R Under development (unstable) (2023-12-09 r85665 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library("matrixStats")
> options(warn = 1)
> 
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> # Consistency checks
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> set.seed(1)
> 
> sum2_R <- function(x, na.rm = FALSE, idxs = NULL) {
+   if (is.null(idxs)) {
+     sum(x, na.rm = na.rm)
+   } else {
+     sum(x[idxs], na.rm = na.rm)
+   }
+ } # sum2_R()
> 
> 
> cat("Consistency checks:\n")
Consistency checks:
> for (kk in 1:20) {
+   cat("Random test #", kk, "\n", sep = "")
+ 
+   # Simulate data in a matrix of any shape
+   n <- sample(1e3, size = 1L)
+   x <- rnorm(n, sd = 100)
+ 
+   # Add NAs?
+   if ((kk %% 4) %in% c(3, 0)) {
+     cat("Adding NAs\n")
+     nna <- sample(n, size = 1L)
+     na_values <- c(NA_real_, NaN)
+     t <- sample(na_values, size = nna, replace = TRUE)
+     x[sample(length(x), size = nna)] <- t
+   }
+ 
+   # Integer or double?
+   if ((kk %% 4) %in% c(2, 0)) {
+     cat("Coercing to integers\n")
+     storage.mode(x) <- "integer"
+   }
+ 
+   na.rm <- sample(c(TRUE, FALSE), size = 1L)
+ 
+   # Sum over all
+   y0 <- sum2_R(x, na.rm = na.rm)
+   y1 <- sum2(x, na.rm = na.rm)
+   stopifnot(all.equal(y1, y0))
+ 
+   # Sum over subset
+   nidxs <- sample(n, size = 1L)
+   idxs <- sample(n, size = nidxs)
+   y0 <- sum2_R(x, na.rm = na.rm, idxs = idxs)
+   y1 <- sum2(x, na.rm = na.rm, idxs = idxs)
+   stopifnot(all.equal(y1, y0))
+ 
+   if (storage.mode(x) == "integer") {
+     storage.mode(x) <- "logical"
+     
+     y0 <- sum2_R(x, na.rm = na.rm)
+     y1 <- sum2(x, na.rm = na.rm)
+     stopifnot(all.equal(y1, y0))
+     
+     y0 <- sum2_R(x, na.rm = na.rm, idxs = idxs)
+     y1 <- sum2(x, na.rm = na.rm, idxs = idxs)
+     stopifnot(all.equal(y1, y0))
+   }
+ } # for (kk ...)
Random test #1
Random test #2
Coercing to integers
Random test #3
Adding NAs
Random test #4
Adding NAs
Coercing to integers
Random test #5
Random test #6
Coercing to integers
Random test #7
Adding NAs
Random test #8
Adding NAs
Coercing to integers
Random test #9
Random test #10
Coercing to integers
Random test #11
Adding NAs
Random test #12
Adding NAs
Coercing to integers
Random test #13
Random test #14
Coercing to integers
Random test #15
Adding NAs
Random test #16
Adding NAs
Coercing to integers
Random test #17
Random test #18
Coercing to integers
Random test #19
Adding NAs
Random test #20
Adding NAs
Coercing to integers
> 
> 
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> # All missing values
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> for (n in 0:2) {
+   for (na.rm in c(FALSE, TRUE)) {
+     x <- rep(NA_real_, times = n)
+     y0 <- sum(x, na.rm = na.rm)
+     y <- sum2(x, na.rm = na.rm)
+     stopifnot(all.equal(y, y0))
+ 
+     x <- rep(NA_integer_, times = n)
+     y0 <- sum(x, na.rm = na.rm)
+     y <- sum2(x, na.rm = na.rm)
+     stopifnot(all.equal(y, y0))
+     
+     x <- rep(NA, times = n)
+     y0 <- sum(x, na.rm = na.rm)
+     y <- sum2(x, na.rm = na.rm)
+     stopifnot(all.equal(y, y0))
+   }
+ }
> 
> 
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> # Special cases
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> for (na.rm in c(FALSE, TRUE)) {
+   # Summing over zero elements (integers)
+   x <- integer(0)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(identical(s1, s2))
+ 
