downloading reverse dependencies ... downloading babelmixr2_0.1.2.tar.gz ... ok downloading nlmixr2_2.1.2.tar.gz ... ok downloading nlmixr2extra_2.0.10.tar.gz ... ok downloading nlmixr2lib_0.2.0.tar.gz ... ok downloading nlmixr2plot_2.0.9.tar.gz ... ok downloading xpose.nlmixr2_0.4.0.tar.gz ... ok installing dependencies ‘lixoftConnectors’, ‘lotri’, ‘n1qn1’, ‘nlmixr2’, ‘nlmixr2est’, ‘nlmixr2extra’, ‘nlmixr2plot’, ‘nonmem2rx’, ‘PKNCA’, ‘rxode2’, ‘vpc’, ‘xgxr’, ‘xpose’ Warning: package ‘lixoftConnectors’ is not available for this version of R A version of this package for your version of R might be available elsewhere, see the ideas at https://cran.r-project.org/doc/manuals/r-devel/R-admin.html#Installing-packages also installing the dependency ‘cpp11armadillo’ begin installing package ‘cpp11armadillo’ begin installing package ‘xgxr’ begin installing package ‘n1qn1’ begin installing package ‘PKNCA’ begin installing package ‘vpc’ * installing *source* package ‘cpp11armadillo’ ... ** package ‘cpp11armadillo’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (cpp11armadillo) begin installing package ‘lotri’ * installing *source* package ‘vpc’ ... ** package ‘vpc’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (vpc) begin installing package ‘xpose’ * installing *source* package ‘xgxr’ ... ** package ‘xgxr’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xgxr) * installing *source* package ‘PKNCA’ ... ** package ‘PKNCA’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (PKNCA) * installing *source* package ‘n1qn1’ ... ** package ‘n1qn1’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpnYGov6/R.INSTALL3f7acc78c106a/n1qn1/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ajour.c -o ajour.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c calmaj.c -o calmaj.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c n1qn1_all.c -o n1qn1_all.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c proj.c -o proj.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c satur.c -o satur.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExpMod.cpp -o RcppExpMod.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o n1qn1.so ajour.o calmaj.o init.o n1qn1_all.o proj.o satur.o RcppExpMod.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpnYGov6/R.INSTALL3f7acc78c106a/n1qn1/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-n1qn1/00new/n1qn1/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (n1qn1) * installing *source* package ‘xpose’ ... ** package ‘xpose’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (xpose) * installing *source* package ‘lotri’ ... ** package ‘lotri’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpshgUER/R.INSTALL3f7b4425500bc3/lotri/src' gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c asLotriMat.c -o asLotriMat.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lotriBounds.c -o lotriBounds.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lotriLstToMat.c -o lotriLstToMat.o In file included from lotriLstToMat.c:1: In function ‘setStrElt’, inlined from ‘lotriLstToMatFillInMatrixBand’ at lotriLstToMat.h:97:4, inlined from ‘lotriLstToMatFillInFullMatrix’ at lotriLstToMat.h:131:5, inlined from ‘_lotriLstToMat’ at lotriLstToMat.c:178:3: matlist.h:123:5: warning: ‘colnames’ may be used uninitialized [-Wmaybe-uninitialized] 123 | SET_STRING_ELT(retN, curBand+j, STRING_ELT(colnames, j)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from matlist.h:186: lotriLstToMat.h: In function ‘_lotriLstToMat’: lotriLstToMat.h:108:25: note: ‘colnames’ was declared here 108 | SEXP sameS, dimnames, colnames, curFixed = R_NilValue; | ^~~~~~~~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lotriNest.c -o lotriNest.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lotriProp.c -o lotriProp.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c matlist.c -o matlist.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c nearPD.cpp -o nearPD.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/cpp11/include' -I'/home/hornik/tmp/CRAN_recheck/Library/cpp11armadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -fpic -g -O2 -Wall -pedantic -mtune=native -c rcm.cpp -o rcm.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o lotri.so asLotriMat.o lotriBounds.o lotriLstToMat.o lotriNest.o lotriProp.o matlist.o nearPD.o rcm.o -fopenmp -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpshgUER/R.INSTALL3f7b4425500bc3/lotri/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-lotri/00new/lotri/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (lotri) begin installing package ‘rxode2’ * installing *source* package ‘rxode2’ ... ** package ‘rxode2’ successfully unpacked and MD5 sums checked ** using staged installation R Under development (unstable) (2024-09-17 r87161) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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. R> ## This is only for rxode2 R> for (f in c("inst/include/rxode2_RcppExports.h", "src/RcppExports.cpp")) { + l <- readLines(f) + w <- which(regexpr("^[#]include ", l) != -1) + if (length(w) > 0) { + l <- l[-w] + } + w <- which(regexpr("^[#]define R_STRICT_HEADERS", l) != -1) + if (length(w) > 0) { + l <- l[-w] + } + l <- c("#define R_STRICT_HEADERS", + "#include ", + l) + file.out <- file(f, "wb") + writeLines(l, file.out) + close(file.out) + } R> R> l <- readLines("R/RcppExports.R") R> w <- which(regexpr("# Register entry points", l, fixed=TRUE) != -1) R> if (length(w) >= 1) { + w <- w[1] + l <- l[seq(1, w-1)] + RcppExports.R <- file("R/RcppExports.R", "wb") + writeLines(l, RcppExports.R) + close(RcppExports.R) + } R> R> .in <- suppressWarnings(readLines("src/Makevars.in")) R> .in <- gsub("@ARMA@", file.path(find.package("RcppArmadillo"),"include"), .in) R> .in <- gsub("@BH@", file.path(find.package("BH"),"include"), .in) R> .in <- gsub("@RCPP@", file.path(find.package("Rcpp"),"include"), .in) R> .in <- gsub("@EG@", file.path(find.package("RcppEigen"),"include"), .in) R> R> .in <- gsub("@SL@", paste(capture.output(StanHeaders:::LdFlags()), capture.output(RcppParallel:::RcppParallelLibs())), #nolint + .in) R> R> R> .badStan <- "" R> .in <- gsub("@SH@", gsub("-I", "-@ISYSTEM@", + paste(capture.output(StanHeaders:::CxxFlags()), # nolint + capture.output(RcppParallel:::CxxFlags()), # nolint + paste0("-@ISYSTEM@'", system.file('include', 'src', package = 'StanHeaders', mustWork = TRUE), "'"), + .badStan)), + .in) R> R> R> R> R> if (.Platform$OS.type == "windows" && !file.exists("src/Makevars.win")) { + .in <- gsub("@CXX14STD@", "-std=c++1y", .in) + file.out <- file("src/Makevars.win", "wb") + writeLines(gsub("@ISYSTEM@", "I", .in), + file.out) + close(file.out) + } else { + .in <- gsub("@CXX14STD@", "-std=gnu++14", .in) + file.out <- file("src/Makevars", "wb") + writeLines(gsub("@ISYSTEM@", "isystem", .in), + file.out) + close(file.out) + } R> R> if (file.exists("man/reexports.Rd")) { + l <- readLines("man/reexports.Rd") + if (!any(regexpr("[\\]value", l) != -1)) { + l <- c(l, "\\value{ Inherited from parent routine }") + file.out <- file("man/reexports.Rd", "wb") + writeLines(l, file.out) + close(file.out) + } + } R> R> R> unlink("R/rxode2_md5.R") R> R> cpp <- list.files("src", pattern = ".