Last updated on 2024-06-22 21:47:19 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.15.3 | 176.19 | 437.61 | 613.80 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.15.3 | 178.87 | 0.01 | 178.88 | FAIL | |
| r-devel-linux-x86_64-fedora-clang | 0.15.3 | 827.58 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 0.15.3 | 1098.89 | ERROR | |||
| r-devel-windows-x86_64 | 0.15.3 | 144.00 | 457.00 | 601.00 | ERROR | |
| r-patched-linux-x86_64 | 0.15.3 | 210.84 | 0.02 | 210.86 | FAIL | |
| r-release-linux-x86_64 | 0.15.2 | 227.96 | 0.02 | 227.98 | FAIL | |
| r-release-macos-arm64 | 0.15.3 | 208.00 | NOTE | |||
| r-release-macos-x86_64 | 0.15.3 | 685.00 | NOTE | |||
| r-release-windows-x86_64 | 0.15.3 | 140.00 | 462.00 | 602.00 | NOTE | |
| r-oldrel-macos-arm64 | 0.15.3 | 253.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 0.15.3 | 533.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 0.15.3 | 189.00 | 592.00 | 781.00 | NOTE |
Version: 0.15.3
Check: tests
Result: FAIL
Flavors: r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64
Version: 0.15.3
Check: tests
Result: ERROR
Running ‘coef.R’
Running ‘confint.R’ [52s/67s]
Running ‘datetime.R’
Running ‘egf.R’
Running ‘egf_enum.R’
Running ‘egf_eval.R’
Running ‘egf_examples_day_of_week.R’
Running ‘egf_examples_excess.R’
Running ‘egf_examples_fixed.R’
Running ‘egf_examples_random.R’ [109s/63s]
Running ‘egf_link.R’
Running ‘egf_misc.R’
Running ‘egf_options.R’
Running ‘egf_utils.R’
Running ‘epidemic.R’
Running ‘extract.R’
Running ‘fitted.R’
Running ‘gi.R’
Running ‘include.R’ [277s/280s]
Running ‘language.R’
Running ‘prior.R’
Running ‘profile.R’ [32s/48s]
Running ‘summary.R’
Running ‘utils.R’
Running ‘validity.R’
Running ‘zzz.R’
Running the tests in ‘tests/include.R’ failed.
Complete output:
> library(epigrowthfit)
> options(warn = 2L, error = if (interactive()) recover)
>
> src <- "src"
> src. <- system.file("tests", src, package = "epigrowthfit", mustWork = TRUE)
> file.copy(c(src, src.), tempdir(), recursive = TRUE)
[1] TRUE TRUE
> setwd(file.path(tempdir(), src))
> Sys.setenv(R_TESTS = "") # startup.Rs does not exist here
>
> dll <- "test"
> cpp <- paste0(dll, ".cpp")
> TMB::compile(cpp)
using C++ compiler: 'g++-14 (GCC) 14.1.0'
make[1]: Entering directory '/tmp/RtmpKXwzT4/working_dir/Rtmp3BwRX0/src'
g++-14 -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I"/data/gannet/ripley/R/test-dev/TMB/include" -I"/data/gannet/ripley/R/test-dev/RcppEigen/include" -DTMB_SAFEBOUNDS -DTMB_EIGEN_DISABLE_WARNINGS -DLIB_UNLOAD=R_unload_test -DTMB_LIB_INIT=R_init_test -DCPPAD_FRAMEWORK -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c test.cpp -o test.o
In file included from /data/gannet/ripley/R/test-dev/TMB/include/TMB.hpp:201,
from test.cpp:1:
/data/gannet/ripley/R/test-dev/TMB/include/expm.hpp:221:22: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
221 | nestedTriangle<0>(){}
| ^
/data/gannet/ripley/R/test-dev/TMB/include/expm.hpp:221:22: note: remove the '< >'
/data/gannet/ripley/R/test-dev/TMB/include/expm.hpp:222:23: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
222 | nestedTriangle<0>(Base x) : Base(x){}
| ^~~~
/data/gannet/ripley/R/test-dev/TMB/include/expm.hpp:222:23: note: remove the '< >'
/data/gannet/ripley/R/test-dev/TMB/include/expm.hpp:223:23: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
223 | nestedTriangle<0>(vector<matrix<double> > args) : Block<double>(args[0]) {}
| ^~~~~~~~~~~~~~~~~~~~~~~
/data/gannet/ripley/R/test-dev/TMB/include/expm.hpp:223:23: note: remove the '< >'
g++-14 -std=gnu++17 -shared -L/usr/local/gcc14/lib64 -L/usr/local/lib64 -o test.so test.o
make[1]: Leaving directory '/tmp/RtmpKXwzT4/working_dir/Rtmp3BwRX0/src'
make[1]: Entering directory '/tmp/RtmpKXwzT4/working_dir/Rtmp3BwRX0/src'
make[1]: Leaving directory '/tmp/RtmpKXwzT4/working_dir/Rtmp3BwRX0/src'
[1] 0
> dyn.load(paste0(dll, .Platform[["dynlib.ext"]]))
>
> getReport <- local({
+ tt <- readLines(cpp)
+ tt <- paste(tt, collapse = "\n")
+ tt <- chartr("\t\r\n", " ", tt)
+ tt <- sub("^.*?enum +test *\\{(.*?)\\} *;.*$", "\\1", tt)
+ tt <- gsub(" ", "", tt)
+ enum. <- strsplit(tt, ",")[[1L]]
+
+ function(enum, ...)
