* installing *source* package ‘rxode2’ ... ** using staged installation R Under development (unstable) (2024-12-13 r87441) -- "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> if (.Platform$OS.type == "windows") { + .makevars <- file("src/Makevars.win", "wb") + .i <- "I" + } else { + .makevars <- file("src/Makevars", "wb") + if (any(grepl("Pop!_OS", utils::osVersion, fixed=TRUE))) { + .i <- "isystem" + } else { + .i <- "I" + } + } R> R> writeLines(gsub("@ISYSTEM@", .i, .in), + .makevars) R> close(.makevars) R> R> if (file.exists("man/reexports.Rd")) { + l <- readLines("man/reexports.Rd") + if (!any(regexpr("[\\]value", l) != -1)) { + l <- c(l, "\\value{ Inherited from parent routine }") + file.out <- file("man/reexports.Rd", "wb") + writeLines(l, file.out) + close(file.out) + } + } R> R> R> unlink("R/rxode2_md5.R") R> R> cpp <- list.files("src", pattern = ".(c|h|cpp|f)$") 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 0.053 0.224 --------[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=-I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/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 = $(SHLIB_OPENMP_CXXFLAGS) -D_isrxode2_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -I"$(BH)" -I"$(EG)" $(SH) -I"$(RCPP)" --------[end src/Makevars]-------- --------[begin R/RxODE_md5.R]-------- rxode2.md5 <- "0a237339f256bfcfde66fa049f61dd8e" --------[end R/RxODE_md5.R]-------- ** libs using C compiler: ‘Debian clang version 19.1.5 (1)’ using Fortran compiler: ‘Debian flang-new version 19.1.5 (1)’ using C++ compiler: ‘Debian clang version 19.1.5 (1)’ using C++17 clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c RcppExports.cpp -o RcppExports.o In file included from RcppExports.cpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] 273 | Index count = 0; | ^ In file included from RcppExports.cpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable] 78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable] 79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree | ^ In file included from RcppExports.cpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable] 72 | Index replacements = 0; | ^ In file included from RcppExports.cpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable] 246 | int count = 0; | ^ 5 warnings generated. clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c approx.c -o approx.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c boost.cpp -o boost.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c box.c -o box.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c call_dvode.c -o call_dvode.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c cbindThetaOmega.cpp -o cbindThetaOmega.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c cfode.c -o cfode.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c cfode_static.c -o cfode_static.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c checkmate.cpp -o checkmate.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c checkmate_stub.c -o checkmate_stub.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c codegen.c -o codegen.o codegen.c:344:19: warning: unused variable 'assignOne' [-Wunused-variable] 344 | int assignOne = 0; | ^~~~~~~~~ 1 warning generated. clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c common.c -o common.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c corfailure.c -o corfailure.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c correction.c -o correction.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c cvPost.cpp -o cvPost.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c daxpy.c -o daxpy.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c ddot.c -o ddot.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c dgefa.c -o dgefa.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c dgesl.c -o dgesl.o flang-new-19 -fpic -g -O2 -c dgpadm.f -o dgpadm.o ./dgpadm.f:123:7: warning: Reference to the procedure 'dgexx' has an implicit interface that is distinct from another reference: incompatible dummy argument #7: incompatible dummy data object shapes call DGEXX( 'n','n',m,m,m, 1.0d0,wsp(iused),m, ^ ./dgpadm.f:102:7: previous reference to 'dgexx' call DGEXX( 'n','n',m,m,m,scale2,H,ldh,H,ldh,0.0d0,wsp(ih2),m ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ./dgpadm.f:138:10: warning: Reference to the procedure 'dgexx' has an implicit interface that is distinct from another reference: incompatible dummy argument #7: incompatible dummy data object shapes call DGEXX( 'n','n',m,m,m, scale,wsp(iq),m, ^ ./dgpadm.f:102:7: previous reference to 'dgexx' call DGEXX( 'n','n',m,m,m,scale2,H,ldh,H,ldh,0.0d0,wsp(ih2),m ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ./dgpadm.f:142:10: warning: Reference to the procedure 'dgexx' has an implicit interface that is distinct from another reference: incompatible dummy argument #7: incompatible dummy data object shapes call DGEXX( 'n','n',m,m,m, scale,wsp(ip),m, ^ ./dgpadm.f:102:7: previous reference to 'dgexx' call DGEXX( 'n','n',m,m,m,scale2,H,ldh,H,ldh,0.0d0,wsp(ih2),m ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ./dgpadm.f:165:10: warning: Reference to the procedure 'dgexx' has an implicit interface that is distinct from another reference: incompatible dummy argument #7: incompatible dummy data object shapes call DGEXX( 'n','n',m,m,m, 1.0d0,wsp(iget),m, wsp(iget),m, ^ ./dgpadm.f:102:7: previous reference to 'dgexx' call DGEXX( 'n','n',m,m,m,scale2,H,ldh,H,ldh,0.0d0,wsp(ih2),m ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ flang-new-19 -fpic -g -O2 -c dlsoda.f -o dlsoda.o ./dlsoda.f:720:7: warning: Unrecognized compiler directive was ignored CDIR$ IVDEP ^^^^^^ ./dlsoda.f:844:7: warning: Unrecognized compiler directive was ignored CDIR$ IVDEP ^^^^^^ ./dlsoda.f:1015:7: warning: Unrecognized compiler directive was ignored CDIR$ IVDEP ^^^^^^ clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c dop853.c -o dop853.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c dscal.c -o dscal.o flang-new-19 -fpic -g -O2 -c dsphiv.f -o dsphiv.o ./dsphiv.f:220:12: warning: Reference to the procedure 'daxpy' has an implicit interface that is distinct from another reference: incompatible dummy argument #3: incompatible dummy data object shapes . call DAXPY(n,-wsp(ih+(j-1)*mh+j-2),wsp(j1v-2*n),1,wsp(j1v),1) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ./dsphiv.f:194:7: previous reference to 'daxpy' call DAXPY( n, 1.0d0, u,1, wsp(iv),1 ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ./dsphiv.f:222:10: warning: Reference to the procedure 'daxpy' has an implicit interface that is distinct from another reference: incompatible dummy argument #3: incompatible dummy data object shapes call DAXPY( n, -hjj, wsp(j1v-n),1, wsp(j1v),1 ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ ./dsphiv.f:194:7: previous reference to 'daxpy' call DAXPY( n, 1.0d0, u,1, wsp(iv),1 ) ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c et.cpp -o et.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c etTran.cpp -o etTran.o etTran.cpp:784:32: warning: '&&' within '||' [-Wlogical-op-parentheses] 784 | if (hasCmt || covColi >= 0 && as(lName[covColi]) != "cmt"){ | ~~ ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ etTran.cpp:784:32: note: place parentheses around the '&&' expression to silence this warning 784 | if (hasCmt || covColi >= 0 && as(lName[covColi]) != "cmt"){ | ^ | ( ) 1 warning generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c expandGrid.cpp -o expandGrid.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c expm.cpp -o expm.o In file included from expm.cpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo.h:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:27: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/config/RcppArmadilloConfig.h:110: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/config/RcppArmadilloConfigGenerated.h:31:9: warning: 'ARMA_DONT_USE_OPENMP' macro redefined [-Wmacro-redefined] 31 | #define ARMA_DONT_USE_OPENMP 1 | ^ expm.cpp:7:9: note: previous definition is here 7 | #define ARMA_DONT_USE_OPENMP // Known to cause speed problems | ^ expm.cpp:13:9: warning: 'ARMA_DONT_USE_OPENMP' macro redefined [-Wmacro-redefined] 13 | #define ARMA_DONT_USE_OPENMP // Known to cause speed problems | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppArmadillo/include/RcppArmadillo/config/RcppArmadilloConfigGenerated.h:31:9: note: previous definition is here 31 | #define ARMA_DONT_USE_OPENMP 1 | ^ 2 warnings generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c fast_factor.cpp -o fast_factor.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c fnorm.c -o fnorm.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c forder.cpp -o forder.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c genModelVars.c -o genModelVars.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c getOption.c -o getOption.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c handle_evid.c -o handle_evid.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c idamax.c -o idamax.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c init.c -o init.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c intdy.c -o intdy.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c isEt.c -o isEt.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c itostr.c -o itostr.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c lincmt.c -o lincmt.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c lincmtB.cpp -o lincmtB.o In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:4: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseCore:61: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseCore/TriangularSolver.h:273:13: warning: variable 'count' set but not used [-Wunused-but-set-variable] 273 | Index count = 0; | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:4: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/Eigen.