(c|h|cpp|f)$") R> include <- list.files("inst/include") R> #Rfiles <- list.files("R/", pattern = ".R") R> R> cmd <- file.path(R.home("bin"), "R") R> args <- c("CMD", "config") R> R> md5 <- digest::digest(c(lapply(c(paste0("src/", cpp), + paste0("inst/include/", include)#, + #paste0("R/", Rfiles) + ), digest::digest, file = TRUE), + ## vapply(c("BLAS_LIBS", "CC", "CFLAGS", "CPICFLAGS", + ## "CXX", "CXXFLAGS", "CXXPICFLAGS", + ## "CXX11", "CXX11STD", "CXX11FLAGS", "CXX11PICFLAGS", + ## "CXX14", "CXX14STD", "CXX14FLAGS", "CXX14PICFLAGS", + ## "CXX17", "CXX17STD", "CXX17FLAGS", "CXX17PICFLAGS", + ## "CXX20", "CXX20STD", "CXX20FLAGS", "CXX20PICFLAGS", + ## "FC", "FFLAGS", "FCFLAGS", "FPICFLAGS"), + ## function(cfg) { + ## rawToChar(sys::exec_internal(cmd, c(args, cfg))$stdout) + ## }, character(1) + ## ), + "" + )) R> unlink("R/rxode2_md5.R") R> md5file <- file("R/rxode2_md5.R", "wb") R> writeLines(sprintf("rxode2.md5 <- \"%s\"\n", md5), md5file) R> close(md5file) R> R> l <- readLines("DESCRIPTION") R> w <- which(regexpr("Version[:] *(.*)$", l) != -1) R> v <- gsub("Version[:] *(.*)$", "\\1", l[w]) R> R> unlink("inst/include/rxode2parseVer.h") R> ode.h <- file("inst/include/rxode2parseVer.h", "wb") R> writeLines(c(sprintf("#define __VER_md5__ \"%s\"", md5), + "#define __VER_repo__ \"https://github.com/nlmixr2/rxode2\"", + sprintf("#define __VER_ver__ \"%s\"", v)), + ode.h) R> close(ode.h) R> R> unlink("src/sbuf.c") R> l <- readLines("inst/include/sbuf.c") R> sbuf.c <- file("src/sbuf.c", "wb") R> writeLines(l, sbuf.c) R> close(sbuf.c) R> R> R> unlink("src/codegen2.h") R> l <- readLines("inst/include/rxode2_model_shared.c") R> R> l <- l[l != ""] R> l <- gsub(" *= *NULL;", "=NULL;", l) R> R> def <- l R> w <- which(regexpr("double _prod", def) != -1) - 1 R> def <- def[1:w] R> def <- gsub("=NULL", "", def) R> def <- gsub("[^ ]* *[*]?([^;]*);", "\\1", def) R> R> def <- unique(c(def, c("_sum", "_udf", "_sign", "_prod", "_max", "_min", "_transit4P", "_transit3P", "_assignFuns0", "_assignFuns", "_getRxSolve_", "_solveData", "_rxord", "__assignFuns2"))) R> R> w0 <- which(grepl("double +_prod", l))[1] R> r <- 1:(w0 - 1) R> l0 <- l[r] R> l <- l[-r] R> R> R> w1 <- which(regexpr("dynamic start", l) != -1) R> l1 <- l[1:w1] R> R> R> R> w2 <- which(regexpr("dynamic stop", l) != -1) R> l2 <- l[seq(w2, length(l))] R> R> w3 <- which(regexpr("assign start", l2) != -1) R> R> l3 <- l2[seq(w3, length(l2))] R> l2 <- l2[1:w3] R> R> w4 <- which(regexpr("assign stop", l3) != -1) R> l3 <- l3[seq(w4, length(l3))] R> R> dfP <- l[seq(w1+1, w2-1)] R> R> dfP <- dfP[regexpr("^ *$", dfP)==-1] R> df <- setNames(do.call("rbind",lapply(seq_along(dfP), + function(i) { + .r <- sub("^ *", "", dfP[[i]]) + .r <- sub("^([^ ]*) *= *[(]", "\\1,", .r) + .r <- sub("^([^ ]*) *[)] *R_GetCCallable *[(] *\"", "\\1,", .r, perl=TRUE) + .r <- sub("^([^ ]*) *\" *, *\"", "\\1,", .r, perl=TRUE) + .r <- sub("^([^ ]*)\" *[)] *; *", "\\1",.r, perl=TRUE) + data.frame(t(strsplit(.r, ",")[[1]]),stringsAsFactors = FALSE) + })), c("fun", "type", "package", "packageFun")) R> R> df$rxFun <- df$fun R> df$argMax <- df$argMin <- NA_integer_ R> df$threadSafe <- 1L R> df <- df[,c("rxFun", "fun", "type", "package", "packageFun", "argMin", "argMax", "threadSafe")] R> df$rxFun <- gsub("_llik", "llik", df$rxFun) R> R> def <- def[!(def %in% df$rxFun)] R> def <- def[!(def %in% df$fun)] R> R> .parseEnv <- new.env(parent=emptyenv()) R> source("R/parseFuns.R") R> R> df$argMin <- vapply(df$rxFun, function(f) { + .n <- .parseEnv$.parseNum[f] + if (is.na(.n)) return(NA_integer_) + .n <-setNames(.n, NULL) + as.integer(.n) + }, integer(1), USE.NAMES=TRUE) R> R> df$argMax <- df$argMin R> R> dfStr <- deparse(df) R> dfStr[1] <- paste(".parseEnv$.rxode2parseDf <- ", dfStr[1]) R> R> dfIni.R <- file("R/dfIni.R", "wb") R> writeLines(dfStr, + dfIni.R) R> close(dfIni.R) R> R> ## deparse1 came from R 4.0, use deparse2 R> deparse2 <- function(expr, collapse = " ", width.cutoff = 500L, ...) { + paste(deparse(expr, width.cutoff, ...), collapse = collapse) + } R> R> final <- c("#include ", + "#include ", + "unsigned long int __timeId=0;", + "void writeHeader(const char *md5, const char *extra) {", + paste0("sAppend(&sbOut, \"#define ", def, " _rx%s%s%ld\\n\", extra, md5, __timeId++);"), + "}", + "void writeBody0(void) {", + paste0("sAppendN(&sbOut, ", vapply(paste0(l0, "\n"), deparse2, character(1)), ", ", nchar(l0) + 1, ");"), + "}", + "void writeBody1(void) {", + paste0("sAppendN(&sbOut, ", vapply(paste0(l1, "\n"), deparse2, character(1)), ", ", nchar(l1) + 1, ");"), + "}", + "void writeBody2(void) {", + paste0("sAppendN(&sbOut, ", vapply(paste0(l2, "\n"), deparse2, character(1)), ", ", nchar(l2) + 1, ");"), + "}", + "void writeBody3(void) {", + paste0("sAppendN(&sbOut, ", vapply(paste0(l3, "\n"), deparse2, character(1)), ", ", nchar(l3) + 1, ");"), + "}", + "void writeFooter(void) {", + paste0("sAppendN(&sbOut, \"#undef ", def, "\\n\", ", nchar(def) + 8, ");"), + "}" + ) R> R> codegen2.h <- file("src/codegen2.h", "wb") R> writeLines(final, + codegen2.h) R> close(codegen2.h) R> > proc.time() user system elapsed 0.191 0.063 0.243 --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- BH=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include RCPP=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include EG=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include SH=-isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' CXX_STD = CXX17 ################################################################################ ## Package library flags. PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) -L'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/lib/' -Wl,-rpath,'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/lib/' -ltbb -ltbbmalloc # Release options PKG_CFLAGS = -D_isrxode2_ PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"$(BH)" -isystem"$(EG)" $(SH) -isystem"$(RCPP)" --------[end src/Makevars]-------- --------[begin R/RxODE_md5.R]-------- rxode2.md5 <- "92e9ff671b8c1ed5389b15f0a6250431" --------[end R/RxODE_md5.R]-------- ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using Fortran compiler: ‘GNU Fortran (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpOh5AZW/R.INSTALL3f7c83459e5749/rxode2/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT 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-I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c approx.c -o approx.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c boost.cpp -o boost.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c box.c -o box.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c call_dvode.c -o call_dvode.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c cbindThetaOmega.cpp -o cbindThetaOmega.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cfode.c -o cfode.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c cfode_static.c -o cfode_static.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c checkmate.cpp -o checkmate.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c checkmate_stub.c -o checkmate_stub.