+ TMB::MakeADFun(data = list(flag = match(enum, enum., 0L) - 1L, ...),
+ parameters = list(),
+ type = "Fun",
+ checkParameterOrder = FALSE,
+ DLL = dll)[["report"]]()[["ans"]]
+ })
>
> mvlgamma <- function(x, p)
+ 0.25 * p * (p - 1) * log(pi) + rowSums(lgamma(outer(x, seq.int(0, by = 0.5, length.out = p), `-`)))
>
> dlkj <- function(x, eta, log = FALSE) {
+ n <- 0.5 * (1 + sqrt(1 + 8 * length(x)))
+ R <- diag(n)
+ R[upper.tri(R)] <- x
+ log.ans <- (eta - 1) * (-sum(log(colSums(R * R))))
+ if (log) log.ans else exp(log.ans)
+ }
>
> dwishart <- function(x, df, scale, log = FALSE) {
+ n <- 0.5 * (-1 + sqrt(1 + 8 * length(x)))
+ X <- theta2cov(x)
+ S <- theta2cov(scale)
+ log.ans <- -0.5 * (df * log(det(S)) + (-df + n + 1) * log(det(X)) + n * df * log(2) + 2 * mvlgamma(0.5 * df, n) + sum(diag(solve(S, X))))
+ if (log) log.ans else exp(log.ans)
+ }
>
> dinvwishart <- function(x, df, scale, log = FALSE) {
+ n <- 0.5 * (-1 + sqrt(1 + 8 * length(x)))
+ X <- theta2cov(x)
+ S <- theta2cov(scale)
+ log.ans <- -0.5 * (-df * log(det(S)) + (df + n + 1) * log(det(X)) + n * df * log(2) + 2 * mvlgamma(0.5 * df, n) + sum(diag(solve(X, S))))
+ if (log) log.ans else exp(log.ans)
+ }
>
>
> ## list_of_vectors_t
> x <- list(rnorm(10L), seq_len(5L), TRUE, double(0L))
> ans <- getReport("list_of_vectors_t", x = x)
Error in isNullPointer(ADFun$ptr) :
R_ExternalPtrAddr: argument of type NILSXP is not an external pointer
Calls: getReport -> <Anonymous> -> f -> isNullPointer
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 0.15.3
Check: installed package size
Result: NOTE
installed size is 14.2Mb
sub-directories of 1Mb or more:
libs 13.6Mb
Flavors: r-devel-windows-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64
Version: 0.15.3
Check: tests
Result: ERROR
Running 'coef.R' [5s]
Running 'confint.R' [54s]
Running 'datetime.R' [2s]
Running 'egf.R' [5s]
Running 'egf_enum.R' [2s]
Running 'egf_eval.R' [1s]
Running 'egf_examples_day_of_week.R' [2s]
Running 'egf_examples_excess.R' [2s]
Running 'egf_examples_fixed.R' [2s]
Running 'egf_examples_random.R' [61s]
Running 'egf_link.R' [2s]
Running 'egf_misc.R' [6s]
Running 'egf_options.R' [2s]
Running 'egf_utils.R' [6s]
Running 'epidemic.R' [2s]
Running 'extract.R' [5s]
Running 'fitted.R' [5s]
Running 'gi.R' [2s]
Running 'include.R' [90s]
Running 'language.R' [2s]
Running 'prior.R' [1s]
Running 'profile.R' [37s]
Running 'summary.R' [5s]
Running 'utils.R' [2s]
Running 'validity.R' [2s]
Running 'zzz.R' [2s]
Running the tests in 'tests/include.R' failed.
