdb)
#> Loading required package: DBI
library(dbplyr)
library(conflicted)
con <- dbConnect(
adbc(asNamespace("duckdb")$.__NAMESPACE__.$DLLs$duckdb[["path"]], "duckdb_adbc_init")
)
# dbWriteTable() doesn't work yet
flights <- copy_inline(con, nycflights13::flights[1:10000, ])
sql <- flights %>% sql_render()
system.time(dbExecute(con, paste0("CREATE TABLE flights AS ", sql)))
#> user system elapsed
#> 3.395 0.035 3.438
bench::mark(
dbReadTable(con, "flights")[10000:1, ]
)
#> # A tibble: 1 × 6
#> expression min median itr/s…¹ mem_a…² gc/se…³
#> <bch:expr> <bch:tm> <bch:> <dbl> <bch:b> <dbl>
#> 1 dbReadTable(con, "flights")[10000:1, ] 29.2ms 30.4ms 32.6 19.5MB 4.34
#> # … with abbreviated variable names ¹`itr/sec`, ²mem_alloc, ³`gc/sec`Created on 2022-10-23 with reprex v2.0.2
Parquet
library(adbc)
library(duckdb)
#> Loading required package: DBI
library(dbplyr)
library(arrow)
#> Some features are not enabled in this build of Arrow. Run `arrow_info()` for more information.
#>
#> Attaching package: 'arrow'
#> The following object is masked from 'package:utils':
#>
#> timestamp
library(conflicted)
con <- dbConnect(
adbc(asNamespace("duckdb")$.__NAMESPACE__.$DLLs$duckdb[["path"]], "duckdb_adbc_init")
)
# dbWriteTable() doesn't work yet
flights <- copy_inline(con, nycflights13::flights[1:10000, ])
sql <- flights %>% sql_render()
system.time(dbExecute(con, paste0("CREATE TABLE flights AS ", sql)))
#> user system elapsed
#> 3.407 0.034 3.451
bench::mark(
write_dataset(dbStreamTable(con, "flights"), "f.p")
)
#> # A tibble: 1 × 6
#> expression min median itr/se…¹
#> <bch:expr> <bch:tm> <bch:tm> <dbl>
#> 1 write_dataset(dbStreamTable(con, "flights"), "f.p") 35.8ms 36.9ms 26.9
#> # … with 2 more variables: mem_alloc <bch:byt>, `gc/sec` <dbl>, and abbreviated
#> # variable name ¹`itr/sec`Created on 2022-10-23 with reprex v2.0.2
duckdb + DBI classic
Stream
library(adbc)
library(duckdb)
#> Loading required package: DBI
library(dbplyr)
library(conflicted)
con <- dbConnect(
duckdb::duckdb()
)
# dbWriteTable() doesn't work yet
flights <- copy_inline(con, nycflights13::flights[1:10000, ])
sql <- flights %>% sql_render()
system.time(dbExecute(con, paste0("CREATE TABLE flights AS ", sql)))
#> user system elapsed
#> 3.660 0.038 3.685
bench::mark(
as.data.frame(dbStreamTable(con, "flights"))[10000:1, ]
)
#> # A tibble: 1 × 6
#> expression min median itr/s…¹
#> <bch:expr> <bch:t> <bch:> <dbl>
#> 1 as.data.frame(dbStreamTable(con, "flights"))[10000:1, ] 22.2ms 23ms 43.7
#> # … with 2 more variables: mem_alloc <bch:byt>, `gc/sec` <dbl>, and abbreviated
#> # variable name ¹`itr/sec`Created on 2022-10-23 with reprex v2.0.2
Read
library(adbc)
library(duckdb)
#> Loading required package: DBI
library(dbplyr)
library(conflicted)
con <- dbConnect(
duckdb::duckdb()
)
# dbWriteTable() doesn't work yet
flights <- copy_inline(con, nycflights13::flights[1:10000, ])
sql <- flights %>% sql_render()
system.time(dbExecute(con, paste0("CREATE TABLE flights AS ", sql)))
#> user system elapsed
#> 3.665 0.034 3.673
bench::mark(
dbReadTable(con, "flights")[10000:1, ]
)
#> # A tibble: 1 × 6
#> expression min median itr/s…¹ mem_a…² gc/se…³
#> <bch:expr> <bch:tm> <bch:> <dbl> <bch:b> <dbl>
#> 1 dbReadTable(con, "flights")[10000:1, ] 12.8ms 13.1ms 75.5 2.3MB 0
#> # … with abbreviated variable names ¹`itr/sec`, ²mem_alloc, ³`gc/sec`Created on 2022-10-23 with reprex v2.0.2
Parquet
library(adbc)
library(duckdb)
#> Loading required package: DBI
library(dbplyr)
library(arrow)
#> Some features are not enabled in this build of Arrow. Run `arrow_info()` for more information.
#>
#> Attaching package: 'arrow'
#> The following object is masked from 'package:utils':
#>
#> timestamp
library(conflicted)
con <- dbConnect(
duckdb::duckdb()
)
# dbWriteTable() doesn't work yet
flights <- copy_inline(con, nycflights13::flights[1:10000, ])
sql <- flights %>% sql_render()
system.time(dbExecute(con, paste0("CREATE TABLE flights AS ", sql)))
#> user system elapsed
#> 3.629 0.034 3.663
bench::mark(
write_dataset(dbStreamTable(con, "flights"), "f.p")
)
#> # A tibble: 1 × 6
#> expression min median itr/se…¹
#> <bch:expr> <bch:tm> <bch:tm> <dbl>
#> 1 write_dataset(dbStreamTable(con, "flights"), "f.p") 26.1ms 26.7ms 37.2
#> # … with 2 more variables: mem_alloc <bch:byt>, `gc/sec` <dbl>, and abbreviated
#> # variable name ¹`itr/sec`Created on 2022-10-23 with reprex v2.0.2
Fix GitHub Actions
Need to install special adbc-18 branch of duckdb. Solution:
- create fork for adbc branch in r-dbi organization
- register with R-universe
- install from there
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