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c codegen.c -o codegen.o codegen.c: In function ‘codegen’: codegen.c:344:19: warning: unused variable ‘assignOne’ [-Wunused-variable] 344 | int assignOne = 0; | ^~~~~~~~~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c common.c -o common.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c corfailure.c -o corfailure.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c correction.c -o correction.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c cvPost.cpp -o cvPost.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c daxpy.c -o daxpy.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ddot.c -o ddot.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dgefa.c -o dgefa.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dgesl.c -o dgesl.o gfortran-14 -fpic -g -O2 -Wall -mtune=native -c dgpadm.f -o dgpadm.o gfortran-14 -fpic -g -O2 -Wall -mtune=native -c dlsoda.f -o dlsoda.o dlsoda.f:2536:72: 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 | ^ Warning: ‘ml’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2407:32: 2407 | 1 LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0 | ^ note: ‘ml’ was declared here dlsoda.f:2536:72: 2536 | IF (JT .GE. 4) LENWM = (2*ML + MU + 1)*N + 2 | ^ Warning: ‘mu’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2407:42: 2407 | 1 LENIW, LENRW, LENWM, ML, MORD, MU, MXHNL0, MXSTP0 | ^ note: ‘mu’ was declared here dlsoda.f:2615:29: 2615 | IF (H0 .NE. 0.0D0 .AND. (T + H0 - TCRIT)*H0 .GT. 0.0D0) | ^ Warning: ‘h0’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2412:48: 2412 | DOUBLE PRECISION ATOLI, AYI, BIG, EWTI, H0, HMAX, HMX, RH, RTOLI, | ^ note: ‘h0’ was declared here dlsoda.f:2851:72: 2851 | IHIT = ABS(TN - TCRIT) .LE. 100.0D0*UROUND*HMX | ^ Warning: ‘tcrit’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2413:14: 2413 | 1 TCRIT, TDIST, TNEXT, TOL, TOLSF, TP, SIZE, SUM, W0 | ^ note: ‘tcrit’ was declared here dlsoda.f:2874:10: 2874 | IF (IHIT) T = TCRIT | ^ Warning: ‘ihit’ may be used uninitialized [-Wmaybe-uninitialized] dlsoda.f:2415:18: 2415 | LOGICAL IHIT | ^ note: ‘ihit’ was declared here gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dop853.c -o dop853.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c dscal.c -o dscal.o gfortran-14 -fpic -g -O2 -Wall -mtune=native -c dsphiv.f -o dsphiv.o dsphiv.f:270:72: 270 | wsp(iphih+mbrkdwn+1) = hj1j*wsp(iphih+2*mx+mbrkdwn-1) | ^ Warning: ‘hj1j’ may be used uninitialized [-Wmaybe-uninitialized] dsphiv.f:125:35: 125 | . avnorm, hj1j, hjj, SQR1 | ^ note: ‘hj1j’ was declared here g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c et.cpp -o et.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c etTran.cpp -o etTran.o etTran.cpp: In function ‘Rcpp::List etTrans(Rcpp::List, const Rcpp::RObject&, bool, bool, bool, bool, Rcpp::Nullable >, Rcpp::CharacterVector, bool, bool, bool, Rcpp::Nullable >)’: etTran.cpp:784:32: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] 784 | if (hasCmt || covColi >= 0 && as(lName[covColi]) != "cmt"){ | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ etTran.cpp:2521:34: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2521 | id.size() > (idxOut = idxOutput[iCur]) && | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ etTran.cpp:2524:40: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2524 | idxInput.size() > idxOut && | ~~~~~~~~~~~~~~~~^~~~~~~~ etTran.cpp:2532:41: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2532 | idxOutput.size() < iCur+1 && | ~~~~~~~~~~~~~~~~~^~~~~~~~ etTran.cpp:2533:34: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2533 | id.size() > (idxOut = idxOutput[iCur+1]) && | ~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ etTran.cpp:2536:40: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 2536 | idxInput.size() > idxOut && | ~~~~~~~~~~~~~~~~^~~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c expandGrid.cpp -o expandGrid.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c expm.cpp -o expm.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c fast_factor.cpp -o fast_factor.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c fnorm.c -o fnorm.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c forder.cpp -o forder.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c genModelVars.c -o genModelVars.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c getOption.c -o getOption.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c handle_evid.c -o handle_evid.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c idamax.c -o idamax.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c intdy.c -o intdy.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c isEt.c -o isEt.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lincmt.c -o lincmt.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c lincmtB.cpp -o lincmtB.o In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:13, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19, from lincmtB.cpp:64: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::combination(std::vector&, const int&, const int&, const int&)’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:73:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 73 | for (std::size_t i = 0; i < p - 1; i++) { | ~~^~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:79:16: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 79 | } while (k < x); | ~~^~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::combos(const int&, const double&, const int&, std::vector > >&)’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:102:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 102 | for (std::size_t i = 1; i != choose_dimk + 1; i++) { | ~~^~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:105:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 105 | for (std::size_t j = 0; j != k; j++) { | ~~^~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::increment(std::vector&, const int&, const double&, const std::vector&, std::vector >&)’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:126:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘const int’ [-Wsign-compare] 126 | for (std::size_t j = 0; j != k; j++) { | ~~^~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:132:22: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 132 | while ((first_zero < index.size()) && index[first_zero]) { | ~~~~~~~~~~~^~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:135:18: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | if (first_zero == index.size()) { | ~~~~~~~~~~~^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:143:31: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 143 | for (std::size_t i = 0; i != first_zero + 1; i++) { | ~~^~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp: In function ‘void stan::math::internal::signcombos(const int&, const double&, const int&, std::vector > >&)’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/hcubature.hpp:168:29: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 168 | for (std::size_t i = 1; i != choose_dimk + 