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/Sparse:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/SparseLU:35: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:78:9: warning: variable 'nsuper_et_post' set but not used [-Wunused-but-set-variable] 78 | Index nsuper_et_post = 0; // Number of relaxed snodes in postordered etree | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h:79:9: warning: variable 'nsuper_et' set but not used [-Wunused-but-set-variable] 79 | Index nsuper_et = 0; // Number of relaxed snodes in the original etree | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:56: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/elt_multiply.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/multiply.hpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun.hpp:35: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/binomial_coefficient_log.hpp:13: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/partials_propagator.hpp:8: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/operands_and_partials.hpp:57:1: warning: 'ops_partials_edge' defined as a struct template here but previously declared as a class template; this is valid, but may result in linker errors under the Microsoft C++ ABI [-Wmismatched-tags] 57 | struct ops_partials_edge> { | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/operands_and_partials.hpp:45:1: note: did you mean struct here? 45 | class ops_partials_edge; | ^~~~~ | struct In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:20: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/heterogeneous_system.hpp:34: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/static_rational.hpp:166:10: warning: extension used [-Wlanguage-extension-token] 166 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:20: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/heterogeneous_system.hpp:35: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/dimension.hpp:21: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/dimension_list.hpp:125:10: warning: extension used [-Wlanguage-extension-token] 125 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:20: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/heterogeneous_system.hpp:35: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/dimension.hpp:21: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/dimension_list.hpp:131: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/dimensionless_type.hpp:49:10: warning: extension used [-Wlanguage-extension-token] 49 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:20: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/heterogeneous_system.hpp:39: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/linear_algebra.hpp:20: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/dim.hpp:75:10: warning: extension used [-Wlanguage-extension-token] 75 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:20: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/heterogeneous_system.hpp:40: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/unscale.hpp:28: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/scale.hpp:139:10: warning: extension used [-Wlanguage-extension-token] 139 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:20: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/heterogeneous_system.hpp:120:10: warning: extension used [-Wlanguage-extension-token] 120 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:29: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/conversion.hpp:17: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/detail/conversion_impl.hpp:21: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/homogeneous_system.hpp:99:10: warning: extension used [-Wlanguage-extension-token] 99 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:201: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor.hpp:16: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/integrate_ode_rk45.hpp:6: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/functor/ode_rk45.