+   x <- 1:10
+   idxs <- integer(0)
+   s1 <- sum(x[idxs], na.rm = na.rm)
+   s2 <- sum2(x, idxs = idxs, na.rm = na.rm)
+   stopifnot(identical(s1, s2))
+ 
+   # Summing over NA_integer_:s
+   x <- rep(NA_integer_, times = 10L)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(identical(s1, s2))
+ 
+   x <- rep(NA_integer_, times = 10L)
+   idxs <- 1:5
+   s1 <- sum(x[idxs], na.rm = na.rm)
+   s2 <- sum2(x, idxs = idxs, na.rm = na.rm)
+   stopifnot(identical(s1, s2))
+ 
+ 
+   # Summing over zero elements (doubles)
+   x <- double(0)
+   s1 <- sum(x)
+   s2 <- sum2(x)
+   stopifnot(
+     identical(s1, 0),
+     identical(s1, s2)
+   )
+ 
+   x <- as.double(1:10)
+   idxs <- integer(0)
+   s1 <- sum(x[idxs])
+   s2 <- sum2(x, idxs = idxs)
+   stopifnot(
+     identical(s1, 0),
+     identical(s1, s2)
+   )
+ 
+   # Summing over NA_real_:s
+   x <- rep(NA_real_, times = 10L)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(
+     !na.rm || s1 == 0,
+     identical(s1, s2)
+   )
+ 
+   x <- rep(NA_real_, times = 10L)
+   idxs <- 1:5
+   s1 <- sum(x[idxs], na.rm = na.rm)
+   s2 <- sum2(x, idxs = idxs, na.rm = na.rm)
+   stopifnot(
+     !na.rm || s1 == 0,
+     identical(s1, s2)
+   )
+ 
+   # Summing over -Inf:s
+   x <- rep(-Inf, times = 3L)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(
+     is.infinite(s1) && s1 < 0,
+     identical(s1, s2)
+   )
+ 
+   # Summing over +Inf:s
+   x <- rep(+Inf, times = 3L)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(identical(s1, s2))
+   stopifnot(
+     is.infinite(s1) && s1 > 0,
+     identical(s1, s2)
+   )
+ 
+   # Summing over mix of -Inf:s and +Inf:s
+   x <- rep(c(-Inf, +Inf), times = 3L)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(
+     is.nan(s1),
+     identical(s1, s2)
+   )
+ 
+   # Summing over mix of -Inf:s and +Inf:s and numerics
+   x <- rep(c(-Inf, +Inf, 3.14), times = 2L)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   stopifnot(
+     is.nan(s1),
+     identical(s1, s2)
+   )
+ 
+   # Summing over mix of NaN, NA, +Inf, and numerics
+   x <- c(NaN, NA, +Inf, 3.14)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   if (na.rm) {
+     stopifnot(
+       is.infinite(s1) && s1 > 0,
+       identical(s2, s1)
+     )
+   } else {
+     stopifnot(is.na(s1), is.na(s2))
+     ## NOTE, due to compiler optimization, it is not guaranteed that NA is
+     ## returned here (as one would expect). NaN might very well be returned,
+     ## when both NA and NaN are involved.  This is an accepted feature in R,
+     ## which is documented in help("is.nan").  See also
+     ## https://stat.ethz.ch/pipermail/r-devel/2017-April/074009.html.
+     ## Thus, we cannot guarantee that s1 is identical to s0.
+   }
+ 
+   # Summing over mix of NaN, NA, +Inf, and numerics
+   x <- c(NA, NaN, +Inf, 3.14)
+   s1 <- sum(x, na.rm = na.rm)
+   s2 <- sum2(x, na.rm = na.rm)
+   if (na.rm) {
+     stopifnot(
+       is.infinite(s1) && s1 > 0,
+       identical(s2, s1)
+     )
+   } else {
+     stopifnot(is.na(s1), is.na(s2))
+     ## NOTE, due to compiler optimization, it is not guaranteed that NA is
+     ## returned here (as one would expect). NaN might very well be returned,
+     ## when both NA and NaN are involved.  This is an accepted feature in R,
+     ## which is documented in help("is.nan").  See also
+     ## https://stat.ethz.ch/pipermail/r-devel/2017-April/074009.html.