1; i++) { | ~~^~~~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/normal_ccdf_log.hpp:5, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob.hpp:240, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim.hpp:16, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:14: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/normal_lccdf.hpp: In function ‘stan::return_type_t stan::math::normal_lccdf(const T_y&, const T_loc&, const T_scale&)’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/normal_lccdf.hpp:68: note: ‘-Wmisleading-indentation’ is disabled from this point onwards, since column-tracking was disabled due to the size of the code/headers 68 | } else if (scaled_diff > 8.25 * INV_SQRT_TWO) { /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/prob/normal_lccdf.hpp:68: note: adding ‘-flarge-source-files’ will allow for more column-tracking support, at the expense of compilation time and memory In file included from lincmtB.cpp:108: ../inst/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: ../inst/include/rxode2parseGetTime.h:223: warning: unused variable ‘curEvid’ [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:5, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_2F1_converges.hpp:5, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err.hpp:4, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core/profiling.hpp:9, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/core.hpp:53, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:8: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from ‘void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]’ 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:35:15: required from ‘stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]’ 35 | check_finite("hypergeometric_pFq", "a", a_ref); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:125:28: required from ‘auto stan::math::hypergeometric_3F2(const Ta&, const Tb&, const Tz&) [with Ta = std::vector >; Tb = std::vector >; Tz = double; stan::require_all_vector_t* = 0; stan::require_stan_scalar_t* = 0]’ 125 | return hypergeometric_pFq(to_vector(a), to_vector(b), z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:148:28: required from ‘auto stan::math::hypergeometric_3F2(const std::initializer_list<_Tp>&, const std::initializer_list<_Value>&, const Tz&) [with Ta = double; Tb = double; Tz = double; stan::require_all_stan_scalar_t* = 0]’ 148 | return hypergeometric_3F2(std::vector(a), std::vector(b), z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/inv_inc_beta.hpp:77:37: required from here 77 | + log(hypergeometric_3F2({a_val, a_val, one_m_b}, {ap1, ap1}, w)) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase >::Index’ {aka ‘long int’} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from ‘void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]’ 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:39:16: required from ‘stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]’ 39 | check_not_nan("hypergeometric_pFq", "a", a_ref); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:125:28: required from ‘auto stan::math::hypergeometric_3F2(const Ta&, const Tb&, const Tz&) [with Ta = std::vector >; Tb = std::vector >; Tz = double; stan::require_all_vector_t* = 0; stan::require_stan_scalar_t* = 0]’ 125 | return hypergeometric_pFq(to_vector(a), to_vector(b), z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_3F2.hpp:148:28: required from ‘auto stan::math::hypergeometric_3F2(const std::initializer_list<_Tp>&, const std::initializer_list<_Value>&, const Tz&) [with Ta = double; Tb = double; Tz = double; stan::require_all_stan_scalar_t* = 0]’ 148 | return hypergeometric_3F2(std::vector(a), std::vector(b), z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/inv_inc_beta.hpp:77:37: required from here 77 | + log(hypergeometric_3F2({a_val, a_val, one_m_b}, {ap1, ap1}, w)) | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase >::Index’ {aka ‘long int’} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from ‘void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]’ 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:35:15: required from ‘stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]’ 35 | check_finite("hypergeometric_pFq", "a", a_ref); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from ‘stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]’ 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]’ 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]’ 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase >::Index’ {aka ‘long int’} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_finite >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_finite.hpp:29:20: required from ‘void stan::math::check_finite(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]’ 29 | elementwise_check([](double x) { return std::isfinite(x); }, function, name, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 | y, "finite"); | ~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:36:15: required from ‘stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]’ 36 | check_finite("hypergeometric_pFq", "b", b_ref); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from ‘stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]’ 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]’ 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]’ 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase >::Index’ {aka ‘long int’} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from ‘void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]’ 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:39:16: required from ‘stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]’ 39 | check_not_nan("hypergeometric_pFq", "a", a_ref); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from ‘stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]’ 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]’ 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]’ 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase >::Index’ {aka ‘long int’} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp: In instantiation of ‘void stan::math::elementwise_check(const F&, const char*, const char*, const T&, const char*, const Indexings& ...) [with F = check_not_nan >(const char*, const char*, const Eigen::Matrix&)::; T = Eigen::Matrix; Indexings = {}; stan::require_eigen_t* = 0; std::enable_if_t<((bool)((Eigen::internal::traits<_Rhs>::Flags & Eigen::LinearAccessBit) || T::IsVectorAtCompileTime))>* = 0]’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/check_not_nan.hpp:28:20: required from ‘void stan::math::check_not_nan(const char*, const char*, const T_y&) [with T_y = Eigen::Matrix]’ 28 | elementwise_check([](double x) { return !std::isnan(x); }, function, name, y, | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 29 | "not nan"); | ~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_pFq.hpp:40:16: required from ‘stan::return_type_t stan::math::hypergeometric_pFq(const Ta&, const Tb&, const Tz&) [with Ta = Eigen::Matrix; Tb = Eigen::Matrix; Tz = double; stan::require_all_eigen_st* = 0; stan::require_arithmetic_t* = 0; stan::return_type_t = double]’ 40 | check_not_nan("hypergeometric_pFq", "b", b_ref); | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/hypergeometric_2F1.hpp:189:30: required from ‘stan::return_type_t stan::math::hypergeometric_2F1(const Ta1&, const Ta2&, const Tb&, const Tz&) [with Ta1 = double; Ta2 = double; Tb = double; Tz = double; ScalarT = double; OptT = boost::optional; stan::require_all_arithmetic_t* = 0; stan::return_type_t = double]’ 189 | return hypergeometric_pFq(a_args, b_args, z); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:190:39: required from ‘TupleT stan::math::internal::grad_2F1_impl(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool calc_a1 = true; bool calc_a2 = true; bool calc_b1 = true; bool calc_z = true; T1 = double; T2 = double; T3 = double; T_z = double; ScalarT = double; TupleT = std::tuple]’ 190 | auto hyper1 = hypergeometric_2F1(a1_euler, a2_euler, b1, z_euler); | ~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_2F1.hpp:306:57: required from ‘auto stan::math::grad_2F1(const T1&, const T2&, const T3&, const T_z&, double, int) [with bool ReturnSameT = true; T1 = double; T2 = double; T3 = double; T_z = double; stan::require_t >* = 0]’ 306 | return internal::grad_2F1_impl(a1, a2, b1, z, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ 307 | precision, max_steps); | ~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/grad_inc_beta.hpp:37:25: required from here 37 | = grad_2F1(a + b, 1.0, a + 1, z); | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/err/elementwise_check.hpp:153:24: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘Eigen::EigenBase >::Index’ {aka ‘long int’} [-Wsign-compare] 153 | for (size_t i = 0; i < x.size(); i++) { | ~~^~~~~~~~~~ In function ‘double handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’, inlined from ‘double getTime__(int, rx_solving_options_ind*, int)’ at ../inst/include/rxode2parseGetTime.h:381: ../inst/include/rxode2parseGetTime.h:314: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized] 314 | if (infBidx == -1) return 0.0; ../inst/include/rxode2parseGetTime.h: In function ‘double getTime__(int, rx_solving_options_ind*, int)’: ../inst/include/rxode2parseGetTime.h:312: note: ‘infBidx’ was declared here 312 | int infBidx; gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lsoda.c -o lsoda.o gfortran-14 -fpic -g -O2 -Wall -mtune=native -c matexp.f -o matexp.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c matexp_HM98.c -o matexp_HM98.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c methodswitch.c -o methodswitch.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c nearPD.cpp -o nearPD.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c omegaChol.c -o omegaChol.o gfortran-14 -fpic -g -O2 -Wall -mtune=native -c opkda2.f -o opkda2.o opkda2.f:650:28: 650 | INTEGER FUNCTION IXSAV (IPAR, IVALUE, ISET) | ^ Warning: ‘__result_ixsav’ may be used uninitialized [-Wmaybe-uninitialized] gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c orderswitch.c -o orderswitch.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c par_solve.cpp -o par_solve.o In file included from par_solve.cpp:15: ../inst/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: ../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable ‘curEvid’ [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ par_solve.cpp: In function ‘void handleSS(int*, int*, double*, double*, double*, double, double, int, int*, int, int*, rx_solving_options*, rx_solving_options_ind*, t_update_inis, void*)’: par_solve.cpp:1317:39: warning: variable ‘oldI’ set but not used [-Wunused-but-set-variable] 1317 | ei=0, wh, cmt, wh100, whI, wh0, oldI, | ^~~~ ../inst/include/rxode2parseGetTime.h: In function ‘double handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: ../inst/include/rxode2parseGetTime.h:314:5: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized] 314 | if (infBidx == -1) return 0.0; | ^~ ../inst/include/rxode2parseGetTime.h:312:9: note: ‘infBidx’ was declared here 312 | int infBidx; | ^~~~~~~ par_solve.cpp: In function ‘void solveWith1Pt(int*, int*, double*, double*, double*, double, double, int, int*, int, int*, rx_solving_options*, rx_solving_options_ind*, t_update_inis, void*)’: par_solve.cpp:708:5: warning: ‘idid’ may be used uninitialized [-Wmaybe-uninitialized] 708 | if (idid <= 0) { | ^~ par_solve.cpp:701:7: note: ‘idid’ was declared here 701 | int idid, itol=0; | ^~~~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c parseLinCmt.c -o parseLinCmt.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c print_node.c -o print_node.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c prja.c -o prja.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c qs.cpp -o qs.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rprintf.c -o rprintf.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rx2api.c -o rx2api.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxData.cpp -o rxData.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxInv.cpp -o rxInv.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxOptRep.cpp -o rxOptRep.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxStack.cpp -o rxStack.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxode2_df.cpp -o rxode2_df.o In file included from rxode2_df.cpp:36: ../inst/include/rxode2parseGetTime.h: In function ‘int handleInfusionStartRm(int*, int*, double*, int*, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’: ../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable ‘curEvid’ [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ In function ‘double handleInfusionItem(int, rx_solve*, rx_solving_options*, rx_solving_options_ind*)’, inlined from ‘double getTime__(int, rx_solving_options_ind*, int)’ at ../inst/include/rxode2parseGetTime.h:381:34: ../inst/include/rxode2parseGetTime.h:314:5: warning: ‘infBidx’ may be used uninitialized [-Wmaybe-uninitialized] 314 | if (infBidx == -1) return 0.0; | ^~ ../inst/include/rxode2parseGetTime.h: In function ‘double getTime__(int, rx_solving_options_ind*, int)’: ../inst/include/rxode2parseGetTime.h:312:9: note: ‘infBidx’ was declared here 312 | int infBidx; | ^~~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c rxthreefry.cpp -o rxthreefry.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sbuf.c -o sbuf.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c scaleh.c -o scaleh.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c seed.cpp -o seed.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c solsy.c -o solsy.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c stoda.c -o stoda.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strdup_printf.c -o strdup_printf.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strncmp.c -o strncmp.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strncmpi.c -o strncmpi.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tran.c -o tran.o In file included from parseFuns.h:151, from tran.c:151: parseFunsDosing.h: In function ‘handleFunctionTad’: parseFunsDosing.h:86:61: warning: value computed is not used [-Wunused-value] 86 | handleFunctionTadEmptyCcode(tf, v2) || | ^~ In file included from tran.c:155: parseAssignStr.h: In function ‘handleStrAssign’: parseAssignStr.h:129:13: warning: unused variable ‘buf’ [-Wunused-variable] 129 | char *buf = tb.str.line[tb.id]; | ^~~ In file included from tran.c:156: parseLevels.h: In function ‘handleLevelsStr1’: parseLevels.h:94:11: warning: unused variable ‘n’ [-Wunused-variable] 94 | int n = get_str_assign_int(tb.id, v); | ^ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c udf.cpp -o udf.