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint.hpp:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/ublas_wrapper.hpp:30: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/algebra/default_operations.hpp:26: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/numeric/odeint/util/unit_helper.hpp:23: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/units/quantity.hpp:495:10: warning: extension used [-Wlanguage-extension-token] 495 | #include BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP() | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/typeof/typeof.hpp:28:13: note: expanded from macro 'BOOST_TYPEOF_INCREMENT_REGISTRATION_GROUP' 28 | | ^ In file included from lincmtB.cpp:69: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:31: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/IterativeSolvers:46: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/IterativeSolvers/IDRS.h:72:10: warning: variable 'replacements' set but not used [-Wunused-but-set-variable] 72 | Index replacements = 0; | ^ In file included from lincmtB.cpp:69: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigen.h:25: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/RcppEigenForward.h:37: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/SparseExtra:45: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppEigen/include/unsupported/Eigen/src/SparseExtra/MarketIO.h:246:7: warning: variable 'count' set but not used [-Wunused-but-set-variable] 246 | int count = 0; | ^ In file included from lincmtB.cpp:108: ./../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable 'curEvid' [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ In file included from lincmtB.cpp:64: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math.hpp:19: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev.hpp:10: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun.hpp:56: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/elt_multiply.hpp:9: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/rev/fun/multiply.hpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun.hpp:46: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/choose.hpp:7: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/binomial.hpp:15: In file included from /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/beta.hpp:1721: /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:29:15: warning: unused variable 'x_extrema' [-Wunused-variable] 29 | const T x_extrema = 1 / (1 + a); | ^~~~~~~~~ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:304:7: note: in instantiation of member function 'boost::math::detail::temme_root_finder::temme_root_finder' requested here 304 | temme_root_finder(-lu, alpha), x, lower, upper, policies::digits() / 2); | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:615:20: note: in instantiation of function template specialization 'boost::math::detail::temme_method_2_ibeta_inverse, boost::math::policies::overflow_error, boost::math::policies::promote_float, boost::math::policies::promote_double>>' requested here 615 | x = temme_method_2_ibeta_inverse(a, b, p, r, theta, pol); | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:992:17: note: in instantiation of function template specialization 'boost::math::detail::ibeta_inv_imp, boost::math::policies::overflow_error, boost::math::policies::promote_float, boost::math::policies::promote_double>>' requested here 992 | rx = detail::ibeta_inv_imp( | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/BH/include/boost/math/special_functions/detail/ibeta_inverse.hpp:1023:11: note: in instantiation of function template specialization 'boost::math::ibeta_inv, boost::math::policies::pole_error, boost::math::policies::promote_double, boost::math::policies::digits2<>>>' requested here 1023 | return ibeta_inv(a, b, p, static_cast(nullptr), pol); | ^ /home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/stan/math/prim/fun/inv_inc_beta.hpp:32:23: note: in instantiation of function template specialization 'boost::math::ibeta_inv, boost::math::policies::pole_error, boost::math::policies::promote_double, boost::math::policies::digits2<>>>' requested here 32 | return boost::math::ibeta_inv(a, b, p, boost_policy_t<>()); | ^ 16 warnings generated. clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c lsoda.c -o lsoda.o flang-new-19 -fpic -g -O2 -c matexp.f -o matexp.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c matexp_HM98.c -o matexp_HM98.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c methodswitch.c -o methodswitch.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c nearPD.cpp -o nearPD.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c omegaChol.c -o omegaChol.o flang-new-19 -fpic -g -O2 -c opkda2.f -o opkda2.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c orderswitch.c -o orderswitch.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c par_solve.cpp -o par_solve.o In file included from par_solve.cpp:15: ./../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable 'curEvid' [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ par_solve.cpp:647:11: warning: lambda capture 'ind' is not used [-Wunused-lambda-capture] 647 | [ind, time](int a, int b){ | ^~~~ par_solve.cpp:704:9: warning: variable 'idid' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized] 704 | if (!isSameTime(xout, xp)) { | ^~~~~~~~~~~~~~~~~~~~~ par_solve.cpp:708:9: note: uninitialized use occurs here 708 | if (idid <= 0) { | ^~~~ par_solve.cpp:704:5: note: remove the 'if' if its condition is always true 704 | if (!isSameTime(xout, xp)) { | ^~~~~~~~~~~~~~~~~~~~~~~~~~ par_solve.cpp:701:11: note: initialize the variable 'idid' to silence this warning 701 | int idid, itol=0; | ^ | = 0 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, | ^ par_solve.cpp:1290:7: warning: variable 'maxSS' set but not used [-Wunused-but-set-variable] 1290 | int maxSS = op->maxSS; | ^ par_solve.cpp:1291:7: warning: variable 'minSS' set but not used [-Wunused-but-set-variable] 1291 | int minSS = op->minSS; | ^ 6 warnings generated. clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c parseLinCmt.c -o parseLinCmt.