Complete output:
> library(epigrowthfit)
> options(warn = 2L, error = if (interactive()) recover)
>
> src <- "src"
> src. <- system.file("tests", src, package = "epigrowthfit", mustWork = TRUE)
> file.copy(c(src, src.), tempdir(), recursive = TRUE)
[1] TRUE TRUE
> setwd(file.path(tempdir(), src))
> Sys.setenv(R_TESTS = "") # startup.Rs does not exist here
>
> dll <- "test"
> cpp <- paste0(dll, ".cpp")
> TMB::compile(cpp)
using C++ compiler: 'g++.exe (GCC) 13.2.0'
make[1]: Entering directory '/d/temp/RtmpyksXFk/src'
g++ -std=gnu++17 -I"D:/RCompile/recent/R/include" -DNDEBUG -I"D:/RCompile/CRANpkg/lib/4.5/TMB/include" -I"D:/temp/RtmpUHo2wT/RLIBS_2587452e2bcd/RcppEigen/include" -DTMB_SAFEBOUNDS -DTMB_EIGEN_DISABLE_WARNINGS -DLIB_UNLOAD=R_unload_test -DTMB_LIB_INIT=R_init_test -DCPPAD_FRAMEWORK -I"d:/rtools44/x86_64-w64-mingw32.static.posix/include" -pedantic -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c test.cpp -o test.o
g++ -std=gnu++17 -shared -s -static-libgcc -o test.dll tmp.def test.o -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -Ld:/rtools44/x86_64-w64-mingw32.static.posix/lib -LD:/RCompile/recent/R/bin/x64 -lR
make[1]: Leaving directory '/d/temp/RtmpyksXFk/src'
make[1]: Entering directory '/d/temp/RtmpyksXFk/src'
make[1]: Leaving directory '/d/temp/RtmpyksXFk/src'
[1] 0
> dyn.load(paste0(dll, .Platform[["dynlib.ext"]]))
>
> getReport <- local({
+ tt <- readLines(cpp)
+ tt <- paste(tt, collapse = "\n")
+ tt <- chartr("\t\r\n", " ", tt)
+ tt <- sub("^.*?enum +test *\\{(.*?)\\} *;.*$", "\\1", tt)
+ tt <- gsub(" ", "", tt)
+ enum. <- strsplit(tt, ",")[[1L]]
+
+ function(enum, ...)
+ TMB::MakeADFun(data = list(flag = match(enum, enum., 0L) - 1L, ...),
+ parameters = list(),
+ type = "Fun",
+ checkParameterOrder = FALSE,
+ DLL = dll)[["report"]]()[["ans"]]
+ })
>
> mvlgamma <- function(x, p)
+ 0.25 * p * (p - 1) * log(pi) + rowSums(lgamma(outer(x, seq.int(0, by = 0.5, length.out = p), `-`)))
>
> dlkj <- function(x, eta, log = FALSE) {
+ n <- 0.5 * (1 + sqrt(1 + 8 * length(x)))
+ R <- diag(n)
+ R[upper.tri(R)] <- x
+ log.ans <- (eta - 1) * (-sum(log(colSums(R * R))))
+ if (log) log.ans else exp(log.ans)
+ }
>
> dwishart <- function(x, df, scale, log = FALSE) {
+ n <- 0.5 * (-1 + sqrt(1 + 8 * length(x)))
+ X <- theta2cov(x)
+ S <- theta2cov(scale)
+ log.ans <- -0.5 * (df * log(det(S)) + (-df + n + 1) * log(det(X)) + n * df * log(2) + 2 * mvlgamma(0.5 * df, n) + sum(diag(solve(S, X))))
+ if (log) log.ans else exp(log.ans)
+ }
>
> dinvwishart <- function(x, df, scale, log = FALSE) {
+ n <- 0.5 * (-1 + sqrt(1 + 8 * length(x)))
+ X <- theta2cov(x)
+ S <- theta2cov(scale)
+ log.ans <- -0.5 * (-df * log(det(S)) + (df + n + 1) * log(det(X)) + n * df * log(2) + 2 * mvlgamma(0.5 * df, n) + sum(diag(solve(X, S))))
+ if (log) log.ans else exp(log.ans)
+ }
>
>
> ## list_of_vectors_t
> x <- list(rnorm(10L), seq_len(5L), TRUE, double(0L))
> ans <- getReport("list_of_vectors_t", x = x)
Error in isNullPointer(ADFun$ptr) :
R_ExternalPtrAddr: argument of type NILSXP is not an external pointer
Calls: getReport -> <Anonymous> -> f -> isNullPointer
Execution halted
Flavor: r-devel-windows-x86_64
Version: 0.15.2
Check: tests
Result: FAIL
Flavor: r-release-linux-x86_64
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