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utilc.c -o utilc.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include" -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -isystem'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O2 -Wall -pedantic -mtune=native -c utilcpp.cpp -o utilcpp.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/PreciseSums/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -D_isrxode2_ -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c vmnorm.c -o vmnorm.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o rxode2.so RcppExports.o approx.o boost.o box.o call_dvode.o cbindThetaOmega.o cfode.o cfode_static.o checkmate.o checkmate_stub.o codegen.o common.o corfailure.o correction.o cvPost.o daxpy.o ddot.o dgefa.o dgesl.o dgpadm.o dlsoda.o dop853.o dscal.o dsphiv.o et.o etTran.o expandGrid.o expm.o fast_factor.o fnorm.o forder.o genModelVars.o getOption.o handle_evid.o idamax.o init.o intdy.o isEt.o lincmt.o lincmtB.o lsoda.o matexp.o matexp_HM98.o methodswitch.o nearPD.o omegaChol.o opkda2.o orderswitch.o par_solve.o parseLinCmt.o print_node.o prja.o qs.o rprintf.o rx2api.o rxData.o rxInv.o rxOptRep.o rxStack.o rxode2_df.o rxthreefry.o sbuf.o scaleh.o seed.o solsy.o stoda.o strdup_printf.o strncmp.o strncmpi.o tran.o udf.o utilc.o utilcpp.o vmnorm.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/lib/ -Wl,-rpath,/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/lib/ -ltbb -ltbbmalloc -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpOh5AZW/R.INSTALL3f7c83459e5749/rxode2/src' installing via 'install.libs.R' to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-rxode2/00new/rxode2 ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (rxode2) begin installing package ‘nlmixr2est’ begin installing package ‘nonmem2rx’ * installing *source* package ‘nonmem2rx’ ... ** package ‘nonmem2rx’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpSa9kQq/R.INSTALL3f819b4aff0424/nonmem2rx/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c abbrec.c -o abbrec.o abbrec.c: In function ‘wprint_parsetree_abbrec’: abbrec.c:276:32: warning: value computed is not used [-Wunused-value] 276 | abbrecProcessSeq(name, pn) || | ^~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c abbrev.c -o abbrev.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c data.c -o data.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c input.c -o input.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lst.c -o lst.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c mem.c -o mem.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c model.c -o model.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c nonmemId.cpp -o nonmemId.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c omega.c -o omega.o omega.c: In function ‘wprint_parsetree_omega’: omega.c:378:5: warning: value computed is not used [-Wunused-value] 378 | || omegaParseNameOption(_arg_) | ^~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c records.c -o records.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sbuf.c -o sbuf.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c strncmpi.c -o strncmpi.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c sub.c -o sub.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c tab.c -o tab.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c theta.c -o theta.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c util.cpp -o util.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/dparser/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/rxode2parse/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c validate.c -o validate.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o nonmem2rx.so RcppExports.o abbrec.o abbrev.o data.o init.o input.o lst.o mem.o model.o nonmemId.o omega.o records.o sbuf.o strncmpi.o sub.o tab.o theta.o util.o validate.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpSa9kQq/R.INSTALL3f819b4aff0424/nonmem2rx/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-nonmem2rx/00new/nonmem2rx/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nonmem2rx) * installing *source* package ‘nlmixr2est’ ... ** using staged installation --------[begin src/Makevars]-------- # -*- mode: makefile-gmake -*- ARMA=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include BH=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include RCPP=/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include RXP=/home/hornik/tmp/CRAN_recheck/Library/rxode2/include CXX_STD = CXX17 PKG_LIBS = $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) $(SHLIB_OPENMP_CXXFLAGS) PKG_CXXFLAGS = -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"$(BH)" -isystem"$(RCPP)" -isystem"$(ARMA)" -isystem"$(RXP)" $(SHLIB_OPENMP_CXXFLAGS) -DARMA_64BIT_WORD=1 SHLIB_LDFLAGS = $(SHLIB_CXXLDFLAGS) SHLIB_LD = $(SHLIB_CXXLD) SOURCES_C = init.c rprintf.c merge3.c lbfgsR.c utilc.c SOURCES_CPP = uninformativeEtas.cpp nlm.cpp filterNormalLike.cpp inner.cpp shi21.cpp nearPD.cpp censEst.cpp saem.cpp expandNlme.cpp npde.cpp shrink.cpp ires.cpp res.cpp cwres.cpp censResid.cpp cholse.cpp neldermead.cpp resid.cpp slice.cpp RcppExportMod.cpp RcppExports.cpp OBJECTS = $(SOURCES_CPP:.cpp=.o) $(SOURCES_C:.c=.o) all: $(SHLIB) $(SHLIB): $(OBJECTS) --------[end src/Makevars]-------- ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ using C++17 make[1]: Entering directory '/home/hornik/tmp/scratch/RtmprhL5PZ/R.INSTALL3f819d3e5dd7ee/nlmixr2est/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c uninformativeEtas.cpp -o uninformativeEtas.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c nlm.cpp -o nlm.o nlm.cpp: In function ‘arma::vec nlmSolveF(arma::vec&)’: nlm.cpp:399:7: warning: unused variable ‘cores’ [-Wunused-variable] 399 | int cores = getOpCores(op); | ^~~~~ nlm.cpp: In function ‘arma::mat nlmSolveGrad(arma::vec&)’: nlm.cpp:525:7: warning: unused variable ‘cores’ [-Wunused-variable] 525 | int cores = getOpCores(op); | ^~~~~ nlm.cpp: In function ‘Rcpp::NumericVector solveGradNls(arma::vec&, int)’: nlm.cpp:608:12: warning: unused variable ‘llik’ [-Wunused-variable] 608 | double llik; | ^~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c filterNormalLike.cpp -o filterNormalLike.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c inner.cpp -o inner.o inner.cpp: In function ‘void parHistData(Rcpp::Environment, bool)’: inner.cpp:37:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘const arma::uword’ {aka ‘const long long unsigned int’} [-Wsign-compare] 37 | #define min2( a , b ) ( (a) < (b) ? (a) : (b) ) | ~~~~^~~~~ inner.cpp:5848:23: note: in expansion of macro ‘min2’ 5848 | for (i = 0; i < min2(op_focei.npars+1, vals.n_cols); i++){ | ^~~~ inner.cpp:5848:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 5848 | for (i = 0; i < min2(op_focei.npars+1, vals.n_cols); i++){ | ^ inner.cpp: In function ‘Rcpp::List nlmixr2Gill83_(Rcpp::Function, Rcpp::NumericVector, Rcpp::Environment, Rcpp::LogicalVector, double, int, double, double, bool)’: inner.cpp:4326:13: warning: ‘gillF’ may be used uninitialized [-Wmaybe-uninitialized] 4326 | fN[i] = gillF; inner.cpp:4319:10: note: ‘gillF’ was declared here 4319 | double gillF; | ^~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c shi21.cpp -o shi21.