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c print_node.c -o print_node.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c prja.c -o prja.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c qs.cpp -o qs.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c rprintf.c -o rprintf.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c rx2api.c -o rx2api.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rxData.cpp -o rxData.o rxData.cpp:3583:53: warning: variable 'hmax2s' set but not used [-Wunused-but-set-variable] 3583 | hmax1n=0.0, hmax2 = 0.0, hmax2m = 0.0, hmax2mo, hmax2s=0.0, | ^ rxData.cpp:4148:7: warning: variable 'curEvent' set but not used [-Wunused-but-set-variable] 4148 | int curEvent = 0, curIdx = 0, curSolve=0; | ^ 2 warnings generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rxInv.cpp -o rxInv.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rxOptRep.cpp -o rxOptRep.o rxOptRep.cpp:1:9: warning: 'R_NO_REMAP' macro redefined [-Wmacro-redefined] 1 | #define R_NO_REMAP | ^ :11:9: note: previous definition is here 11 | #define R_NO_REMAP 1 | ^ 1 warning generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rxStack.cpp -o rxStack.o rxStack.cpp:59:7: warning: variable 'ncols' set but not used [-Wunused-but-set-variable] 59 | int ncols=3; | ^ 1 warning generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rxode2_df.cpp -o rxode2_df.o In file included from rxode2_df.cpp:36: ./../inst/include/rxode2parseGetTime.h:223:9: warning: unused variable 'curEvid' [-Wunused-variable] 223 | int curEvid = getEvid(ind, ind->idose[*endIdx+1]); | ^~~~~~~ 1 warning generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c rxthreefry.cpp -o rxthreefry.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c sbuf.c -o sbuf.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c scaleh.c -o scaleh.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c seed.cpp -o seed.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c solsy.c -o solsy.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c stoda.c -o stoda.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c strdup_printf.c -o strdup_printf.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c strncmp.c -o strncmp.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c strncmpi.c -o strncmpi.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c tran.c -o tran.o In file included from tran.c:155: ./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:94:11: warning: unused variable 'n' [-Wunused-variable] 94 | int n = get_str_assign_int(tb.id, v); | ^ 2 warnings generated. clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c udf.cpp -o udf.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c utilc.c -o utilc.o clang++-19 -std=gnu++17 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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_ -DBOOST_DISABLE_ASSERTS -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION -D_HAS_AUTO_PTR_ETC=0 -D_REENTRANT -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/RcppEigen/include" -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/RcppParallel/include' -D_REENTRANT -DSTAN_THREADS -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/StanHeaders/include/src' -I"/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/Rcpp/include" -fpic -g -O3 -Wall -pedantic -DR_NO_REMAP -c utilcpp.cpp -o utilcpp.o clang-19 -I"/home/hornik/tmp/R-d-clang-19/include" -DNDEBUG -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/sitmo/include' -I'/home/hornik/lib/R/Library/4.5/x86_64-linux-gnu/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 -O3 -Wall -pedantic -c vmnorm.c -o vmnorm.o clang++-19 -std=gnu++17 -shared -L/home/hornik/tmp/R-d-clang-19/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 itostr.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-clang-19/lib -lRblas -L/usr/lib/llvm-19/lib -lFortranRuntime -lFortranDecimal -lm -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 -L/usr/lib/llvm-19/lib -lFortranRuntime -lFortranDecimal -lm -L/home/hornik/tmp/R-d-clang-19/lib -lR installing via 'install.libs.R' to /srv/hornik/tmp/CRAN_pretest/rxode2.Rcheck/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)