+     ## Thus, we cannot guarantee that s1 is identical to s0.
+   }
+ }
> 
> 
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> # Summing of large integers
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> x <- c(.Machine$integer.max, 1L, -.Machine$integer.max)
> 
> # Total gives integer overflow
> s1 <- sum(x[1:2])                        # NA_integer_ w/ warning
> s2 <- sum2(x[1:2])                       # NA_integer_ w/ warning
Warning in sum2(x[1:2]) :
  Integer overflow. Use sum2(..., mode = "double") to avoid this.
> stopifnot(
+   getRversion() >= "3.5.0" || identical(s1, NA_integer_),
+   identical(s2, NA_integer_)
+ )
> 
> ## Assert above warning
> res <- tryCatch({
+   s2 <- sum2(x[1:2])
+ }, warning = identity)
> stopifnot(inherits(res, "warning"))
> 
> 
> # Total gives integer overflow (coerce to numeric)
> s1 <- sum(as.numeric(x[1:2]))            # 2147483648
> s2 <- sum2(as.numeric(x[1:2]))           # 2147483648
> s3 <- sum2(x[1:2], mode = "double")      # 2147483648
> stopifnot(
+   identical(s1, 2147483648),
+   identical(s1, s2),
+   identical(s1, s3)
+ )
> 
> # Cumulative sum would give integer overflow but not the total
> s1 <- sum(x)                              # 1L
> s2 <- sum2(x)                             # 1L
> stopifnot(
+   identical(s1, 1L),
+   identical(s1, s2)
+ )
> 
> # Input is double but coersing result to integer
> x <- c(1, 2, 3.1)
> s1 <- sum2(x)
> s2 <- sum2(x, mode = "integer")
Warning in sum2(x, mode = "integer") :
  sum2(x, mode = "integer") called with typeof(x) == "double"; did you mean to use as.integer(sum2(x))?
> stopifnot(
+   identical(as.integer(s1), s2)
+ )
> 
> ## Assert above warning
> res <- tryCatch({
+   s2 <- sum2(x, mode = "integer")
+ }, warning = identity)
> stopifnot(inherits(res, "warning"))
> 
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> # Summing of large doubles
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> ## Double overflow
> x <- rep(.Machine$double.xmax, times = 2L)
> y0 <- sum(x)
> print(y0)
[1] Inf
> y <- sum2(x)
> print(y)
[1] Inf
> stopifnot(
+   is.infinite(y) && y > 0,
+   identical(y, y0)
+ )
> 
> x <- rep(-.Machine$double.xmax, times = 2L)
> y0 <- sum(x)
> print(y0)
[1] -Inf
> y <- sum2(x)
> print(y)
[1] -Inf
> stopifnot(
+   is.infinite(y) && y < 0,
+   identical(y, y0)
+ )
> 
> 
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> # Argument 'idxs'
> # - - - - - - - - - - - - - - - - - - - - - - - - - - - -
> x <- 1:10
> idxs_list <- list(
+   integer = 1:5,
+   double = as.double(1:5),
+   logical = (x <= 5)
+ )
> 
> for (idxs in idxs_list) {
+   cat("idxs:\n")
+   str(idxs)
+   s1 <- sum(x[idxs], na.rm = TRUE)
+   s2 <- sum2(x, idxs = idxs, na.rm = TRUE)
+   stopifnot(identical(s1, s2))
+ }
idxs:
 int [1:5] 1 2 3 4 5
idxs:
 num [1:5] 1 2 3 4 5
idxs:
 logi [1:10] TRUE TRUE TRUE TRUE TRUE FALSE ...
> 
> proc.time()
   user  system elapsed 
   0.29    0.03    0.31