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c nearPD.cpp -o nearPD.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c censEst.cpp -o censEst.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c saem.cpp -o saem.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c expandNlme.cpp -o expandNlme.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c npde.cpp -o npde.o npde.cpp: In function ‘void handleCensNpdeCdf(calcNpdeInfoId&, arma::Col&, arma::vec&, int&, bool&, unsigned int, arma::vec&, arma::vec&, unsigned int&, bool&)’: npde.cpp:129:15: warning: variable ‘hi’ set but not used [-Wunused-but-set-variable] 129 | double low, hi, low2, hi2; | ^~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c shrink.cpp -o shrink.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c ires.cpp -o ires.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c res.cpp -o res.o res.cpp: In function ‘void calculateDfFull(arma::Col&, arma::mat&, Rcpp::List&, int&, unsigned int&)’: res.cpp:17:7: warning: unused variable ‘idSize’ [-Wunused-variable] 17 | int idSize = ID.size(); | ^~~~~~ g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c cwres.cpp -o cwres.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c censResid.cpp -o censResid.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c cholse.cpp -o cholse.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c neldermead.cpp -o neldermead.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c resid.cpp -o resid.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c slice.cpp -o slice.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExportMod.cpp -o RcppExportMod.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -Id -I../inst/include -DBOOST_DISABLE_ASSERTS -DBOOST_NO_CXX11_STATIC_ASSERT -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -isystem"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include" -isystem"/home/hornik/tmp/CRAN_recheck/Library/rxode2/include" -fopenmp -DARMA_64BIT_WORD=1 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:205, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Dense:1, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:28, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25, from ../inst/include/nlmixr2est_RcppExports.h:8, from ../inst/include/nlmixr2est.h:7, from RcppExports.cpp:4: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:46:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 46 | typedef eigen_packet_wrapper<__m128i, 0> Packet4i; | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:47:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 47 | typedef eigen_packet_wrapper<__m128i, 1> Packet16b; | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:49:39: warning: ignoring attributes on template argument ‘__m128’ [-Wignored-attributes] 49 | template<> struct is_arithmetic<__m128> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:50:40: warning: ignoring attributes on template argument ‘__m128i’ [-Wignored-attributes] 50 | template<> struct is_arithmetic<__m128i> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:51:40: warning: ignoring attributes on template argument ‘__m128d’ [-Wignored-attributes] 51 | template<> struct is_arithmetic<__m128d> { enum { value = true }; }; | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:222:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 222 | template<> struct unpacket_traits { | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:228:43: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 228 | template<> struct unpacket_traits { | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1124:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 1124 | ptranspose(PacketBlock& kernel) { | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/PacketMath.h:1129:34: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 1129 | ptranspose(PacketBlock& kernel) { | ^ In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:174: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 16 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet4f’ {aka ‘__m128’} [-Wignored-attributes] 29 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:173:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 173 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet2cf,Packet4f) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:16:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 16 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/Default/ConjHelper.h:29:60: warning: ignoring attributes on template argument ‘Eigen::internal::Packet2d’ {aka ‘__m128d’} [-Wignored-attributes] 29 | struct conj_helper { \ | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/arch/SSE/Complex.h:298:1: note: in expansion of macro ‘EIGEN_MAKE_CONJ_HELPER_CPLX_REAL’ 298 | EIGEN_MAKE_CONJ_HELPER_CPLX_REAL(Packet1cd,Packet2d) | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:165: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ 266 | Alignment = internal::traits::Alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:24:46: required from here 24 | ResAlignment = traits >::Alignment | ^~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(4) float>::half’ {aka ‘__m128’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Core:271: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ 46 | typedef typename Coefficients::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ 273 | class Quaternion : public QuaternionBase > | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:27:3: required from here 27 | { | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h: In instantiation of ‘struct Eigen::internal::find_best_packet’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:22:57: required from ‘struct Eigen::internal::traits >’ 22 | typedef typename find_best_packet<_Scalar,size>::type PacketScalar; | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:266:49: required from ‘struct Eigen::internal::traits >’ 266 | Alignment = internal::traits::Alignment, | ^~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:98:47: required from here 98 | ResAlignment = traits >::Alignment | ^~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:44: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 190 | bool Stop = Size==Dynamic || (Size%unpacket_traits::size)==0 || is_same::half>::value> | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:190:83: warning: ignoring attributes on template argument ‘Eigen::internal::unpacket_traits<__vector(2) double>::half’ {aka ‘__m128d’} [-Wignored-attributes] /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/util/XprHelper.h:208:88: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 208 | typedef typename find_best_packet_helper::type>::type type; | ^~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h: In instantiation of ‘class Eigen::DenseCoeffsBase, 0>’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:302:7: required from ‘class Eigen::DenseCoeffsBase, 1>’ 302 | class DenseCoeffsBase : public DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:555:7: required from ‘class Eigen::DenseCoeffsBase, 3>’ 555 | class DenseCoeffsBase | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseBase.h:41:34: required from ‘class Eigen::DenseBase >’ 41 | template class DenseBase | ^~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/MatrixBase.h:48:34: required from ‘class Eigen::MatrixBase >’ 48 | template class MatrixBase | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/PlainObjectBase.h:98:7: required from ‘class Eigen::PlainObjectBase >’ 98 | class PlainObjectBase : public internal::dense_xpr_base::type | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/Matrix.h:178:7: required from ‘class Eigen::Matrix’ 178 | class Matrix | ^~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:46:50: required from ‘class Eigen::QuaternionBase >’ 46 | typedef typename Coefficients::CoeffReturnType CoeffReturnType; | ^~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/Quaternion.h:273:7: required from ‘class Eigen::Quaternion’ 273 | class Quaternion : public QuaternionBase > | ^~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Geometry/arch/Geometry_SIMD.h:102:3: required from here 102 | { | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/Core/DenseCoeffsBase.h:56:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 56 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:37, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26, from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h: In instantiation of ‘class Eigen::SparseMatrixBase >’: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseCompressedBase.h:36:7: required from ‘class Eigen::SparseCompressedBase >’ 36 | class SparseCompressedBase | ^~~~~~~~~~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrix.h:96:7: required from ‘class Eigen::SparseMatrix’ 96 | class SparseMatrix | ^~~~~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h:61:25: required from here 61 | typedef Triplet T; | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/SparseMatrixBase.h:47:30: warning: ignoring attributes on template argument ‘Eigen::internal::packet_traits::type’ {aka ‘__m128d’} [-Wignored-attributes] 47 | >::type PacketReturnType; | ^~~~~~~~~~~~~~~~ gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c rprintf.c -o rprintf.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c merge3.c -o merge3.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c lbfgsR.c -o lbfgsR.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include' -I'/home/hornik/tmp/CRAN_recheck/Library/n1qn1/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/lbfgsb3c/include' -I'/home/hornik/tmp/CRAN_recheck/Library/lotri/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include' -I'/home/hornik/tmp/CRAN_recheck/Library/rxode2/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utilc.c -o utilc.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o nlmixr2est.so uninformativeEtas.o nlm.o filterNormalLike.o inner.o shi21.o nearPD.o censEst.o saem.o expandNlme.o npde.o shrink.o ires.o res.o cwres.o censResid.o cholse.o neldermead.o resid.o slice.o RcppExportMod.o RcppExports.o init.o rprintf.o merge3.o lbfgsR.o utilc.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -fopenmp -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmprhL5PZ/R.INSTALL3f819d3e5dd7ee/nlmixr2est/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-nlmixr2est/00new/nlmixr2est/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nlmixr2est) begin installing package ‘nlmixr2extra’ * installing *source* package ‘nlmixr2extra’ ... ** package ‘nlmixr2extra’ successfully unpacked and MD5 sums checked ** using staged installation R Under development (unstable) (2024-09-17 r87161) -- "Unsuffered Consequences" Copyright (C) 2024 The R Foundation for Statistical Computing 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R> if (!dir.exists("data")) { + dir.create("data") + } R> R> .in <- suppressWarnings(readLines("src/Makevars.in")) R> if (.Platform$OS.type == "windows" && !file.exists("src/Makevars.win")) { + file.out <- file("src/Makevars.win", "wb") + writeLines(.in, file.out) + close(file.out) + } else { + file.out <- file("src/Makevars", "wb") + writeLines(.in, file.out) + close(file.out) + } R> > proc.time() user system elapsed 0.134 0.025 0.149 --------[begin src/Makevars]-------- ## -*- mode: makefile; -*- PKG_CXXFLAGS = $(SHLIB_OPENMP_CXXFLAGS) -DARMA_USE_CXX11 PKG_LIBS = $(SHLIB_OPENMP_CXXFLAGS) $(LAPACK_LIBS) $(BLAS_LIBS) $(FLIBS) --------[end src/Makevars]-------- ** libs using C compiler: ‘gcc-14 (Debian 14.2.0-3) 14.2.0’ using C++ compiler: ‘g++-14 (Debian 14.2.0-3) 14.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKwEWjQ/R.INSTALL3f854456843bd9/nlmixr2extra/src' g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_USE_CXX11 -fpic -g -O2 -Wall -pedantic -mtune=native -c RcppExports.cpp -o RcppExports.o gcc-14 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-14 -std=gnu++17 -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include' -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3 -fopenmp -DARMA_USE_CXX11 -fpic -g -O2 -Wall -pedantic -mtune=native -c preCondInv.cpp -o preCondInv.o g++-14 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o nlmixr2extra.so RcppExports.o init.o preCondInv.o -fopenmp -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKwEWjQ/R.INSTALL3f854456843bd9/nlmixr2extra/src' installing to /home/hornik/tmp/CRAN_recheck/Library/00LOCK-nlmixr2extra/00new/nlmixr2extra/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nlmixr2extra) begin installing package ‘nlmixr2plot’ * installing *source* package ‘nlmixr2plot’ ... ** package ‘nlmixr2plot’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nlmixr2plot) begin installing package ‘nlmixr2’ * installing *source* package ‘nlmixr2’ ... ** package ‘nlmixr2’ successfully unpacked and MD5 sums checked ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (nlmixr2) checking nlmixr2est_3.0.0.tar.gz ... checking nlmixr2_2.1.2.tar.gz ... checking babelmixr2_0.1.2.tar.gz ... checking nlmixr2extra_2.0.10.tar.gz ... checking nlmixr2lib_0.2.0.tar.gz ... checking nlmixr2plot_2.0.9.tar.gz ... checking xpose.nlmixr2_0.4.0.tar.gz ... Depends: Package: nlmixr2est Depends: nlmixr2data, R (>= 4.0) Imports: backports, checkmate, cli, graphics, knitr, lbfgsb3c, lotri, magrittr, Matrix, methods, minqa, n1qn1 (>= 6.0.1-12), nlme, Rcpp, rex, rxode2 (>= 3.0.0), stats, symengine, utils LinkingTo: BH, n1qn1 (>= 6.0.1-12), lbfgsb3c (>= 2024-3.5), lotri (>= 0.5.0), Rcpp, RcppArmadillo (>= 0.11.2.3.1), RcppEigen, rxode2 (>= 3.0.0) Timings: user system elapsed nlmixr2est 483.327 24.637 393.073 Results: Check status summary: NOTE OK Source packages 0 1 Reverse depends 1 5 Check results summary: nlmixr2est ... OK rdepends_babelmixr2 ... NOTE * checking package dependencies ... NOTE rdepends_nlmixr2 ... OK rdepends_nlmixr2extra ... OK rdepends_nlmixr2lib ... OK rdepends_nlmixr2plot ... OK rdepends_xpose.nlmixr2 ... OK